Title:
METHODS OF AFFECTING NITROGEN ASSIMILATION IN PLANTS
Kind Code:
A1


Abstract:
Provided herein are compositions and methods for producing transgenic plants. In specific embodiments, transgenic plants comprise a construct comprising a polynucleotide encoding CCA1, GLK1 or bZIP1, operably linked to a plant-specific promote, wherein the CCA1, GLK1 or bZIP1 is ectopically overexpressed in the transgenic plants, and wherein the promoter is optionally a constitutive or inducible promoter. In other embodiments, transgenic plants in which express a lower level of CCA1, GLK1 or bZIP1 are provided. Also provided herein are commercial products (e.g., pulp, paper, paper products, or lumber) derived from the transgenic plants (e.g., transgenic trees) produced using the methods provided herein.



Inventors:
Coruzzi, Gloria (New York, NY, US)
Gutierrez, Rodrigo A. (Santiago, CL)
Nero, Damion C. (Woodside, NY, US)
Application Number:
13/371152
Publication Date:
06/14/2012
Filing Date:
02/10/2012
Assignee:
NEW YORK UNIVERSITY
Primary Class:
Other Classes:
131/352, 162/100, 426/549, 426/615, 426/618, 426/619, 426/622, 426/627, 554/1, 800/298, 800/306, 800/312, 800/316, 800/317, 800/320, 800/320.1, 800/323
International Classes:
A01H5/00; A21D13/00; A23L1/168; A23L7/10; A23L7/196; A23L19/00; A24B13/00; C11B1/00; D21H27/00
View Patent Images:



Primary Examiner:
WORLEY, CATHY KINGDON
Attorney, Agent or Firm:
Jones Day (New York, NY, US)
Claims:
What is claimed is:

1. A transgenic plant that ectopically expresses one or more nitrogen-responsive master regulatory genes and exhibits increased nitrogen-assimilation capacity.

2. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes myb family transcription factor (At1g74840).

3. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes CCA1 (At2g46830).

4. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes GLK1 (At2g20570).

5. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes MYB73 (At4g37260).

6. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes bZIP9 transcription factor family protein (At5g24800).

7. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes bZIP1 family transcription factor (At5g49450).

8. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes proline-rich family protein (At5g14540).

9. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes zinc finger (C3HC4-type RING finger) family protein (At5g48655).

10. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes TGA3 (At1g22070).

11. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes proline-rich family protein (At3g01560).

12. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes HB-6 (At2g22430).

13. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes GLK2 (At5g44190).

14. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes RAP2.6 (At1g43160).

15. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes HB-12 (At3g61890).

16. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes AP2 domain-containing transcription factor family protein similar to RAP2.6 (At5g61890).

17. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes homeobox-leucine zipper family protein (At3g61150).

18. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes WRKY family transcription factor (At2g38470).

19. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes ERF1 (At4g17500).

20. The transgenic plant of claim 1, wherein said one or more nitrogen-responsive master regulatory genes comprises a polynucleotide that encodes WRKY family transcription factor (At2g25000).

21. The transgenic plant of claim 1, wherein the plant is species of woody, ornamental, decorative, crop, cereal, fruit, or vegetable.

22. The transgenic plant of claim 1, wherein said plant is a species of one of the following genuses: Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arabidopsis, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Persea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.

23. A transgenic plant-derived commercial product, which is derived from a transgenic plant according to claim 1, wherein said product comprises said construct.

24. The transgenic plant-derived commercial product of claim 23, wherein said transgenic plant is a tree, and said commercial product is pulp, paper, a paper product, or lumber.

25. The transgenic plant-derived commercial product of claim 23, wherein said transgenic plant is tobacco, and said commercial product is a cigarette, cigar, or chewing tobacco.

26. The transgenic plant-derived commercial product of claim 23, wherein said transgenic plant is a crop, and said commercial product is a fruit or vegetable.

27. The transgenic plant-derived commercial product of claim 23, wherein said transgenic plant is a grain, and said commercial product is bread, flour, cereal, oat meal, or rice.

28. The transgenic plant-derived commercial product of claim 23, wherein said commercial product is a biofuel or plant oil.

Description:

This application is a continuation of U.S. patent application Ser. No. 12/079,001, filed Mar. 24, 2008, which claims the benefit of U.S. Provisional Application No. 60/919,818 filed Mar. 23, 2007, each of which is hereby incorporated by reference herein in its entirety.

1. INTRODUCTION

Provided herein are compositions and methods for affecting nitrogen assimilation, usage and storage by overexpressing or underexpressing certain genes in plants. Such genes include nitrogen-responsive master regulatory control genes CCA1, GLK1 and bZIP1. In some embodiments, provided herein are compositions and methods for genetically engineering plants to increase CCA1 or GLK1 expression or decrease bZIP1 expression, or any combination thereof. In other embodiments, provided herein are compositions and methods for genetically engineering plants to decrease CCA1 or GLK1 expression or increase bZIP1 expression, or any combination thereof. In certain embodiments, the overexpression or underexpression is in a tissue- or cell-specific manner, e.g., in vegetative tissue or in leaves or in fruit or seeds, or in specific cell types (e.g., mesophyll, phloem, etc. In certain specific embodiments, a plant or tree is genetically engineered to increase or constitutively express CCA1 and GLK1 and to decrease expression of bZIP1 in vegetative (growing) tissues of the plant. Such genetically engineered plants are able to assimilate more nitrogen into Gln, such that more nitrogen is available for biosynthesis, and thereby grow larger, more efficiently or rapidly, and/or have increased biomass. Alternatively, the engineered plants may be used to achieve faster growing or maturing crops or, higher crop yields and/or more nutritious products. In certain embodiments, the engineered plants and methods thereof are used in the production of commercial products. Some non-limiting example include genetically engineered trees for e.g., the production of pulp, paper, paper products or lumber; tobacco, e.g., for the production of cigarettes, cigars, or chewing tobacco; crops, e.g., for the production of fruits, vegetables and other food, including grains, e.g., for the production of wheat, bread, flour, rice, corn; and soybean, canola, e.g., for the production of oils or biofuels. In other specific embodiments, a plant or tree is genetically engineered to increase or constitutively express bZIP1 and to decrease expression of CCA1 and GLK1 in leaves, fruit and/or seed tissues of the plant. This would serve to increase N-assimilation into Asn, an inert N-storage compound used to transport N to seed, for example.

2. BACKGROUND

Nitrate is a key required nutrient for the synthesis of amino acids, nucleotides and vitamins and is commonly considered to be the most limiting for normal plant growth (Vitousek et al., 2004, Biogeochemistry 13). Nitrogenous fertilizer is usually supplied as ammonium nitrate, potassium nitrate, or urea. Plants are keenly sensitive to nitrogen levels in the soil and, atypically of animal development, adopt their body plan to cope with their environment (Lopez-Bucio et al., 2003, Curr Opin Plant Biol 6:280-287; Malamy et al., 2005, Plant Cell Environ 28:67-77; Walch-Liu et al., 2006, Ann Bot (Lond) 97:875-81). For example, mutants in several general nitrogen (N)-assimilation genes affect root architecture (Little et al., 2005, Proc Natl Acad Sci USA 102:13693-13698; Remans et al., 2006, Proc Natl Acad Sci USA 103:19206-19211). Transduction of this nitrogen signal is linked to a massive and concerted gene expression response in the root (Gutierrez et al., 2007, Genome Biol 8:R7; Wang et al., 2003, Plant Physiol 132:556-67).

Studies on the regulation of genes involved in the N-assimilatory pathway have shown that genes involved in N-assimilation are regulated transcriptionally by both inorganic and organic forms of nitrogen (FIG. 1). Genes involved in the uptake and reduction of nitrate (NIA, NIR) are transcriptionally induced by nitrate. By contrast, the glutamine synthetase gene (GLN1.3) involved in assimilating inorganic N into organic form (Gln), is transcriptionally repressed by the endproducts of N-assimilation (Glu/Gln) (FIG. 1). The repression of GLN1.3 expression by the product of the GS enzyme reaction serves as a negative feedback loop, that shuts off further assimilation of inorganic N into Gln, when levels of Gln are abundant. As GS is and ATP dependent enzyme, this is likely to be an energy conservation mechanism. By contrast, Gln/Glu levels activate the expression of the ASN1 gene (asparagine synthetase) which serves to transfer the amide N from Gln onto Asp to make Asn and Glu as a by-product. Asn is an inert amino acid used to store N and used for long distance N-transport (e.g., to seed). The induction of ASN1 by Glu/Gln is a mechanism that serves to store excess N as Asn, which is used to transport N to seed.

It would be advantageous to produce plants that would continue to assimilate and utilize N or to store N depending on whether a vegetative plant part or seed is the product, respectively, making N-assimilation independent of the Glu/Gln biofeedback pathway. N-assimilated into Glu/Gln by GS is used in the biosynthesis of all N-containing compounds including essentially all other amino acids, nucleic acids and chlorophyll. By contrast, the conversion of Gln to Asn (an inert N source) is used to transport and store N in seed.

3. SUMMARY

Master control genes (CCA1, GLK1, and bZIP11) that control N-assimilation in response to Glu sensing have been identified in the present invention. As these genes are transcription factor hubs, they coordinate the N-regulation of the N-assimilatory gene network, with genome-wide responses associated with growth and development in plants. Thus, effecting genome-wide changes in N-assimilation, plant growth and development, by the transgenic manipulation of these master control genes in plants will effect nitrogen use efficiency in vegetative tissues (leaves & roots) and also in seed. Changes in levels of N-assimilated into Gln effect changes in growth of vegetative tissues, while changes in levels of Asn affect seed development and nitrogen content.

Thus, the present invention relates to the transgenic manipulation of these N-responsive master regulatory genes (CCA1, GLK1, and bZIP11) that control N-assimilation, and other related processes in response to N treatments, so as to increase the overall N-assimilation capacity, whether for increased N usage or N storage. The overexpression of these master control genes (e.g., uncoupled from Glu repression) effectively releases N-assimilation from the feedback repression loop by Glu-leading to increased N-assimilation and usage. As these regulatory genes serve to respond to Glu levels by reciprocally regulating the amount of N-assimilated into Gln versus the amount of Gln metabolized to Asn (for N-storage and transport), the manipulation of these genes in transgenic plants can be used to optimize N-assimilation into Gln versus Asn (FIG. 2, FIG. 12). Increased N-assimilation is advantageous in all crops. Additionally, in seed crops, the increased synthesis of Asn increases N-transported and stored in seed. The genes, CCA1, GLK1 and/or bZIP1, can be expressed using constitutive promoters. Alternately, developmentally regulated promoters can be used to over express CCA1 and/or GLK1 that favors Gln production early in the life cycle, while switching to overexpressing bZIP1 which favors Asn production later in the life cycle (e.g., during seed set). Further, underexpressing CCA1 and/or GLK1 favors Asn production and underexpressing bZIP1 favors Gln production.

As CCA1/GLK1 and bZIP11 are master regulatory genes controlling genes in the N-assimilatory pathway as well as other processes, the manipulation of these genes in transgenic plants can coordinate an increase in N-assimilation and usage (increased Gln synthesis), and/or an increase in stored N (increased Asn synthesis) with genes controlling aspects of growth and development, that are also targets for these master regulatory genes.

Thus, in one embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising overexpressing GLK1 in the plant. In another embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising overexpressing CCA1 in the plant. In yet another embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising underexpressing bZIP1 in the plant.

In another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1 and GLK1 in the plant. In another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1 and underexpressing bZIP1 in the plant, or overexpressing GLK1 and underexpressing bZIP1 in the plant. In yet another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1, overexpressing GLK1 and underexpressing bZIP1 in the plant.

The present invention is also directed to methods for altering nitrogen assimilation and storage, e.g., increasing nitrogen storage, in a plant. In one embodiment, the method comprises overexpressing bZIP1 in the plant. In another embodiment, the method comprises underexpressing CCA1 in the plant and/or underexpressing GLK1 in the plant. In another embodiment, the method overexpressing bZIP1 and underexpressing CCA1 and/or GLK1 in the plant. In yet another embodiment, the method comprises overexpressing bZIP1, and underexpressing CCA1 and underexpressing GLK1 in the plant.

In certain embodiments, the plant is species of woody, ornamental, decorative, crop, cereal, fruit, or vegetable. In other embodiments, the plant is a species of one of the following genuses: Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arabidopsis, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Persea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.

The overexpression of a particular gene can be accomplished by any method known in the art, for example, by transforming a plant cell with a nucleic acid vector comprising the coding sequences of the desired gene operably linked to a promoter active in a plant cell such that the desired gene is expressed at levels higher than normal, i.e., levels found in a control/nontransgenic plant. Such promoters can be constitutively active in all or some plant tissues or can be inducible.

The underexpression of a desired gene can be accomplished by any method known in the art, such as knocking out the gene or mutating the gene transgenically such that lower than normal levels of the gene product is produced in the transgenic cells or plant. For example, such mutations include frame-shift mutations or mutations resulting in a stop codon in the wild-type coding sequence, thus preventing expression of the gene product. Another exemplary mutation would be the removal of the transcribed sequences from the plant genome, for example, by homologous recombination. Another method for underexpressing a gene is transgenically introducing an insertion or deletion into the transcribed sequence or an insertion or deletion upstream or downstream of the transcribed sequence such that expression of the gene product is decreased as compared to wild-type or appropriate control. Additionally, microRNA can be used to target a particular encoding mRNA for degradation, thus reducing the level of the expressed gene product in the transgenic plant cell.

The present invention is also directed to a transgenic plant produced by any of the foregoing methods.

The present invention is also directed to compositions for modulating gene expression in plants. The compositions comprise constructs for the expression of CCA1, GLK1 or bZIP1. In certain embodiments, a construct of the invention comprises a promoter, such as a tissue specific promoter, which is expressed in a plant cell, such as a leaf cell, and promotes the expression of CCA1, GLK1 or bZIP1.

Any of a variety of promoters can be utilized in the constructs of the invention depending on the desired outcome. Tissue-specific or tissue-preferred promoters, inducible promoters, developmental promoters, constitutive promoters and/or chimeric promoters can be used to direct expression of the gene product in specific cells or organs the plant, when fused to the appropriate cell or organ specific promoter.

Chimeric constructs expressing CCA1, GLK1 or bZIP1 in transgenic plants (using constitutive or inducible promoters) can be used in the compositions and methods provided herein to enhance nitrogen assimilation and usage or increase nitrogen storage.

The present invention is also directed to a transgenic plant-derived commercial product. In one embodiment, the transgenic plant is a tree, and said commercial product is pulp, paper, a paper product, or lumber. In another embodiment, the transgenic plant is tobacco, and said commercial product is a cigarette, cigar, or chewing tobacco. In yet another embodiment, the transgenic plant is a crop, and said commercial product is a fruit or vegetable. In yet another embodiment, the transgenic plant is a grain, and said commercial product is bread, flour, cereal, oat meal, or rice. In another embodiment, the product is a biofuel or a plant oil.

4. TERMINOLOGY

Units, prefixes, and symbols may be denoted in their SI accepted form. Unless otherwise indicated, nucleic acids are written left to right in 5′ to 3′ orientation; amino acid sequences are written left to right in amino to carboxyl orientation, respectively. Numeric ranges recited within the specification are inclusive of the numbers defining the range and include each integer within the defined range. Amino acids may be referred to herein by either their commonly known three letter symbols or by the one-letter symbols recommended by the IUPAC-IUB Biochemical Nomenclature Commission. Nucleotides, likewise, may be referred to by their commonly accepted single-letter codes. Unless otherwise provided for, software, electrical, and electronics terms as used herein are as defined in The New IEEE Standard Dictionary of Electrical and Electronics Terms (5th edition, 1993). The terms defined below are more fully defined by reference to the specification as a whole.

As used herein, the term “agronomic” includes, but is not limited to, changes in root size, vegetative yield, seed yield or overall plant growth. Other agronomic properties include factors desirable to agricultural production and business.

By “amplified” is meant the construction of multiple copies of a nucleic acid sequence or multiple copies complementary to the nucleic acid sequence using at least one of the nucleic acid sequences as a template. Amplification systems include the polymerase chain reaction (PCR) system, ligase chain reaction (LCR) system, nucleic acid sequence based amplification (NASBA, Cangene, Mississauga, Ontario), Q-Beta Replicase systems, transcription-based amplification system (TAS), and strand displacement amplification (SDA). See, e.g., Diagnostic Molecular Microbiology: Principles and Applications, D. H. Persing et al., Ed., 1993, American Society for Microbiology, Washington, D.C. The product of amplification is termed an amplicon.

As used herein, “antisense orientation” includes reference to a duplex polynucleotide sequence that is operably linked to a promoter in an orientation where the antisense strand is transcribed. The antisense strand is sufficiently complementary to an endogenous transcription product such that translation of the endogenous transcription product is often inhibited.

In its broadest sense, a “delivery system,” as used herein, is any vehicle capable of facilitating delivery of a nucleic acid (or nucleic acid complex) to a cell and/or uptake of the nucleic acid by the cell.

The term “ectopic” is used herein to mean abnormal subcellular (e.g., switch between organellar and cytosolic localization), cell-type, tissue-type and/or developmental or temporal expression (e.g., light/dark) patterns for the particular gene or enzyme in question. Such ectopic expression does not necessarily exclude expression in tissues or developmental stages normal for said enzyme but rather entails expression in tissues or developmental stages not normal for the said enzyme.

By “endogenous nucleic acid sequence” and similar terms, it is intended that the sequences are natively present in the recipient plant genome and not substantially modified from its original form.

The term “exogenous nucleic acid sequence” as used herein refers to a nucleic acid foreign to the recipient plant host or, native to the host if the native nucleic acid is substantially modified from its original form. For example, the term includes a nucleic acid originating in the host species, where such sequence is operably linked to a promoter that differs from the natural or wild-type promoter.

By “encoding” or “encoded”, with respect to a specified nucleic acid, is meant comprising the information for translation into the specified protein. A nucleic acid encoding a protein may comprise non-translated sequences (e.g., introns) within translated regions of the nucleic acid, or may lack such intervening non-translated sequences (e.g., as in cDNA). The information by which a protein is encoded is specified by the use of codons. Typically, the amino acid sequence is encoded by the nucleic acid using the “universal” genetic code. However, variants of the universal code, such as are present in some plant, animal, and fungal mitochondria, the bacterium Mycoplasma capricolum, or the ciliate Macronucleus, may be used when the nucleic acid is expressed therein.

When the nucleic acid is prepared or altered synthetically, advantage can be taken of known codon preferences of the intended host where the nucleic acid is to be expressed. For example, although nucleic acid sequences of the present invention may be expressed in both monocotyledonous and dicotyledonous plant species, sequences can be modified to account for the specific codon preferences and GC content preferences of monocotyledons or dicotyledons as these preferences have been shown to differ (Murray et al., 1989, Nucl. Acids Res. 17: 477-498). Thus, the maize preferred codon for a particular amino acid may be derived from known gene sequences from maize. Maize codon usage for 28 genes from maize plants is listed in Table 4 of Murray et al., supra.

By “fragment” is intended a portion of the nucleotide sequence. Fragments of the modulator sequence will generally retain the biological activity of the native suppressor protein. Alternatively, fragments of the targeting sequence may or may not retain biological activity. Such targeting sequences may be useful as hybridization probes, as antisense constructs, or as co-suppression sequences. Thus, fragments of a nucleotide sequence may range from at least about 20 nucleotides, about 50 nucleotides, about 100 nucleotides, and up to the full-length nucleotide sequence of the invention.

As used herein “full-length sequence” in reference to a specified polynucleotide or its encoded protein means having the entire amino acid sequence of, a native (non-synthetic), endogenous, biologically active form of the specified protein. Methods to determine whether a sequence is full-length are well known in the art including such exemplary techniques as northern or western blots, primer extension, 51 protection, and ribonuclease protection. See, e.g., Plant Molecular Biology: A Laboratory Manual, Clark, Ed., 1997, Springer-Verlag, Berlin. Comparison to known full-length homologous (orthologous and/or paralogous) sequences can also be used to identify full-length sequences of the present invention. Additionally, consensus sequences typically present at the 5′ and 3′ untranslated regions of mRNA aid in the identification of a polynucleotide as full-length. For example, the consensus sequence ANNNNAUGG, where the underlined codon represents the N-terminal methionine, aids in determining whether the polynucleotide has a complete 5′ end. Consensus sequences at the 3′ end, such as polyadenylation sequences, aid in determining whether the polynucleotide has a complete 3′ end.

The term “gene activity” refers to one or more steps involved in gene expression, including transcription, translation, and the functioning of the protein encoded by the gene.

The term “genetic modification” as used herein refers to the introduction of one or more exogenous nucleic acid sequences, e.g., CCA1, GLK1 or bZIP1 encoding sequences, as well as regulatory sequences, into one or more plant cells, which in certain cases can generate whole, sexually competent, viable plants. The term “genetically modified” or “genetically engineered” as used herein refers to a plant which has been generated through the aforementioned process. Genetically modified plants of the invention are capable of self-pollinating or cross-pollinating with other plants of the same species so that the foreign gene, carried in the germ line, can be inserted into or bred into agriculturally useful plant varieties.

As used herein, “heterologous” in reference to a nucleic acid is a nucleic acid that originates from a foreign species, or, if from the same species, is substantially modified from its native form in composition and/or genomic locus by deliberate human intervention. For example, a promoter operably linked to a heterologous structural gene is from a species different from that from which the structural gene was derived, or, if from the same species, one or both are substantially modified from their original form. A heterologous protein may originate from a foreign species or, if from the same species, is substantially modified from its original form by deliberate human intervention.

By “host cell” is meant a cell that contains a vector and supports the replication and/or expression of the vector. Host cells may be prokaryotic cells such as E. coli, or eukaryotic cells such as yeast, plant, insect, amphibian, or mammalian cells. Preferably, host cells are monocotyledonous or dicotyledonous plant cells. A particularly preferred monocotyledonous host cell is a maize host cell.

The term “introduced” in the context of inserting a nucleic acid into a cell, means “transfection” or “transformation” or “transduction” and includes reference to the incorporation of a nucleic acid into a eukaryotic or prokaryotic cell where the nucleic acid may be incorporated into the genome of the cell (e.g., chromosome, plasmid, plastid or mitochondrial DNA), converted into an autonomous replicon, or transiently expressed (e.g., transfected mRNA).

The term “isolated” refers to material, such as a nucleic acid or a protein, which is: (1) substantially or essentially free from components which normally accompany or interact with it as found in its natural environment. The isolated material optionally comprises material not found with the material in its natural environment; or (2) if the material is in its natural environment, the material has been synthetically altered or synthetically produced by deliberate human intervention and/or placed at a different location within the cell. The synthetic alteration or creation of the material can be performed on the material within or apart from its natural state. For example, a naturally-occurring nucleic acid becomes an isolated nucleic acid if it is altered or produced by non-natural, synthetic methods, or if it is transcribed from DNA which has been altered or produced by non-natural, synthetic methods. See, e.g., Compounds and Methods for Site Directed Mutagenesis in Eukaryotic Cells, Kmiec, U.S. Pat. No. 5,565,350; In vivo Homologous Sequence Targeting in Eukaryotic Cells; Zarling et al., PCT/US93/03868. The isolated nucleic acid may also be produced by the synthetic re-arrangement (“shuffling”) of a part or parts of one or more allelic forms of the gene of interest. Likewise, a naturally-occurring nucleic acid (e.g., a promoter) becomes isolated if it is introduced to a different locus of the genome. Nucleic acids which are “isolated,” as defined herein, are also referred to as “heterologous” nucleic acids.

As used herein, the term “marker” refers to a gene encoding a trait or a phenotype which permits the selection of, or the screening for, a plant or plant cell containing the marker.

As used herein, “nucleic acid” includes reference to a deoxyribonucleotide or ribonucleotide polymer, or chimeras thereof, in either single- or double-stranded form, and unless otherwise limited, encompasses known analogues having the essential nature of natural nucleotides in that they hybridize to single-stranded nucleic acids in a manner similar to naturally occurring nucleotides (e.g., peptide nucleic acids).

By “nucleic acid library” is meant a collection of isolated DNA or RNA molecules which comprise and substantially represent the entire transcribed fraction of a genome of a specified organism or of a tissue from that organism. Construction of exemplary nucleic acid libraries, such as genomic and cDNA libraries, is taught in standard molecular biology references such as Berger and Kimmel, Guide to Molecular Cloning Techniques, Methods in Enzymology, Vol. 152, Academic Press, Inc., San Diego, Calif. (Berger); Sambrook et al., 1989, Molecular Cloning—A Laboratory Manual, 2nd ed., Vol. 1-3; and Current Protocols in Molecular Biology, F. M. Ausubel et al., Eds., 1994, Current Protocols, a joint venture between Greene Publishing Associates, Inc. and John Wiley & Sons, Inc.

As used herein “operably linked” includes reference to a functional linkage between a promoter and a second sequence, wherein the promoter sequence initiates and mediates transcription of the DNA sequence corresponding to the second sequence. Generally, operably linked means that the nucleic acid sequences being linked are contiguous and, where necessary to join two protein coding regions, contiguous and in the same reading frame.

He term “orthologous” as used herein describes a relationship between two or more polynucleotides or proteins. Two polynucleotides or proteins are “orthologous” to one another if they are derived from a common ancestral gene and serve a similar function in different organisms. In general, orthologous polynucleotides or proteins will have similar catalytic functions (when they encode enzymes) or will serve similar structural functions (when they encode proteins or RNA that form part of the ultrastructure of a cell).

The term “overexpression” is used herein to mean above the normal expression level in the particular tissue, all and/or developmental or temporal stage for said enzyme/expressed protein product.

As used herein, the term “plant” is used in its broadest sense, including, but is not limited to, any species of woody, ornamental or decorative, crop or cereal, fruit or vegetable plant, and algae (e.g., Chlamydomonas reinhardtii). Non-limiting examples of plants include plants from the genus Arabidopsis or the genus Oryza. Other examples include plants from the genuses Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Persea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.” Plants included in the invention are any plants amenable to transformation techniques, including gymnosperms and angiosperms, both monocotyledons and dicotyledons. Examples of monocotyledonous angiosperms include, but are not limited to, asparagus, field and sweet corn, barley, wheat, rice, sorghum, onion, pearl millet, rye and oats and other cereal grains. Examples of dicotyledonous angiosperms include, but are not limited to tomato, tobacco, cotton, rapeseed, field beans, soybeans, peppers, lettuce, peas, alfalfa, clover, cole crops or Brassica oleracea (e.g., cabbage, broccoli, cauliflower, brussel sprouts), radish, carrot, beets, eggplant, spinach, cucumber, squash, melons, cantaloupe, sunflowers and various ornamentals. Examples of woody species include poplar, pine, sequoia, cedar, oak, etc. Still other examples of plants include, but are not limited to, wheat, cauliflower, tomato, tobacco, corn, petunia, trees, etc. As used herein, the term “cereal crop” is used in its broadest sense. The term includes, but is not limited to, any species of grass, or grain plant (e.g., barley, corn, oats, rice, wild rice, rye, wheat, millet, sorghum, triticale, etc.), non-grass plants (e.g., buckwheat flax, legumes or soybeans, etc.). As used herein, the term “crop” or “crop plant” is used in its broadest sense. The term includes, but is not limited to, any species of plant or algae edible by humans or used as a feed for animals or used, or consumed by humans, or any plant or algae used in industry or commerce. As used herein, the term “plant” also refers to either a whole plant, a plant part, or organs (e.g., leaves, stems, roots, etc.), a plant cell, or a group of plant cells, such as plant tissue, plant seeds and progeny of same. Plantlets are also included within the meaning of “plant.” The class of plants which can be used in the methods of the invention is generally as broad as the class of higher plants amenable to transformation techniques, including both monocotyledonous and dicotyledonous plants.

The term “plant cell” as used herein refers to protoplasts, gamete producing cells, and cells which regenerate into whole plants. Plant cell, as used herein, further includes, without limitation, cells obtained from or found in: seeds, suspension cultures, embryos, meristematic regions, callus tissue, leaves, roots, shoots, gametophytes, sporophytes, pollen, and microspores. Plant cells can also be understood to include modified cells, such as protoplasts, obtained from the aforementioned tissues.

As used herein, “polynucleotide” includes reference to a deoxyribopolynucleotide, ribopolynucleotide, or chimeras or analogs thereof that have the essential nature of a natural deoxy- or ribo-nucleotide in that they hybridize, under stringent hybridization conditions, to substantially the same nucleotide sequence as naturally occurring nucleotides and/or allow translation into the same amino acid(s) as the naturally occurring nucleotide(s). A polynucleotide can be full-length or a subsequence of a native or heterologous structural or regulatory gene. Unless otherwise indicated, the term includes reference to the specified sequence as well as the complementary sequence thereof. Thus, DNAs or RNAs with backbones modified for stability or for other reasons are “polynucleotides” as that term is intended herein. Moreover, DNAs or RNAs comprising unusual bases, such as inosine, or modified bases, such as tritylated bases, to name just two examples, are polynucleotides as the term is used herein. It will be appreciated that a great variety of modifications have been made to DNA and RNA that serve many useful purposes known to those of skill in the art. The term polynucleotide as it is employed herein embraces such chemically-, enzymatically- or metabolically-modified forms of polynucleotides, as well as the chemical forms of DNA and RNA characteristic of viruses and cells, including among other things, simple and complex cells.

The terms “polypeptide”, “peptide” and “protein” are used interchangeably herein to refer to a polymer of amino acid residues. The terms apply to amino acid polymers in which one or more amino acid residue is an artificial chemical analogue of a corresponding naturally-occurring amino acid, as well as to naturally-occurring amino acid polymers. The essential nature of such analogues of naturally-occurring amino acids is that, when incorporated into a protein, that protein is specifically reactive to antibodies elicited to the same protein but consisting entirely of naturally occurring amino acids. The terms “polypeptide”, “peptide” and “protein” are also inclusive of modifications including, but not limited to, glycosylation, lipid attachment, sulfation, gamma-carboxylation of glutamic acid residues, hydroxylation and ADP-ribosylation. Further, this invention contemplates the use of both the methionine-containing and the methionine-less amino terminal variants of the protein of the invention.

As used herein “promoter” includes reference to a region of DNA upstream from the start of transcription and involved in recognition and binding of RNA polymerase and other proteins to initiate transcription. A “plant promoter” is a promoter capable of initiating transcription in plant cells whether or not its origin is a plant cell. Exemplary plant promoters include, but are not limited to, those that are obtained from plants, plant viruses, and bacteria which comprise genes expressed in plant cells such Agrobacterium or Rhizobium. Examples of promoters under developmental control include promoters that preferentially initiate transcription in certain tissues, such as leaves, roots, or seeds. Such promoters are referred to as “tissue preferred.” Promoters which initiate transcription only in certain tissue are referred to as “tissue specific.” A “cell type” specific promoter primarily drives expression in certain cell types in one or more organs, for example, vascular cells in roots or leaves. An “inducible” or “repressible” promoter is a promoter which is under environmental control. Examples of environmental conditions that may effect transcription by inducible promoters include anaerobic conditions or the presence of light. Tissue specific, tissue preferred, cell type specific, and inducible promoters represent the class of “non-constitutive” promoters. A “constitutive” promoter is a promoter which is active under most environmental conditions.

As used herein “recombinant” includes reference to a cell or vector that has been modified by the introduction of a heterologous nucleic acid, or to a cell derived from a cell so modified. Thus, for example, recombinant cells express genes that are not found in identical form within the native (non-recombinant) form of the cell, or exhibit altered expression of native genes, as a result of deliberate human intervention. The term “recombinant” as used herein does not encompass the alteration of the cell or vector by events (e.g., spontaneous mutation, natural transformation, transduction, or transposition) occurring without deliberate human intervention.

As used herein, a “recombinant expression cassette” is a nucleic acid construct, generated recombinantly or synthetically, with a series of specified nucleic acid elements which permit transcription of a particular nucleic acid in a host cell. The recombinant expression cassette can be incorporated into a plasmid, chromosome, mitochondrial DNA, plastid DNA, virus, or nucleic acid fragment. Typically, the recombinant expression cassette portion of an expression vector includes, among other sequences, a nucleic acid to be transcribed, and a promoter.

The term “regulatory sequence” as used herein refers to a nucleic acid sequence capable of controlling the transcription of an operably associated gene. Therefore, placing a gene under the regulatory control of a promoter or a regulatory element means positioning the gene such that the expression of the gene is controlled by the regulatory sequence(s). Because a microRNA binds to its target, it is a post transcriptional mechanism for regulating levels of mRNA. Thus, an miRNA can also be considered a “regulatory sequence” herein. Not just transcription factors.

The term “residue” or “amino acid residue” or “amino acid” are used interchangeably herein to refer to an amino acid that is incorporated into a protein, polypeptide, or peptide (collectively “protein”). The amino acid may be a naturally occurring amino acid and, unless otherwise limited, may encompass non-natural analogs of natural amino acids that can function in a similar manner as naturally occurring amino acids.

The term “tissue-specific promotor” is a polynucleotide sequence that specifically binds to transcription factors expressed primarily or only in such specific tissue.

The term “selectively hybridizes” includes reference to hybridization, under stringent hybridization conditions, of a nucleic acid sequence to a specified nucleic acid target sequence to a detectably greater degree (e.g., at least 2-fold over background) than its hybridization to non-target nucleic acid sequences and to the substantial exclusion of non-target nucleic acids. Selectively hybridizing sequences typically have about at least 80% sequence identity, preferably 90% sequence identity, and most preferably 100% sequence identity (i.e., complementary) with each other.

As used herein, a “stem-loop motif” or a “stem-loop structure,” sometimes also referred to as a “hairpin structure,” is given its ordinary meaning in the art, i.e., in reference to a single nucleic acid molecule having a secondary structure that includes a double-stranded region (a “stem” portion) composed of two regions of nucleotides (of the same molecule) forming either side of the double-stranded portion, and at least one “loop” region, comprising uncomplemented nucleotides (i.e., a single-stranded region).

The term “stringent conditions” or “stringent hybridization conditions” includes reference to conditions under which a probe will selectively hybridize to its target sequence, to a detectably greater degree than to other sequences (e.g., at least 2-fold over background). Stringent conditions are sequence-dependent and will be different in different circumstances. By controlling the stringency of the hybridization and/or washing conditions, target sequences can be identified which are 100% complementary to the probe (homologous probing). Alternatively, stringency conditions can be adjusted to allow some mismatching in sequences so that lower degrees of similarity are detected (heterologous probing). Generally, a probe is less than about 1000 nucleotides in length, optionally less than 500 nucleotides in length.

Typically, stringent conditions will be those in which the salt concentration is less than about 1.5 M Na ion, typically about 0.01 to 1.0 M Na ion concentration (or other salts) at pH 7.0 to 8.3 and the temperature is at least about 30° C. for short probes (e.g., 10 to 50 nucleotides) and at least about 60° C. for long probes (e.g., greater than 50 nucleotides). Stringent conditions may also be achieved with the addition of destabilizing agents such as formamide. Exemplary low stringency conditions include hybridization with a buffer solution of 30 to 35% formamide, 1 M NaCl, 1% SDS (sodium dodecyl sulphate) at 37° C., and a wash in 1× to 2×SSC (20×SSC=3.0 M NaCl/0.3 M trisodium citrate) at 50 to 55° C. Exemplary moderate stringency conditions include hybridization in 40 to 45% formamide, 1 M NaCl, 1% SDS at 37° C., and a wash in 0.5× to 1×SSC at 55 to 60° C. Exemplary high stringency conditions include hybridization in 50% formamide, 1 M NaCl, 1% SDS at 37° C., and a wash in 0.1×SSC at 60 to 65° C.

Specificity is typically the function of post-hybridization washes, the critical factors being the ionic strength and temperature of the final wash solution. For DNA-DNA hybrids, the Tm can be approximated from the equation of Meinkoth and Wahl, 1984, Anal. Biochem., 138:267-284: Tm=81.5° C.+16.6 (log M)+0.41 (% GC)−0.61 (% form)−500/L; where M is the molarity of monovalent cations, % GC is the percentage of guanosine and cytosine nucleotides in the DNA, % form is the percentage of formamide in the hybridization solution, and L is the length of the hybrid in base pairs. The Tm is the temperature (under defined ionic strength and pH) at which 50% of a complementary target sequence hybridizes to a perfectly matched probe. Tm is reduced by about 1° C. for each 1% of mismatching; thus, Tm, hybridization and/or wash conditions can be adjusted to hybridize to sequences of the desired identity. For example, if sequences with ≧90% identity are sought, the Tm can be decreased 10° C. Generally, stringent conditions are selected to be about 5° C. lower than the thermal melting point (Tm) for the specific sequence and its complement at a defined ionic strength and pH. However, severely stringent conditions can utilize a hybridization and/or wash at 1, 2, 3, or 4° C. lower than the thermal melting point (Tm); moderately stringent conditions can utilize a hybridization and/or wash at 6, 7, 8, 9, or 10° C. lower than the thermal melting point (Tm); low stringency conditions can utilize a hybridization and/or wash at 11, 12, 13, 14, 15, or 20° C. lower than the thermal melting point (Tm). Using the equation, hybridization and wash compositions, and desired Tm, those of ordinary skill will understand that variations in the stringency of hybridization and/or wash solutions are inherently described. If the desired degree of mismatching results in a Tm of less than 45° C. (aqueous solution) or 32° C. (formamide solution) it is preferred to increase the SSC concentration so that a higher temperature can be used. An extensive guide to the hybridization of nucleic acids is found in Tijssen, 1993, Laboratory Techniques in Biochemistry and Molecular Biology—Hybridization with Nucleic Acid Probes, Part I, Chapter 2 “Overview of principles of hybridization and the strategy of nucleic acid probe assays”, Elsevier, New York; and Current Protocols in Molecular Biology, Chapter 2, Ausubel et al., Eds., 1995, Greene Publishing and Wiley-Interscience, New York. Hybridization and/or wash conditions can be applied for at least 10, 30, 60, 90, 120, or 240 minutes.

As used herein, “transcription factor” includes reference to a protein which interacts with a DNA regulatory element to affect expression of a structural gene or expression of a second regulatory gene. “Transcription factor” may also refer to the DNA encoding said transcription factor protein. The function of a transcription factor may include activation or repression of transcription initiation.

The term “transfection,” as used herein, refers to the introduction of a nucleic acid into a cell, for example, a nucleotide sequence able to be transcribed to produce CCA1, GLK1 or BZIP1 protein.

As used herein, the term “transformation” means alteration of the genotype of a host plant by the introduction of a CCA1, GLK1 or BZIP1 nucleic acid sequence.

As used herein, “transgenic plant” includes reference to a plant which comprises within its genome a heterologous polynucleotide. Generally, the heterologous polynucleotide is stably integrated within the genome such that the polynucleotide is passed on to successive generations. The heterologous polynucleotide may be integrated into the genome alone or as part of a recombinant expression cassette. “Transgenic” is used herein to include any cell, cell line, callus, tissue, plant part or plant, the genotype of which has been altered by the presence of heterologous nucleic acid including those transgenics initially so altered as well as those created by sexual crosses or asexual propagation from the initial transgenic. The term “transgenic” as used herein does not encompass the alteration of the genome (chromosomal or extra-chromosomal) by conventional plant breeding methods or by naturally occurring events such as random cross-fertilization, non-recombinant viral infection, non-recombinant bacterial transformation, non-recombinant transposition, or spontaneous mutation.

The term “underexpression” is used herein to mean below the normal expression level in the particular tissue, all and/or developmental or temporal stage for said enzyme/expressed protein product.

As used herein, “vector” includes reference to a nucleic acid used in introduction of a polynucleotide of the present invention into a host cell. Vectors are often replicons. Expression vectors permit transcription of a nucleic acid inserted therein.

The following terms are used to describe the sequence relationships between a polynucleotide/polypeptide of the present invention with a reference polynucleotide/polypeptide: (a) “reference sequence”, (b) “comparison window”, (c) “sequence identity”, and (d) “percentage of sequence identity”.

(a) As used herein, “reference sequence” is a defined sequence used as a basis for sequence comparison with a polynucleotide/polypeptide of the present invention. A reference sequence may be a subset or the entirety of a specified sequence; for example, as a segment of a full-length cDNA or gene sequence, or the complete cDNA or gene sequence.

(b) As used herein, “comparison window” includes reference to a contiguous and specified segment of a polynucleotide/polypeptide sequence, wherein the polynucleotide/polypeptide sequence may be compared to a reference sequence and wherein the portion of the polynucleotide/polypeptide sequence in the comparison window may comprise additions or deletions (i.e., gaps) compared to the reference sequence (which does not comprise additions or deletions) for optimal alignment of the two sequences. Generally, the comparison window is at least 20 contiguous nucleotides/amino acids residues in length, and optionally can be 30, 40, 50, 100, or longer. Those of skill in the art understand that to avoid a high similarity to a reference sequence due to inclusion of gaps in the polynucleotide/polypeptide sequence, a gap penalty is typically introduced and is subtracted from the number of matches.

Methods of alignment of sequences for comparison are well-known in the art. Optimal alignment of sequences for comparison may be conducted by the local homology algorithm of Smith and Waterman, 1981, Adv. Appl. Math. 2: 482; by the homology alignment algorithm of Needleman and Wunsch, 1970, J. Mol. Biol. 48: 443; by the search for similarity method of Pearson and Lipman, 1988, Proc. Natl. Acad. Sci. 85: 2444; by computerized implementations of these algorithms, including, but not limited to: CLUSTAL in the PC/Gene program by Intelligenetics, Mountain View, Calif.; GAP, BESTFIT, BLAST, FASTA, and TFASTA in the Wisconsin Genetics Software Package, Genetics Computer Group (GCG), 575 Science Dr., Madison, Wis., USA; the CLUSTAL program is well described by Higgins and Sharp, 1988, Gene 73: 237-244; Higgins and Sharp, 1989, CABIOS 5: 151-153; Corpet et al., 1988, Nucleic Acids Research 16: 10881-90; Huang et al., 1992, Computer Applications in the Biosciences 8: 155-65; and Pearson et al., 1994, Methods in Molecular Biology 24: 307-331.

The BLAST family of programs which can be used for database similarity searches includes: BLASTN for nucleotide query sequences against nucleotide database sequences; BLASTX for nucleotide query sequences against protein database sequences; BLASTP for protein query sequences against protein database sequences; TBLASTN for protein query sequences against nucleotide database sequences; and TBLASTX for nucleotide query sequences against nucleotide database sequences. See, Current Protocols in Molecular Biology, Chapter 19, Ausubel et al., Eds., 1995, Greene Publishing and Wiley-Interscience, New York.

Software for performing BLAST analyses is publicly available, e.g., through the National Center for Biotechnology Information (world-wide web at ncbi.nlm.nih.gov). This algorithm involves first identifying high scoring sequence pairs (HSPs) by identifying short words of length W in the query sequence, which either match or satisfy some positive-valued threshold score T when aligned with a word of the same length in a database sequence. T is referred to as the neighborhood word score threshold. These initial neighborhood word hits act as seeds for initiating searches to find longer HSPs containing them. The word hits are then extended in both directions along each sequence for as far as the cumulative alignment score can be increased. Cumulative scores are calculated using, for nucleotide sequences, the parameters M (reward score for a pair of matching residues; always >0) and N (penalty score for mismatching residues; always <0). For amino acid sequences, a scoring matrix is used to calculate the cumulative score. Extension of the word hits in each direction are halted when: the cumulative alignment score falls off by the quantity X from its maximum achieved value; the cumulative score goes to zero or below, due to the accumulation of one or more negative-scoring residue alignments; or the end of either sequence is reached. The BLAST algorithm parameters W, T, and X determine the sensitivity and speed of the alignment. The BLASTN program (for nucleotide sequences) uses as defaults a wordlength (W) of 11, an expectation (E) of 10, a cutoff of 100, M=5, N=−4, and a comparison of both strands. For amino acid sequences, the BLASTP program uses as defaults a wordlength (W) of 3, an expectation (E) of 10, and the BLOSUM62 scoring matrix (see Henikoff & Henikoff, 1989, Proc. Natl. Acad. Sci. USA 89:10915).

In addition to calculating percent sequence identity, the BLAST algorithm also performs a statistical analysis of the similarity between two sequences (see, e.g., Karlin & Altschul, 1993, Proc. Natl. Acad. Sci. USA 90:5873-5877). One measure of similarity provided by the BLAST algorithm is the smallest sum probability (P(N)), which provides an indication of the probability by which a match between two nucleotide or amino acid sequences would occur by chance.

BLAST searches assume that proteins can be modeled as random sequences. However, many real proteins comprise regions of nonrandom sequences which may be homopolymeric tracts, short-period repeats, or regions enriched in one or more amino acids. Such low-complexity regions may be aligned between unrelated proteins even though other regions of the protein are entirely dissimilar. A number of low-complexity filter programs can be employed to reduce such low-complexity alignments. For example, the SEG (Wooten and Federhen, 1993, Comput. Chem., 17:149-163) and XNU (Claverie and States, 1993, Comput. Chem., 17:191-201) low-complexity filters can be employed alone or in combination.

Unless otherwise stated, nucleotide and protein identity/similarity values provided herein are calculated using GAP (GCG Version 10) under default values.

GAP (Global Alignment Program) can also be used to compare a polynucleotide or polypeptide of the present invention with a reference sequence. GAP uses the algorithm of Needleman and Wunsch (J. Mol. Biol. 48: 443-453, 1970) to find the alignment of two complete sequences that maximizes the number of matches and minimizes the number of gaps. GAP considers all possible alignments and gap positions and creates the alignment with the largest number of matched bases and the fewest gaps. It allows for the provision of a gap creation penalty and a gap extension penalty in units of matched bases. GAP must make a profit of gap creation penalty number of matches for each gap it inserts. If a gap extension penalty greater than zero is chosen, GAP must, in addition, make a profit for each gap inserted of the length of the gap times the gap extension penalty. Default gap creation penalty values and gap extension penalty values in Version 10 of the Wisconsin Genetics Software Package for protein sequences are 8 and 2, respectively. For nucleotide sequences the default gap creation penalty is 50 while the default gap extension penalty is 3. The gap creation and gap extension penalties can be expressed as an integer selected from the group of integers consisting of from 0 to 100. Thus, for example, the gap creation and gap extension penalties can each independently be: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 30, 40, 50, 60 or greater.

GAP presents one member of the family of best alignments. There may be many members of this family, but no other member has a better quality. GAP displays four figures of merit for alignments: Quality, Ratio, Identity, and Similarity. The Quality is the metric maximized in order to align the sequences. Ratio is the quality divided by the number of bases in the shorter segment. Percent Identity is the percent of the symbols that actually match. Percent Similarity is the percent of the symbols that are similar. Symbols that are across from gaps are ignored. A similarity is scored when the scoring matrix value for a pair of symbols is greater than or equal to 0.50, the similarity threshold. The scoring matrix used in Version 10 of the Wisconsin Genetics Software Package is BLOSUM62 (see Henikoff & Henikoff, 1989, Proc. Natl. Acad. Sci. USA 89:10915).

Multiple alignment of the sequences can be performed using the CLUSTAL method of alignment (Higgins and Sharp, 1989, CABIOS. 5:151-153) with the default parameters (GAP PENALTY=10, GAP LENGTH PENALTY=10). Default parameters for pairwise alignments using the CLUSTAL method are KTUPLE 1, GAP PENALTY=3, WINDOW=5 and DIAGONALS SAVED=5.

(c) As used herein, “sequence identity” or “identity” in the context of two nucleic acid or polypeptide sequences includes reference to the residues in the two sequences which are the same when aligned for maximum correspondence over a specified comparison window. When percentage of sequence identity is used in reference to proteins it is recognized that residue positions which are not identical often differ by conservative amino acid substitutions, where amino acid residues are substituted for other amino acid residues with similar chemical properties (e.g., charge or hydrophobicity) and therefore do not change the functional properties of the molecule. Where sequences differ in conservative substitutions, the percent sequence identity may be adjusted upwards to correct for the conservative nature of the substitution. Sequences which differ by such conservative substitutions are said to have “sequence similarity” or “similarity”. Means for making this adjustment are well-known to those of skill in the art. Typically this involves scoring a conservative substitution as a partial rather than a full mismatch, thereby increasing the percentage sequence identity. Thus, for example, where an identical amino acid is given a score of 1 and a non-conservative substitution is given a score of zero, a conservative substitution is given a score between zero and 1. The scoring of conservative substitutions is calculated, e.g., according to the algorithm of Meyers and Miller, 1988, Computer Applic. Biol. Sci., 4:11-17, e.g., as implemented in the program PC/GENE (Intelligenetics, Mountain View, Calif., USA).

Polynucleotide sequences having “substantial identity” are those sequences having at least about 50%, 60% sequence identity, generally 70% sequence identity, preferably at least 80%, more preferably at least 90%, and most preferably at least 95%, compared to a reference sequence using one of the alignment programs described above. Preferably sequence identity is determined using the default parameters determined by the program. Substantial identity of amino acid sequences generally means sequence identity of at least 50%, more preferably at least 70%, 80%, 90%, and most preferably at least 95%. Nucleotide sequences are generally substantially identical if the two molecules hybridize to each other under stringent conditions.

(d) As used herein, “percentage of sequence identity” means the value determined by comparing two optimally aligned sequences over a comparison window, wherein the portion of the polynucleotide sequence in the comparison window may comprise additions or deletions (i.e., gaps) as compared to the reference sequence (which does not comprise additions or deletions) for optimal alignment of the two sequences. The percentage is calculated by determining the number of positions at which the identical nucleic acid base or amino acid residue occurs in both sequences to yield the number of matched positions, dividing the number of matched positions by the total number of positions in the window of comparison and multiplying the result by 100 to yield the percentage of sequence identity.

As used herein, the term “transgenic,” when used in reference to a plant (i.e., a “transgenic plant”) refers to a plant that contains at least one heterologous gene in one or more of its cells.

As used herein, “substantially complementary,” in reference to nucleic acids, refers to sequences of nucleotides (which may be on the same nucleic acid molecule or on different molecules) that are sufficiently complementary to be able to interact with each other in a predictable fashion, for example, producing a generally predictable secondary structure, such as a stem-loop motif. In some cases, two sequences of nucleotides that are substantially complementary may be at least about 75% complementary to each other, and in some cases, are at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, at least about 99.5%, or 100% complementary to each other. In some cases, two molecules that are sufficiently complementary may have a maximum of 40 mismatches (e.g., where one base of the nucleic acid sequence does not have a complementary partner on the other nucleic acid sequence, for example, due to additions, deletions, substitutions, bulges, etc.), and in other cases, the two molecules may have a maximum of 30 mismatches, 20 mismatches, 10 mismatches, or 7 mismatches. In still other cases, the two sufficiently complementary nucleic acid sequences may have a maximum of 0, 1, 2, 3, 4, 5, or 6 mismatches.

By “variants” is intended substantially similar sequences. For “variant” nucleotide sequences, conservative variants include those sequences that, because of the degeneracy of the genetic code, encode the amino acid sequence of the modulator of the invention. Variant nucleotide sequences include synthetically derived sequences, such as those generated, for example, using site-directed mutagenesis. Generally, variants of a particular nucleotide sequence of the invention will have at least about 40%, 50%, 60%, 65%, 70%, generally at least about 75%, 80%, 85%, preferably at least about 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, and more preferably at least about 98%, 99% or more sequence identity to that particular nucleotide sequence as determined by sequence alignment programs described elsewhere herein using default parameters. By “variant” protein is intended a protein derived from the native protein by deletion or addition of one or more amino acids to the N-terminal and/or C-terminal end of the native protein; deletion or addition of one or more amino acids at one or more sites in the native protein; or substitution of one or more amino acids at one or more sites in the native protein. Such variants may result from, for example, genetic polymorphism or human manipulation. Conservative amino acid substitutions will generally result in variants that retain biological function

As used herein, the term “yield” or “plant yield” refers to increased plant growth, and/or increased biomass. In one embodiment, increased yield results from increased growth rate and increased root size. In another embodiment, increased yield is derived from shoot growth. In still another embodiment, increased yield is derived from fruit growth.

5. DESCRIPTION OF THE FIGURES

FIG. 1. Schematic diagram of the nitrogen assimilation pathway.

FIG. 2. Schematic diagram of the effects of transgenic overexpression or underexpression of master regulators CCA1/GLK1/bZIP1 on nitrogen assimilation, usage and storage.

FIG. 3. Network analysis of genes regulated by organic N suggests CCA1 control N-assimilation in plants. In this Cytoscape-generated network, metabolic genes are drawn as triangles (transcription factors), hexagons (metabolic genes) whereas metabolites are shown as white circles. Arrows, diamonds or lines at the end of an edge indicate directionality of the interaction. To simplify, some of the genes connecting to GLK1 and CCA1 are grouped and summarized based on their associated functions (number in parenthesis indicate the number of genes in the group).

FIG. 4. Altered mRNA levels of target genes and binding of CCA1 protein to target gene promoter regions validate predicted regulation by CCA1. FIG. 4A: RT-qPCR was performed on CCA1-ox, glk1 knockout, and wild-type plants to determine mRNA levels for ASN1, GLN1.3, and GDH1. Three biological and two technical replicates were carried out for each sample. mRNA levels were normalized to clathrin (At4g24550). The mean+/−standard error of the mean is shown. FIG. 4B: ChIP assays to show binding of CCA1 to GLN1.3, GDH1 and bZIP1 gene promoter regions. Control: input DNA control (no IP), -Ab: IP without antibody, CCA1: IP with the CCA1 antibody.

FIG. 5. Exposure of seedlings to pulses of inorganic and organic N shifts the phase of the circadian clock. FIGS. 5A-C: Plot of the phase shift of CCA1::LUC expression in response to 4-h pulse of inorganic N (20 mM KNO3/20 mM NH4NO3), 10 mM Glu, or 10 mM Gln against the time at which the pulse was administered to wild-type seedlings. Pulses were administered at 3-hr intervals spanning one complete circadian cycle and data were collected over the next 6 cycles. Phase shifts are double-plotted to emphasize the circadian pattern of the response. Phase advances (the peak in expression occurring earlier) are plotted as positive values and delays are plotted as negative values. FIG. 5D shows the CCA1:LUC expression of control (untreated) seedlings. In all panels, the entraining photocycle (16:8) is indicated by the vertical white (light) and gray (dark) bars. The mean+/−standard error of the mean is shown.

FIG. 6. Proposed model of the interaction between the Arabidopsis circadian clock and N-assimilatory pathway. Arrows indicate influences that affect the function of the two processes. Black arrow: Clock function would affect N-assimilation. This influence is at least partly due to the direct regulatory role of CCA1 on N-assimilation. Grey arrow: N-assimilation would influence clock function through downstream metabolites such as Glu, Gln and possibly other N-metabolites.

FIG. 7. Signaling by inorganic vs. organic nitrogen can be distinguished by using MSX and Glu treatments. (a) Treatments include N±MSX±Glu. (b) A simplified diagram of the N-metabolic pathway from inorganic nitrate (NO3) to organic Glu, and the block by MSX. Below this pathway are the predicted effects of the given treatments on nitrogen metabolism. Arrows indicate progression through the pathway. Line breaks, represented with a short perpendicular line, indicate the step in the pathway blocked by MSX. (c and d). The expected transcript levels for genes induced by inorganic nitrogen (c) vs. genes regulated by Glu or a Glu-derived metabolite (d).

FIG. 8. Analysis of the expression of asparagine synthetase genes. Shown is a comparison of ASN1 (a) and ASN2 (b) mRNA levels in control seedlings (transferred to 1 mM NO3) along with MSX control (treated with NO3 and 1 mM MSX) compared to seedlings treated with a stepwise combination of Nms, MSX, and Glu/Gln. (a) mRNA levels of ASN1 are increased in Nms, are sensitive to MSX treatment, and can be recovered with exogenous application of Glu or Gln. (b) mRNA levels of ASN2 are increased in Nms. However, this expression is insensitive to MSX treatment and is slightly repressed with exogenous application of Glu or Gln. mRNA levels were normalized to EIF4A (At3g13920).

FIG. 9. RT-qPCR confirmation of the regulation for two transcription factors TAZ and bZIP1. Shown is confirmation of TAZ (FIG. 9A) and bZIP1 (FIG. 9B) mRNA levels in control seedlings along with the MSX control and compared to seedlings treated with a stepwise combination of Nms, Nms+MSX, and Nms+MSX+Glu (or Gln). In both cases, although increased expression in the presence of N is blocked in the presence of MSX, this suppression can be overcome by exogenous application of Glu or Gln. Plants transferred to control media do not show mRNA levels different from treatments without MSX. Primers used for RT-qPCR are as follows: TAZ forward, 5′-TCCTCGTCTCGGTCTT-3′ (SEQ ID NO:1); reverse, 5′-CAACCACCAGGGATTC-3′ (SEQ ID NO:2); bZIP forward, 5′-TCAGGTTCCGACATAGATG-3′ (SEQ ID NO:3); reverse, 5′-CCACGGTGTACGTCTACA-3′ (SEQ ID NO:4).

FIG. 10. Analysis of the expression of bZIP1 in the CCA1-ox. To test some of the predictions of our network CCA1-ox and Col-0 plants were collected 3 h after dawn; three biological replicates were taken at each time point. RNA was extracted from whole seedlings (as described in Materials and Methods), and RT-qPCR was performed to measure mRNA levels for bZIP1 (At5g49450). Two technical replicates were carried out for each sample. mRNA levels were normalized to clathrin (At4g24550).

FIG. 11. Circadian regulation of the response of clock gene (CCA1) expression to N-assimilation inhibitors and inorganic and organic N. Mean±SEM luciferase activity of CCA1::LUC in response to exogenous inorganic N, Glu, or Gln is presented. Seedlings were entrained for 8 days in a 16-h white light/8-h dark photoperiod on MS medium containing 1 mM KNO3 before being transferred to continuous light and exposed for 4-h pulses of inorganic N (20 mM KNO3/20 mM NH4NO3), 10 mM Glu, or 10 mM Gln presented at 3-h intervals over one circadian cycle before return to MS medium containing 1 mM KNO3 in continuous light for luciferase measurements for 6 days. Luciferase activity values were normalized by the mean expression value for the treatment. The entraining photocycle is indicated by the vertical white (light) and gray (dark) bars.

FIG. 12. Schematic diagram of how CCA1/GLK1/bZIP1 transcription factors coordinate the nitrogen regulation of genes in the nitrogen assimilation pathway.

6. DETAILED DESCRIPTION

Master control genes (CCA1, GLK1, and bZIP11) that control N-assimilation in response to Glu sensing have been identified in the present invention. As these genes are transcription factor hubs, they coordinate the N-regulation of the N-assimilatory gene network, with genome-wide responses associated with growth and development in plants. Thus, effecting genome-wide changes in N-assimilation, plant growth and development, by the transgenic manipulation of these master control genes in plants effects nitrogen use efficiency in vegetative tissues (leaves & roots) and also in seed. Changes in levels of N-assimilated into Gln effect changes in growth of vegetative tissues, while changes in levels of Asn affect seed development.

Thus, the present invention relates to the transgenic manipulation of these N-responsive master regulatory genes (CCA1, GLK1, and bZIP11) that control N-assimilation, and other related processes in response to N treatments, so as to increase the overall N-assimilation capacity, whether for increased N usage or N storage. The overexpression of these master control genes (e.g., uncoupled from Glu repression) effectively releases N-assimilation from the feedback repression loop by Glu-leading to increased N-assimilation and usage. As these regulatory genes serve to respond to Glu levels by reciprocally regulating the amount of N-assimilated into Gln versus the amount of Gln metabolized to Asn (for N-storage and transport), the manipulation of these genes in transgenic plants can be used to optimize N-assimilation into Gln versus Asn (FIG. 6). Increased N-assimilation is advantageous in all crops. Additionally, in seed crops, the increased synthesis of Asn increases N-transported and stored in seed.

Thus, in one embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising overexpressing GLK1 in the plant. In another embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising overexpressing CCA1 in the plant. In yet another embodiment, the present invention is directed to a method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis, said method comprising underexpressing bZIP1 in the plant.

In another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1 and GLK1 in the plant. In another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1 and underexpressing bZIP1 in the plant, or overexpressing GLK1 and underexpressing bZIP1 in the plant. In yet another embodiment, the method for improving nitrogen assimilation and usage in a plant in which more nitrogen is available for biosynthesis comprises overexpressing CCA1, overexpressing GLK1 and underexpressing bZIP1 in the plant.

The present invention is also directed to methods for altering nitrogen assimilation and storage, e.g., increasing nitrogen storage, in a plant. In one embodiment, the method comprises overexpressing bZIP1 in the plant. In another embodiment, the method comprises underexpressing CCA1 in the plant and/or underexpressing GLK1 in the plant. In another embodiment, the method overexpressing bZIP1 and underexpressing CCA1 and/or GLK1 in the plant. In yet another embodiment, the method comprises overexpressing bZIP1, and underexpressing CCA1 and underexpressing GLK1 in the plant.

In certain embodiments, the plant is species of woody, ornamental, decorative, crop, cereal, fruit, or vegetable. In other embodiments, the plant is a species of one of the following genuses: Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arabidopsis, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Persea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.

The overexpression of a particular gene can be accomplished by any method known in the art, for example, by transforming a plant cell with a nucleic acid vector comprising the coding sequences of the desired gene operably linked to a promoter active in a plant cell such that the desired gene is expressed at levels higher than normal, i.e., levels found in a control/nontransgenic plant. Such promoters can be constitutively active in all or some plant tissues or can be inducible.

The underexpression of a desired gene can be accomplished by any method known in the art, such as knocking out the gene or mutating the gene transgenically such that lower than normal levels of the gene product is produced in the transgenic cells or plant. For example, such mutations include frame-shift mutations or mutations resulting in a stop codon in the wild-type coding sequence, thus preventing expression of the gene product. Another exemplary mutation would be the removal of the transcribed sequences from the plant genome, for example, by homologous recombination. Another method for underexpressing a gene is transgenically introducing an insertion or deletion into the transcribed sequence or an insertion or deletion upstream or downstream of the transcribed sequence such that expression of the gene product is decreased as compared to wild-type or appropriate control. Additionally, microRNA (native or artificial) can be used to target a particular encoding mRNA for degradation, thus reducing the level of the expressed gene product in the transgenic plant cell.

The present invention is also directed to a transgenic plant produced by any of the foregoing methods.

The present invention is also directed to compositions for modulating gene expression in plants. The compositions comprise constructs for the expression of CCA1, GLK1 or bZIP1. In certain embodiments, a construct of the invention comprises a promoter, such as a tissue specific promoter, which is expressed in a plant cell, such as a leaf cell, and promotes the expression of CCA1, GLK1 or bZIP1.

Any of a variety of promoters can be utilized in the constructs of the invention depending on the desired outcome. Tissue-specific or tissue-preferred promoters, inducible promoters, developmental promoters, constitutive promoters and/or chimeric promoters can be used to direct expression of the gene product in specific cells or organs the plant, when fused to the appropriate cell or organ specific promoter.

Chimeric constructs expressing CCA1, GLK1 or bZIP1 in transgenic plants (using constitutive or inducible promoters) can be used in the compositions and methods provided herein to enhance nitrogen assimilation and usage or increase nitrogen storage.

The present invention is also directed to a transgenic plant-derived commercial product. In one embodiment, the transgenic plant is a tree, and said commercial product is pulp, paper, a paper product, or lumber. In another embodiment, the transgenic plant is tobacco, and said commercial product is a cigarette, cigar, or chewing tobacco. In yet another embodiment, the transgenic plant is a crop, and said commercial product is a fruit or vegetable. In yet another embodiment, the transgenic plant is a grain, and said commercial product is bread, flour, cereal, oat meal, or rice. In another embodiment, the product is a biofuel or a plant oil.

6.1 Master Regulators

CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) gene encodes a MYB-related transcription factor involved in the phytochrome induction of a light-harvesting chlorophyll a/b-protein gene. The nucleotide and amino acid sequences of CCA1 from Arabidopsis are known, see Accession No. At2g46830. Further, orthologous CCA1 genes from other organisms are also known. For example, the CCA1 gene sequences from poplar can be found under Accession Nos. Poptr1#552368 or Poptr1#731468. The use of CCA1 in the present invention refers not only to the Arabidopsis gene but also the orthologous CCA1 gene from other species. Thus, in one embodiment, plant species-specific CCA1 genes can be used in plants of the same species, e.g., tobacco CCA1 can be overexpressed in tobacco. Additionally, such orthologous sequences can be identified and isolated using methods known in the art, such as hybridization methods and then testing the isolated sequences for CCA1 activity, as demonstrated infra. Other methods, such as alignment methods described supra can also be used to identify and isolate orthologous CCA1 sequences.

Golden 2-like genes (GLK) are members of the GARP superfamily of transcription factors. GLK genes are known to be involved in the regulation of chloroplast development in diverse plant species (Fritter et al., 2002, The Plant Journal 31:713-727). The nucleotide and amino acid sequences of GLK1 from Arabidopsis are known, see Accession No. At2g20570. Further, orthologous GLK1 genes from other organisms are also known. For example, the GLK1 gene sequences from poplar and rice can be found under Accession Nos. Poptr1#654401 and Os06g24070, respectively. The use of GLK1 in the present invention refers not only to the Arabidopsis gene but also the orthologous GLK1 gene from other species. Thus, in one embodiment, plant species-specific GLK1 genes can be used in plants of the same species, e.g., tobacco GLK1 can be overexpressed in tobacco. Additionally, such orthologous sequences can be identified and isolated using methods known in the art, such as hybridization methods and then testing the isolated sequences for GLK1 activity, such as DNA binding activity. Other methods, such as alignment methods described supra can also be used to identify and isolate orthologous GLK1 sequences.

bZIP1 is a transcription factor that belongs to the largest bZIP group in Arabadopsis, Group S (Jakoby et al., 2002, Trends Plant Sci 7:106-111). It is thought that Group S bZIP genes are involved in balancing carbohydrate demand and supply (Rook et al., 1998, Plant J 15:253-263). The nucleotide and amino acid sequences of bZIP1 from Arabidopsis are known, see Accession No. At5g49450. The use of bZIP1 in the present invention refers not only to the Arabidopsis gene but also the orthologous bZIP1 gene from other species. Thus, in one embodiment, plant species-specific bZIP1 genes can be used in plants of the same species, e.g., tobacco bZIP1 can be overexpressed in tobacco. Additionally, such orthologous sequences can be identified and isolated using methods known in the art, such as hybridization methods and then testing the isolated sequences for bZIP1 activity, such as DNA binding activity. Other methods, such as alignment methods described supra can also be used to identify and isolate orthologous bZIP1 sequences.

6.2 Modulation of Gene Expression

The methods of the invention involve modulation of the expression of one, two, three or more target nucleotide sequences in a plant, optionally in specific tissues such as vegetative tissues or leaves or seeds. That is, the expression of a target nucleotide sequence of interest may be increased or decreased. In specific embodiments, the target nucleotide sequences are CCA1, GLK1 or bZIP1, which can be increased or decreased.

The target nucleotide sequences may be endogenous or exogenous in origin. By “modulate expression of a target gene” is intended that the expression of the target gene is increased or decreased relative to the expression level in a plant that has not been altered by the methods described herein.

By “increased or over expression” is intended that expression of the target nucleotide sequence is increased over expression observed in conventional transgenic lines for heterologous genes and over endogenous levels of expression for homologous genes. Heterologous or exogenous genes comprise genes that do not occur in the plant of interest in its native state. Homologous or endogenous genes are those that are natively present in the plant genome. Generally, expression of the target sequence is substantially increased. That is expression is increased at least about 25%-50%, preferably about 50%-100%, more preferably about 100%, 200% and greater.

By “decreased expression” or “underexpression” it is intended that expression of the target nucleotide sequence is decreased below expression observed in conventional transgenic lines for heterologous genes and below endogenous levels of expression for homologous genes. Generally, expression of the target nucleotide sequence of interest is substantially decreased. That is expression is decreased at least about 25%-50%, preferably about 50%-100%, more preferably about 100%, 200% and greater.

Expression levels may be assessed by determining the level of a gene product by any method known in the art including, but not limited to determining the levels of the RNA and protein encoded by a particular target gene. For genes that encode proteins, expression levels may determined, for example, by quantifying the amount of the protein present in plant cells, or in a plant or any portion thereof. Alternatively, it desired target gene encodes a protein that has a known measurable activity, then activity levels may be measured to assess expression levels.

6.3 Transformation/Transfection

Any method or delivery system may be used for the delivery and/or transfection of the nucleic acid vectors encoding any of the master regulators of the present invention in the cell. The vectors may be delivered to the plant cell either alone, or in combination with other agents.

Transfection may be accomplished by a wide variety of means, as is known to those of ordinary skill in the art. Such methods include, but are not limited to, Agrobacterium-mediated transformation (e.g., Komari et al., 1998, Curr. Opin. Plant Biol., 1:161), particle bombardment mediated transformation (e.g., Finer et al., 1999, Curr. Top. Microbiol. Immunol., 240:59), protoplast electroporation (e.g., Bates, 1999, Methods Mol. Biol., 111:359), viral infection (e.g., Porta and Lomonossoff, 1996, Mol. Biotechnol. 5:209), microinjection, and liposome injection. Other exemplary delivery systems that can be used to facilitate uptake by a cell of the nucleic acid include calcium phosphate and other chemical mediators of intracellular transport, microinjection compositions, and homologous recombination compositions (e.g., for integrating a gene into a preselected location within the chromosome of the cell). Alternative methods may involve, for example, the use of liposomes, electroporation, or chemicals that increase free (or “naked”) DNA uptake, transformation using viruses or pollen and the use of microprojection. Standard molecular biology techniques are common in the art (e.g., Sambrook et al., 1989, Molecular Cloning: A Laboratory Manual, 2nd ed., Cold Spring Harbor Laboratory Press, New York). For example, in one embodiment of the present invention, Arabidopsis or another plant species is transformed with a gene encoding CCA1, GLK1 or bZIP1 using Agrobacterium.

One of skill in the art will be able to select an appropriate vector for introducing the encoding nucleic acid sequence in a relatively intact state. Thus, any vector which will produce a plant carrying the introduced encoding nucleic acid should be sufficient. The selection of the vector, or whether to use a vector, is typically guided by the method of transformation selected.

The transformation of plants in accordance with the invention may be carried out in essentially any of the various ways known to those skilled in the art of plant molecular biology. (See, for example, Methods of Enzymology, Vol. 153, 1987, Wu and Grossman, Eds., Academic Press, incorporated herein by reference).

Plant cells and plants can comprise two or more nucleotide sequence constructs. Any means for producing a plant comprising the nucleotide sequence constructs described herein are encompassed by the present invention. For example, a nucleotide sequence encoding the modulator can be used to transform a plant at the same time as the nucleotide sequence encoding the precursor RNA. The nucleotide sequence encoding the precursor mRNA can be introduced into a plant that has already been transformed with the modulator nucleotide sequence. Alternatively, transformed plants, one expressing the modulator and one expressing the RNA precursor, can be crossed to bring the genes together in the same plant. Likewise, viral vectors may be used to express gene products by various methods generally known in the art. Suitable plant viral vectors for expressing genes should be self-replicating, capable of systemic infection in a host, and stable. Additionally, the viruses should be capable of containing the nucleic acid sequences that are foreign to the native virus forming the vector. Transient expression systems may also be used.

Agrobacterium transformation is widely used by those skilled in the art to transform dicotyledonous species. Recently, there has been substantial progress towards the routine production of stable, fertile transgenic plants in almost all economically relevant monocot plants (Toriyarna et al., 1988, Bio/Technology 6:1072-1074; Zhang et al., 1988, Plant Cell Rep. 7:379-384; Zhang et al., 1988, Theor. Appl. Genet. 76:835-840; Shimamoto et al., 1989, Nature 338:274-276; Datta et al., 1990, Bio/Technology 8: 736-740; Christou et al., 1991, Bio/Technology 9:957-962; Peng et al., 1991, International Rice Research Institute, Manila, Philippines, pp. 563-574; Cao et al., 1992, Plant Cell Rep. 11:585-591; Li et al., 1993, Plant Cell Rep. 12:250-255; Rathore et al., 1993, Plant Mol. Biol. 21:871-884; Fromm et al., 1990, Bio/Technology 8:833-839; Tomes et al., 1995, “Direct DNA Transfer into Intact Plant Cells via Microprojectile Bombardment,” in Plant Cell, Tissue, and Organ Culture: Fundamental Methods, ed. Gamborg and Phillips (Springer-Verlag, Berlin); D'Halluin et al., 1992, Plant Cell 4:1495-1505; Walters et al., 1992, Plant Mol. Biol. 18:189-200; Koziel et al., 1993, Biotechnology 11: 194-200; Vasil, I. K., 1994, Plant Mol. Biol. 25:925-937; Weeks et al., 1993, Plant Physiol. 102:1077-1084; Somers et al., 1992, Bio/Technology 10: 1589-1594; WO 92/14828). In particular, Agrobacterium mediated transformation is now emerging also as an highly efficient transformation method in monocots (Hiei et al., 1994, The Plant Journal 6:271-282). See also, Shimamoto, K., 1994, Current Opinion in Biotechnology 5:158-162; Vasil et al., 1992, Bio/Technology 10:667-674; Vain et al., 1995, Biotechnology Advances 13(4):653-671; Vasil et al., 1996, Nature Biotechnology 14:702).

The particular choice of a transformation technology will be determined by its efficiency to transform certain plant species as well as the experience and preference of the person practicing the invention with a particular methodology of choice. It will be apparent to the skilled person that the particular choice of a transformation system to introduce nucleic acid into plant cells is not essential to or a limitation of the invention, nor is the choice of technique for plant regeneration.

6.3.1 Agrobacterium

A CCA1, GLK1 or bZIP1-encoding nucleic acid sequences or a nucleic acid designed to disrupt expression of CCA1, GLK1 or bZIP1 utilized in the present invention can be introduced into plant cells using Ti plasmids of Agrobacterium tumefaciens (A. tumefaciens), root-inducing (Ri) plasmids of Agrobacterium rhizogenes (A. rhizogenes), and plant virus vectors. For reviews of such techniques see, for example, Weissbach & Weissbach, 1988, Methods for Plant Molecular Biology, Academic Press, NY, Section VIII, pp. 421-463; and Grierson & Corey, 1988, Plant Molecular Biology, 2d Ed., Blackie, London, Ch. 7-9, and Horsch et al., 1985, Science, 227:1229.

In using an A. tumefaciens culture as a transformation vehicle, it is most advantageous to use a non-oncogenic strain of Agrobacterium as the vector carrier so that normal non-oncogenic differentiation of the transformed tissues is possible. It is also preferred that the Agrobacterium harbor a binary Ti plasmid system. Such a binary system comprises 1) a first Ti plasmid having a virulence region essential for the introduction of transfer DNA (T-DNA) into plants, and 2) a chimeric plasmid. The chimeric plasmid contains at least one border region of the T-DNA region of a wild-type Ti plasmid flanking the nucleic acid to be transferred. Binary Ti plasmid systems have been shown effective in the transformation of plant cells (De Framond, Biotechnology, 1983, 1:262; Hoekema et al., 1983, Nature, 303:179). Such a binary system is preferred because it does not require integration into the Ti plasmid of A. tumefaciens, which is an older methodology.

In some embodiments, a disarmed Ti-plasmid vector carried by Agrobacterium exploits its natural gene transferability (EP-A-270355, EP-A-01 16718, Townsend et al., 1984, NAR, 12:8711, U.S. Pat. No. 5,563,055).

Methods involving the use of Agrobacterium in transformation according to the present invention include, but are not limited to: 1) co-cultivation of Agrobacterium with cultured isolated protoplasts; 2) transformation of plant cells or tissues with Agrobacterium; or 3) transformation of seeds, apices or meristems with Agrobacterium.

In addition, gene transfer can be accomplished by in planta transformation by Agrobacterium, as described by Bechtold et al., (C. R. Acad. Sci. Paris, 1993, 316:1194). This approach is based on the vacuum infiltration of a suspension of Agrobacterium cells.

In certain embodiments, a CCA1, GLK1, bZIP1-encoding nucleic acid or mutant thereof is introduced into plant cells by infecting such plant cells, an explant, a meristem or a seed, with transformed A. tumefaciens as described above. Under appropriate conditions known in the art, the transformed plant cells are grown to form shoots, roots, and develop further into plants.

Other methods described herein, such as microprojectile bombardment, electroporation and direct DNA uptake can be used where Agrobacterium is inefficient or ineffective. Alternatively, a combination of different techniques may be employed to enhance the efficiency of the transformation process, e.g., bombardment with Agrobacterium-coated microparticles (EP-A-486234) or microprojectile bombardment to induce wounding followed by co-cultivation with Agrobacterium (EP-A-486233).

6.3.2 CaMV

In some embodiments, cauliflower mosaic virus (CaMV) is used as a vector for introducing a desired nucleic acid into plant cells (U.S. Pat. No. 4,407,956). CaMV viral DNA genome can be inserted into a parent bacterial plasmid creating a recombinant DNA molecule which can be propagated in bacteria. After cloning, the recombinant plasmid again can be cloned and further modified by introduction of the desired nucleic acid sequence. The modified viral portion of the recombinant plasmid can then be excised from the parent bacterial plasmid, and used to inoculate the plant cells or plants.

6.3.3 Mechanical and Chemical Means

In some embodiments, a CCA1, GLK1 or bZIP1-encoding nucleic acid or a nucleic acid designed to disrupt expression of CCA1, GLK1 or bZIP1 is introduced into a plant cell using mechanical or chemical means. Exemplary mechanical and chemical means are provided below.

As used herein, the term “contacting” refers to any means of introducing a CCA1, GLK1 or bZIP1-encoding nucleic acid or a nucleic acid designed to disrupt expression of CCA1, GLK1 or bZIP1 into a plant cell, including chemical and physical means as described above. Preferably, contacting refers to introducing the nucleic acid or vector containing the nucleic acid into plant cells (including an explant, a meristem or a seed), via A. tumefaciens transformed with the, e.g., GLK1-encoding nucleic acid as described above.

6.3.3.1 Microinjection

In one embodiment, the CCA1, GLK1 or bZIP1-encoding nucleic acid or the nucleic acid designed to disrupt expression of CCA1, GLK1 or bZIP1 can be mechanically transferred into the plant cell by microinjection using a micropipette. See, e.g., WO 92/09696, WO 94/00583, EP 331083, EP 175966, Green et al., 1987, Plant Tissue and Cell Culture, Academic Press, Crossway et al., 1986, Biotechniques 4:320-334.

6.3.3.2 PEG

In other embodiment, the nucleic acid can also be transferred into the plant cell by using polyethylene glycol (PEG) which forms a precipitation complex with genetic material that is taken up by the cell.

6.3.3.3 Electroporation

Electroporation can be used, in another set of embodiments, to deliver a nucleic acid to the cell, e.g., precursor miRNA, or a nucleotide sequence able to be transcribed to produce CCA1, GLK1 or bZIP1 protein (see, e.g., Fromm et al., 1985, PNA5, 82:5824). “Electroporation,” as used herein, is the application of electricity to a cell, such as a plant protoplast, in such a way as to cause delivery of a nucleic acid into the cell without killing the cell. Typically, electroporation includes the application of one or more electrical voltage “pulses” having relatively short durations (usually less than 1 second, and often on the scale of milliseconds or microseconds) to a media containing the cells. The electrical pulses typically facilitate the non-lethal transport of extracellular nucleic acids into the cells. The exact electroporation protocols (such as the number of pulses, duration of pulses, pulse waveforms, etc.), will depend on factors such as the cell type, the cell media, the number of cells, the substance(s) to be delivered, etc., and can be determined by those of ordinary skill in the art. Electroporation is discussed in greater detail in, e.g., EP 290395, WO 8706614, Riggs et al., 1986, Proc. Natl. Acad. Sci. USA 83:5602-5606; D'Halluin et al., 1992, Plant Cell 4:1495-1505). Other forms of direct DNA uptake can also be used in the methods provided herein, such as those discussed in, e.g., DE 4005152, WO 9012096, U.S. Pat. No. 4,684,611, Paszkowski et al., 1984, EMBO J. 3:2717-2722.

6.3.3.4 Ballistic and Particle Bombardment

Another method for introducing a CCA1, GLK1 or bZIP1-encoding nucleic acid or a nucleic acid designed to disrupt expression of CCA1, GLK1 or bZIP1 into a plant cell is high velocity ballistic penetration by small particles with the nucleic acid to be introduced contained either within the matrix of such particles, or on the surface thereof (Klein et al., 1987, Nature 327:70). Genetic material can be introduced into a cell using particle gun (“gene gun”) technology, also called microprojectile or microparticle bombardment. In this method, small, high-density particles (microprojectiles) are accelerated to high velocity in conjunction with a larger, powder-fired macroprojectile in a particle gun apparatus. The microprojectiles have sufficient momentum to penetrate cell walls and membranes, and can carry RNA or other nucleic acids into the interiors of bombarded cells. It has been demonstrated that such microprojectiles can enter cells without causing death of the cells, and that they can effectively deliver foreign genetic material into intact tissue. Bombardment transformation methods are also described in Sanford et al. (Techniques 3:3-16, 1991) and Klein et al. (Bio/Techniques 10:286, 1992). Although, typically only a single introduction of a new nucleic acid sequence(s) is required, this method particularly provides for multiple introductions.

Particle or microprojectile bombardment are discussed in greater detail in, e.g., the following references: U.S. Pat. No. 5,100,792, EP-A-444882, EP-A-434616; Sanford et al., U.S. Pat. No. 4,945,050; Tomes et al., 1995, “Direct DNA Transfer into Intact Plant Cells via Microprojectile Bombardment,” in Plant Cell, Tissue, and Organ Culture: Fundamental Methods, ed. Gamborg and Phillips (Springer-Verlag, Berlin); and McCabe et al., 1988, Biotechnology 6:923-926.

6.3.3.5 Colloidal Dispersion

In other embodiments, a colloidal dispersion system may be used to facilitate delivery of a nucleic acid into the cell, for example, GLK1, or a nucleotide sequence able to disrupt expression of GLK1. As used herein, a “colloidal dispersion system” refers to a natural or synthetic molecule, other than those derived from bacteriological or viral sources, capable of delivering to and releasing the nucleic acid to the cell. Colloidal dispersion systems include, but are not limited to, macromolecular complexes, beads, and lipid-based systems including oil-in-water emulsions, micelles, mixed micelles, and liposomes. One example of a colloidal dispersion system is a liposome. Liposomes are artificial membrane vessels. It has been shown that large unilamellar vessels (“LUV”), which-range in size from 0.2 to 4.0 microns, can encapsulate large macromolecules within the aqueous interior and these macromolecules can be delivered to cells in a biologically active form (e.g., Fraley et al., 1981, Trends Biochem. Sci., 6:77).

6.3.3.6 Lipids

Lipid formulations for the transfection and/or intracellular delivery of nucleic acids are commercially available, for instance, from QIAGEN, for example as EFFECTENE® (a non-liposomal lipid with a special DNA condensing enhancer) and SUPER-FECT® (a novel acting dendrimeric technology) as well as Gibco BRL, for example, as LIPOFECTIN® and LIPOFECTACE®, which are formed of cationic lipids such as N-[1-(2,3-dioleyloxy)-propyl]-N,N,N-trimethylammonium chloride (“DOTMA”) and dimethyl dioctadecylammonium bromide (“DDAB”). Liposomes are well known in the art and have been widely described in the literature, for example, in Gregoriadis, G., 1985, Trends in Biotechnology 3:235-241; Freeman et al., 1984, Plant Cell Physiol. 29:1353).

6.3.3.7 Other Methods

In addition to the above, other physical methods for the transformation of plant cells are reviewed in the following and can be used in the methods provided herein. Oard, 1991, Biotech. Adv. 9:1-11. See generally, Weissinger et al., 1988, sAnn. Rev. Genet. 22:421-477; Sanford et al., 1987, Particulate Science and Technology 5:27-37; Christou et al., 1988, Plant Physiol. 87:671-674; McCabe et al., 1988, Bio/Technology 6:923-926; Finer and McMullen, 1991, In vitro Cell Dev. Biol. 27P:175-182; Singh et al., 1998, Theor. Appl. Genet. 96:319-324; Datta et al., 1990, Biotechnology 8:736-740; Klein et al., 1988, Proc. Natl. Acad. Sci. USA 85:4305-4309; Klein et al., 1988, Biotechnology 6:559-563; Tomes, U.S. Pat. No. 5,240,855; Buising et al., U.S. Pat. Nos. 5,322,783 and 5,324,646; Klein et al., 1988, Plant Physiol. 91:440-444; Fromm et al., 1990, Biotechnology 8:833-839; Hooykaas-Van Slogteren et al., 1984, Nature (London) 311:763-764; Bytebier et al., 1987, Proc. Natl. Acad. Sci. USA 84:5345-5349; De Wet et al., 1985, The Experimental Manipulation of Ovule Tissues, ed. Chapman et al. (Longman, N.Y.), pp. 197-209; Kaeppler et al., 1990, Plant Cell Reports 9:415-418 and Kaeppler et al., 1992, Theor. Appl. Genet. 84:560-566; Li et al., 1993, Plant Cell Reports 12:250-255 and Christou and Ford, 1995, Annals of Botany 75:407-413; Osjoda et al., 1996, Nature Biotechnology 14:745-750; all of which are herein incorporated by reference.

6.4 Nucleic Acid Constructs

The CCA1, GLK1, bZIP1 sequences of the invention may be provided in nucleotide sequence constructs or expression cassettes for expression in the plant of interest. The cassette will include 5′ and 3′ regulatory sequences operably linked to an encoding nucleotide sequence of the invention.

The expression cassette may additionally contain at least one additional gene to be co-transformed into the organism. Alternatively, the additional gene(s) can be provided on multiple expression cassettes.

In certain embodiments, an expression cassette can be used with a plurality of restriction sites for insertion of the sequences of the invention to be under the transcriptional regulation of the regulatory regions. The expression cassette can additionally contain selectable marker genes (see below).

The expression cassette will generally include in the 5′-3′ direction of transcription, a transcriptional and translational initiation region, a DNA sequence of the invention, e.g., GLK1 or a sequence designed to disrupt expression of GLK1, and a transcriptional and translational termination region functional in plants. The transcriptional initiation region, the promoter, may be native or analogous or foreign or heterologous to the plant host. Additionally, the promoter may be the natural sequence or alternatively a synthetic sequence. By “foreign” is intended that the transcriptional initiation region is not found in the native plant into which the transcriptional initiation region is introduced. As used herein, a chimeric gene comprises a coding sequence operably linked to a transcription initiation region that is heterologous to the coding sequence.

The termination region may be native with the transcriptional initiation region, may be native with the operably linked DNA sequence of interest, or may be derived from another source. Convenient termination regions are available from the Ti-plasmid of A. tumefaciens, such as the octopine synthase and nopaline synthase termination regions. See also Guerineau et al., 1991, Mol. Gen. Genet. 262:141-144; Proudfoot, 1991, Cell 64:671-674; Sanfacon et al., 1991, Genes Dev. 5:141-149; Mogen et al., 1990, Plant Cell 2:1261-1272; Munroe et al., 1990, Gene 91:151-158; Ballas et al., 1989, Nucleic Acids Res. 17:7891-7903; and Joshi et al., 1987, Nucleic Acid Res. 15:9627-9639.

In some embodiments, a nucleic acid (e.g., encoding GLK1 or bZIP1) can be delivered to the cell in a vector. As used herein, a “vector” is any vehicle capable of facilitating the transfer of the nucleic acid to the cell such that the nucleic acid can be processed and/or expressed in the cell. The vector may transport the nucleic acid to the cells with reduced degradation, relative to the extent of degradation that would result in the absence of the vector. The vector optionally includes gene expression sequences or other components (such as promoters and other regulatory elements) able to enhance expression of the nucleic acid within the cell. The invention also encompasses the cells transfected with these vectors, including those cells previously described. In certain embodiments, the cells are transfected or transformed with a vector that specifically (or preferably) overexpresses CCA1 and/or GLK1 in the vegetative tissues of the plant, but not in the majority of other cell types of the plant.

To commence a transformation process in certain embodiments, it is first necessary to construct a suitable vector and properly introduce it into the plant cell. Vector(s) employed in the present invention for transformation of a plant cell include an encoding nucleic acid sequence operably associated with a promoter, such as a leaf-specific promoter. Details of the construction of vectors utilized herein are known to those skilled in the art of plant genetic engineering.

In general, vectors useful in the invention include, but are not limited to, plasmids, phagemids, viruses, other vehicles derived from viral or bacterial sources that have been manipulated by the insertion or incorporation of the nucleotide sequences (or precursor nucleotide sequences) of the invention. Viral vectors useful in certain embodiments include, but are not limited to, nucleic acid sequences from the following viruses: retroviruses; adenovirus, or other adeno-associated viruses; mosaic viruses such as tobamoviruses; potyviruses, nepoviruses, and RNA viruses such as retroviruses. One can readily employ other vectors not named but known to the art. Some viral vectors can be based on non-cytopathic eukaryotic viruses in which non-essential genes have been replaced with the nucleotide sequence of interest. Non-cytopathic viruses include retroviruses, the life cycle of which involves reverse transcription of genomic viral RNA into DNA with subsequent proviral integration into host cellular DNA.

Genetically altered retroviral expression vectors can have general utility for the high-efficiency transduction of nucleic acids. Standard protocols for producing replication-deficient retroviruses (including the steps of incorporation of exogenous genetic material into a plasmid, transfection of a packaging cell lined with plasmid, production of recombinant retroviruses by the packaging cell line, collection of viral particles from tissue culture media, and infection of the cells with viral particles) are well known to those of ordinary skill in the art. Examples of standard protocols can be found in Kriegler, M., 1990, Gene Transfer and Expression, A Laboratory Manual, W.H. Freeman Co., New York, or Murry, E. J. Ed., 1991, Methods in Molecular Biology, Vol. 7, Humana Press, Inc., Cliffton, N.J.

Another-example of a virus for certain applications is the adeno-associated virus, which is a double-stranded DNA virus. The adeno-associated virus can be engineered to be replication-deficient and is capable of infecting a wide range of-cell types and species. The adeno-associated virus further has advantages, such as heat and lipid solvent stability; high transduction frequencies in cells of diverse lineages; and/or lack of superinfection inhibition, which may allow multiple series of transductions.

Another vector suitable for use with the method provided herein is a plasmid vector. Plasmid vectors, have been extensively described in the art and are well-known to those of skill in the art. See, e.g., Sambrook et al., 1989, Molecular Cloning: A Laboratory Manual, Second Edition, Cold Spring Harbor Laboratory Press. These plasmids may have a promoter compatible with the host cell, and the plasmids can express a peptide from a gene operatively encoded within the plasmid. Some commonly used plasmids include pBR322, pUC18, pUC19, pRC/CMV, SV40, and pBlueScript. Other plasmids are well-known to those of ordinary skill in the art. Additionally, plasmids may be custom-designed, for example, using restriction enzymes and ligation reactions, to remove and add specific fragments of DNA or other nucleic acids, as necessary. The present invention also includes vectors for producing nucleic acids or precursor nucleic acids containing a desired nucleotide sequence (which can, for instance, then be cleaved or otherwise processed within the cell to produce a precursor miRNA). These vectors may include a sequence encoding a nucleic acid and an in vivo expression element, as further described below. In some cases, the in vivo expression element includes at least one promoter.

Where appropriate, the gene(s) for enhanced expression may be optimized for expression in the transformed plant. That is, the genes can be synthesized using plant-preferred codons corresponding to the plant of interest. Methods are available in the art for synthesizing plant-preferred genes. See, for example, U.S. Pat. Nos. 5,380,831, and 5,436,391, and Murray et al., 1989, Nucleic Acids Res. 17:477-498.

Additional sequence modifications are known to enhance gene expression in a cellular host. These include elimination of sequences encoding spurious polyadenylation signals, exon-intron splice site signals, transposon-like repeats, and other such well-characterized sequences that may be deleterious to gene expression. The G-C content of the sequence may be adjusted to levels average for a given cellular host, as calculated by reference to known genes expressed in the host cell. When desired, the sequence is modified to avoid predicted hairpin secondary mRNA structures. However, it is recognized that in the case of nucleotide sequences encoding the miRNA precursors, one or more hairpin and other secondary structures may be desired for proper processing of the precursor into an mature miRNA and/or for the functional activity of the miRNA in gene silencing.

The expression cassettes can additionally contain 5′ leader sequences in the expression cassette construct. Such leader sequences can act to enhance translation. Translation leaders are known in the art and include: picornavirus leaders, for example, EMCV leader (Encephalomyocarditis 5′ noncoding region) (Elroy-Stein et al., 1989, PNAS USA 86:6126-6130); potyvirus leaders, for example, TEV leader (Tobacco Etch Virus) (Allison et al., 1986); MDMV leader (Maize Dwarf Mosaic Virus); Virology 154:9-20), and human immunoglobulin heavy-chain binding protein (BiP), (Macejak et al., 1991, Nature 353:90-94); untranslated leader from the coat protein miRNA of alfalfa mosaic virus (AMV RNA 4) (Jobling et al., 1987, Nature 325:622-625); tobacco mosaic virus leader (TMV) (Gallie et al., 1989, Molecular Biology of RNA, ed. Cech (Liss, New York), pp. 237-256); and maize chlorotic mottle virus leader (MCMV) (Lommel et al., 1991, Virology 81:382-385). See also, Della-Cioppa et al., 1987, Plant Physiol. 84:965-968.

In preparing the expression cassette, the various DNA fragments can be manipulated, so as to provide for the DNA sequences in the proper orientation and, as appropriate, in the proper reading frame. Toward this end, adapters or linkers can be employed to join the DNA fragments or other manipulations may be involved to provide for convenient restriction sites, removal of superfluous DNA, removal of restriction sites, or the like. For this purpose, in vitro mutagenesis, primer repair, restriction, annealing, resubstitutions, e.g., transitions and transversions, may be involved.

An illustrative vector enoding CCA1 for overexpression in plants is described infra. Wang et al., 1998, Cell 93:1207-1217 also describes a vector for overexpressing CCA1 in plants. An illustrative vector enoding GLK1 for overexpression in plants is described infra. Further, Fitter et al., 2002, The Plant Journal 31:713-727 describe an insertion mutant in the GLK1 gene such that expression of GLK1 is disrupted.

6.5 Promoters and Other Regulatory Sequences

In the broad method of the invention, at least one nucleic acid sequence encoding CCA1, GLK1 or bZIP1 or a nucleic acid designed to disrupt expression of same is operably linked with a promoter, such as a leaf-preferred or leaf-specific promoter. It may be desirable to introduce more than one copy of a polynucleotide into a plant for enhanced expression. For example, multiple copies of a GLK1 polynucleotide would have the effect of increasing production of GLK1 even further in the plant. In specific embodiments, the GLK1 polynucleotide is expressed primarily or entirely in vegetative cells of the plant.

In general, promoters are found positioned 5′ (upstream) of the genes that they control. Thus, in the construction of promoter gene combinations, the promoter is preferably positioned upstream of the gene and at a distance from the transcription start site that approximates the distance between the promoter and the gene it controls in the natural setting. As is known in the art, some variation in this distance can be tolerated without loss of promoter function. Similarly, the preferred positioning of a regulatory element, such as an enhancer, with respect to a heterologous gene placed under its control reflects its natural position relative to the structural gene it naturally regulates. In certain specific embodiments, bZIP1 is under the control of a seed-specific promoter, and may optionally comprise other regulatory elements that result in constitutive or inducible expression of bZIP1.

Thus, the nucleic acid, in one embodiment, is operably linked to a gene expression sequence, which directs the expression of the nucleic acid within the cell. A “gene expression sequence,” as used herein, is any regulatory nucleotide sequence, such as a promoter sequence or promoter-enhancer combination, which facilitates the efficient transcription and translation of the nucleotide sequence to which it is operably linked. The gene expression sequence may, for example, be a eukaryotic promoter or a viral promoter, such as a constitutive or inducible promoter. Promoters and enhancers consist of short arrays of DNA sequences that interact specifically with cellular proteins involved in transcription, for instance, as discussed in Maniatis et al., 1987, Science 236:1237. Promoter and enhancer elements have been isolated from a variety of eukaryotic sources including genes in plant, yeast, insect and mammalian cells and viruses (analogous control elements, i.e., promoters, are also found in prokaryotes). In some embodiments, the nucleic acid is linked to a gene expression sequence which permits expression of the nucleic acid in a plant cell. A sequence which permits expression of the nucleic acid in a plant cell is one which is selectively active in the particular plant cell and thereby causes the expression of the nucleic acid in these cells. Those of ordinary skill in the art will be able to easily identify promoters that are capable of expressing a nucleic acid in a cell based on the type of plant cell.

A number of promoters can be used in the practice of the invention. The promoters can be selected based on the desired outcome. Generally, the nucleotide sequence and the modulator sequences can be combined with promoters of choice to alter gene expression if the target sequences in the tissue or organ of choice. Thus, the nucleotide sequence or modulator nucleotide sequence can be combined with constitutive, tissue-preferred, inducible, developmental, or other promoters for expression in plants depending upon the desired outcome.

The selection of a particular promoter and enhancer depends on what cell type is to be used and the mode of delivery. For example, a wide variety of promoters have been isolated from plants and animals, which are functional not only in the cellular source of the promoter, but also in numerous other plant species. There are also other promoters (e.g., viral and Ti-plasmid) which can be used. For example, these promoters include promoters from the Ti-plasmid, such as the octopine synthase promoter, the nopaline synthase promoter, the mannopine synthase promoter, and promoters from other open reading frames in the T-DNA, such as ORF7, etc. Promoters isolated from plant viruses include the 35S promoter from cauliflower mosaic virus. Promoters that have been isolated and reported for use in plants include ribulose-1,3-biphosphate carboxylase small subunit promoter, phaseolin promoter, etc. Thus, a variety of promoters and regulatory elements may be used in the expression vectors of the present invention.

Promoters useful in the compositions and methods provided herein include both natural constitutive and inducible promoters as well as engineered promoters. The CaMV promoters are examples of constitutive promoters. Other constitutive mammalian promoters include, but are not limited to, polymerase promoters as well as the promoters for the following genes: hypoxanthine phosphoribosyl transferase (“HPTR”), adenosine deaminase, pyruvate kinase, and alpha-actin.

Promoters useful as expression elements of the invention also include inducible promoters. Inducible promoters are expressed in the presence of an inducing agent. For example, a metallothionein promoter can be induced to promote transcription in the presence of certain metal ions. Other inducible promoters are known to those of ordinary skill in the art. The in vivo expression element can include, as necessary, 5′ non-transcribing and 5′ non-translating sequences involved with the initiation of transcription, and can optionally include enhancer sequences or upstream activator sequences.

For example, in some embodiments an inducible promoter is used to allow control of nucleic acid expression through the presentation of external stimuli (e.g., environmentally inducible promoters), as discussed below. Thus, the timing and amount of nucleic acid expression can be controlled in some cases. Non-limiting examples of expression systems, promoters, inducible promoters, environmentally inducible promoters, and enhancers are well known to those of ordinary skill in the art. Examples include those described in International Patent Application Publications WO 00/12714, WO 00/11175, WO 00/12713, WO 00/03012, WO 00/03017, WO 00/01832, WO 99/50428, WO 99/46976 and U.S. Pat. Nos. 6,028,250, 5,959,176, 5,907,086, 5,898,096, 5,824,857, 5,744,334, 5,689,044, and 5,612,472. A general descriptions of plant expression vectors and reporter genes can also be found in Gruber et al., 1993, “Vectors for Plant Transformation,” in Methods in Plant Molecular Biology & Biotechnology, Glich et al., Eds., p. 89-119, CRC Press.

For plant expression vectors, viral promoters that can be used in certain embodiments include the 35S RNA and 19S RNA promoters of CaMV (Brisson et al., Nature, 1984, 310:511; Odell et al., Nature, 1985, 313:810); the full-length transcript promoter from Figwort Mosaic Virus (FMV) (Gowda et al., 1989, J. Cell Biochem., 13D: 301) and the coat protein promoter to TMV (Takamatsu et al., 1987, EMBO J. 6:307). Alternatively, plant promoters such as the light-inducible promoter from the small subunit of ribulose bis-phosphate carboxylase (ssRUBISCO) (Coruzzi et al., 1984, EMBO J., 3:1671; Broglie et al., 1984, Science, 224:838); mannopine synthase promoter (Velten et al., 1984, EMBO J., 3:2723) nopaline synthase (NOS) and octopine synthase (OCS) promoters (carried on tumor-inducing plasmids of Agrobacterium tumefaciens) or heat shock promoters, e.g., soybean hsp17.5-E or hsp17.3-B (Gurley et al., 1986, Mol. Cell. Biol., 6:559; Severin et al., 1990, Plant Mol. Biol., 15:827) may be used. Exemplary viral promoters which function constitutively in eukaryotic cells include, for example, promoters from the simian virus, papilloma virus, adenovirus, human immunodeficiency virus, Rous sarcoma virus, cytomegalovirus, the long terminal repeats of Moloney leukemia virus and other retroviruses, and the thymidine kinase promoter of herpes simplex virus. Other constitutive promoters are known to those of ordinary skill in the art.

To be most useful, an inducible promoter should 1) provide low expression in the absence of the inducer; 2) provide high expression in the presence of the inducer; 3) use an induction scheme that does not interfere with the normal physiology of the plant; and 4) have no effect on the expression of other genes. Examples of inducible promoters useful in plants include those induced by chemical means, such as the yeast metallothionein promoter which is activated by copper ions (Mett et al., Proc. Natl. Acad. Sci., U.S.A., 90:4567, 1993); In2-1 and In2-2 regulator sequences which are activated by substituted benzenesulfonamides, e.g., herbicide safeners (Hershey et al., Plant Mol. Biol., 17:679, 1991); and the GRE regulatory sequences which are induced by glucocorticoids (Schena et al., Proc. Natl. Acad. Sci., U.S.A., 88:10421, 1991). Other promoters, both constitutive and inducible will be known to those of skill in the art.

A number of inducible promoters are known in the art. For resistance genes, a pathogen-inducible promoter can be utilized. Such promoters include those from pathogenesis-related proteins (PR proteins), which are induced following infection by a pathogen; e.g., PR proteins, SAR proteins, beta-1,3-glucanase, chitinase, etc. See, for example, Redolfi et al., 1983, Neth. J. Plant Pathol. 89:245-254; Uknes et al., 1992, Plant Cell 4:645-656; and Van Loon, 1985, Plant Mol. Virol. 4:111-116. Of particular interest are promoters that are expressed locally at or near the site of pathogen infection. See, for example, Marineau et al., 1987, Plant Mol. Biol. 9:335-342; Matton et al., 1989, Molecular Plant-Microbe Interactions 2:325-331; Somsisch et al., 1986, Proc. Natl. Acad. Sci. USA 83:2427-2430; Somsisch et al., 1988, Mol. Gen. Genet. 2:93-98; and Yang, 1996, Proc. Natl. Acad. Sci. USA 93:14972-14977. See also, Chen et al., 1996, Plant J. 10:955-966; Zhang et al., 1994, Proc. Natl. Acad. Sci. USA 91:2507-2511; Warner et al., 1993, Plant J. 3:191-201; Siebertz et al., 1989, Plant Cell 1:961-968; U.S. Pat. No. 5,750,386; Cordero et al., 1992, Physiol. Mol. Plant. Path. 41:189-200; and the references cited therein.

Additionally, as pathogens find entry into plants through wounds or insect damage, a wound-inducible promoter may be used in the DNA constructs of the invention. Such wound-inducible promoters include potato proteinase inhibitor (pin II) gene (Ryan, 1990, Ann. Rev. Phytopath. 28:425-449; Duan et al., 1996, Nature Biotechnology 14:494-498); wun1 and wun2, U.S. Pat. No. 5,428,148; win1 and win2 (Stanford et al., 1989, Mol. Gen. Genet. 215:200-208); systemin (McGurl et al., 1992, Science 225:1570-1573); WIPI (Rohmeier et al., 1993, Plant Mol. Biol. 22:783-792; Eckelkamp et al., 1993, FEBS Letters 323:73-76); MPI gene (Corderok et al., 1994, Plant J. 6(2):141-150); and the like. Such references are herein incorporated by reference.

Chemical-regulated promoters can be used to modulate the expression of a gene in a plant through the application of an exogenous chemical regulator. Depending upon the objective, the promoter may be a chemical-inducible promoter, where application of the chemical induces gene expression, or a chemical-repressible promoter, where application of the chemical represses gene expression. Chemical-inducible promoters are known in the art and include, but are not limited to, the maize In2-2 promoter, which is activated by benzenesulfonamide herbicide safeners, the maize GST promoter, which is activated by hydrophobic electrophilic compounds that are used as pre-emergent herbicides, and the tobacco PR-1 a promoter, which is activated by salicylic acid. Other chemical-regulated promoters of interest include steroid-responsive promoters (see, for example, the glucocorticoid-inducible promoter in Schena et al., 1991, Proc. Natl. Acad. Sci. USA 88:10421-10425 and McNellis et al., 1998, Plant J. 14(2):247-257) and tetramiR167e-inducible and tetramiR167e-repressible promoters (see, for example, Gatz et al., 1991, Mol. Gen. Genet. 227:229-237, and U.S. Pat. Nos. 5,814,618 and 5,789,156), herein incorporated by reference.

Where enhanced expression in particular tissues is desired, tissue-preferred promoters can be utilized. Tissue-preferred promoters include those described by Yamamoto et al., 1997, Plant J. 12(2):255-265; Kawamata et al., 1997, Plant Cell Physiol. 38(7):792-803; Hansen et al., 1997, Mol. Gen. Genet. 254(3):337-343; Russell et al., 1997, Transgenic Res. 6(2):157-168; Rinehart et al., 1996, Plant Physiol. 112(3):1331-1341; Van Camp et al., 1996, Plant Physiol. 112(2):525-535; Canevascini et al., 1996, Plant Physiol. 12(2):513-524; Yamamoto et al., 1994, Plant Cell Physiol. 35(5):773-778; Lam, 1994, Results Probl. Cell Differ. 20:181-196; Orozco et al., 1993, Plant Mol. Biol. 23(6): 1129-1138; Matsuoka et al., 1993, Proc Natl. Acad. Sci. USA 90(20):9586-9590; and Guevara-Garcia et al., 1993, Plant J 4(3):495-505.

The particular promoter selected should be capable of causing sufficient expression to result in the production of an effective amount of structural gene product in the transgenic plant, e.g., GLK1 to cause upregulation of genes such as GLN1.3 and increased nitrogen assimilation, biomass, overall plant growth or yield, and/or other phenotypes described herein, as compared to wild type. The promoters used in the vector constructs of the present invention may be modified, if desired, to affect their control characteristics. In certain embodiments, chimeric promoters can be used.

There are promoters known which limit expression to particular plant parts or in response to particular stimuli. One skilled in the art will know of many such plant part-specific promoters which would be useful in the present invention. In certain embodiments, to provide pericycle-specific expression, any of a number of promoters from genes in Arabidopsis can be used. In some embodiments, the promoter from one (or more) of the following genes may be used: (i) At1g11080, (ii) At3g60160, (iii) At1g24575, (iv) At3g45160, or (v) At1g23130. In specific embodiments, we will also use (vi) promoter elements from the GFP-marker line used in Gifford et al. (in preparation) (see also, Bonke et al., 2003, Nature 426, 181-6; Tian et al., 2004, Plant Physiol 135, 25-38). Several of the predicted genes have a number of potential orthologs in rice and poplar and thus are predicted that they will be applicable for use in crop species; (i) Os04g44410, Os10g39560, Os06g51370, Os02g42310, Os01g22980, Os05g06660, and Poptr1#568263, Poptr1#555534, Poptr1#365170; (ii) Os04g49900, Os04g49890, Os01g67580, and Poptr1#87573, Poptr1#80582, Poptr1#565079, Poptr1#99223.

Promoters used in the nucleic acid constructs of the present invention can be modified, if desired, to affect their control characteristics. For example, the CaMV 35S promoter may be ligated to the portion of the ssRUBISCO gene that represses the expression of ssRUBISCO in the absence of light, to create a promoter which is active in leaves but not in roots. The resulting chimeric promoter may be used as described herein. For purposes of this description, the phrase “CaMV 35S” promoter thus includes variations of CaMV 35S promoter, e.g., promoters derived by means of ligation with operator regions, random or controlled mutagenesis, etc. Furthermore, the promoters may be altered to contain multiple “enhancer sequences” to assist in elevating gene expression.

An efficient plant promoter that may be used in specific embodiments is an “overproducing” or “overexpressing” plant promoter. Overexpressing plant promoters that can be used in the compositions and methods provided herein include the promoter of the small sub-unit (“ss”) of the ribulose-1,5-biphosphate carboxylase from soybean (e.g., Berry-Lowe et al., 1982, J. Molecular & App. Genet., 1:483), and the promoter of the chorophyll a-b binding protein. These two promoters are known to be light-induced in eukaryotic plant cells. For example, see Cashmore, Genetic Engineering of plants: An Agricultural Perspective, p. 29-38; Coruzzi et al., 1983, J. Biol. Chem., 258:1399; and Dunsmuir et al., 1983, J. Molecular & App. Genet., 2:285.

The promoters and control elements of, e.g., SUCS (root nodules; broadbean; Kuster et al., 1993, Mol Plant Microbe Interact 6:507-14) for roots can be used in compositions and methods provided herein to confer tissue specificity.

In certain embodiment, two promoter elements can be used in combination, such as, for example, (i) an inducible element responsive to a treatment that can be provided to the plant prior to N-fertilizer treatment, and (ii) a plant tissue-specific expression element to drive expression in the specific tissue alone.

Any promoter of other expression element described herein or known in the art may be used either alone or in combination with any other promoter or other expression element described herein or known in the art. For example, promoter elements that confer tissue specific expression of a gene can be used with other promoter elements conferring constitutive or inducible expression.

6.6 Isolating Related Promoter Sequences

Promoter and promoter control elements that are related to those described in herein can also be used in the compositions and methods provided herein. Such related sequence can be isolated utilizing (a) nucleotide sequence identity; (b) coding sequence identity of related, orthologous genes; or (c) common function or gene products.

Relatives can include both naturally occurring promoters and non-natural promoter sequences. Non-natural related promoters include nucleotide substitutions, insertions or deletions of naturally-occurring promoter sequences that do not substantially affect transcription modulation activity. For example, the binding of relevant DNA binding proteins can still occur with the non-natural promoter sequences and promoter control elements of the present invention.

According to current knowledge, promoter sequences and promoter control elements exist as functionally important regions, such as protein binding sites, and spacer regions. These spacer regions are apparently required for proper positioning of the protein binding sites. Thus, nucleotide substitutions, insertions and deletions can be tolerated in these spacer regions to a certain degree without loss of function.

In contrast, less variation is permissible in the functionally important regions, since changes in the sequence can interfere with protein binding. Nonetheless, some variation in the functionally important regions is permissible so long as function is conserved.

The effects of substitutions, insertions and deletions to the promoter sequences or promoter control elements may be to increase or decrease the binding of relevant DNA binding proteins to modulate transcript levels of a polynucleotide to be transcribed. Effects may include tissue-specific or condition-specific modulation of transcript levels of the polypeptide to be transcribed. Polynucleotides representing changes to the nucleotide sequence of the DNA-protein contact region by insertion of additional nucleotides, changes to identity of relevant nucleotides, including use of chemically-modified bases, or deletion of one or more nucleotides are considered encompassed by the present invention.

Typically, related promoters exhibit at least 80% sequence identity, preferably at least 85%, more preferably at least 90%, and most preferably at least 95%, even more preferably, at least 96%, at least 97%, at least 98% or at least 99% sequence identity. Such sequence identity can be calculated by the algorithms and computers programs described above.

Usually, such sequence identity is exhibited in an alignment region that is at least 75% of the length of a sequence or corresponding full-length sequence of a promoter described herein; more usually at least 80%; more usually, at least 85%, more usually at least 90%, and most usually at least 95%, even more usually, at least 96%, at least 97%, at least 98% or at least 99% of the length of a sequence of a promoter described herein.

The percentage of the alignment length is calculated by counting the number of residues of the sequence in region of strongest alignment, e.g., a continuous region of the sequence that contains the greatest number of residues that are identical to the residues between two sequences that are being aligned. The number of residues in the region of strongest alignment is divided by the total residue length of a sequence of a promoter described herein. These related promoters may exhibit similar preferential transcription as those promoters described herein.

In certain embodiments, a promoter, such as a leaf-preferred or leaf-specific promoter, can be identified by sequence homology or sequence identity to any root specific promoter identified herein. In other embodiments, orthologous genes identified herein as leaf-specific genes (e.g., the same gene or different gene that if functionally equivalent) for a given species can be identified and the associated promoter can also be used in the compositions and methods provided herein. For example, using high, medium or low stringency conditions, standard promoter rules can be used to identify other useful promoters from orthologous genes for use in the compositions and methods provided herein. In specific embodiments, the orthologous gene is a gene expressed only or primarily in the root, such as pericycle cells.

Polynucleotides can be tested for activity by cloning the sequence into an appropriate vector, transforming plants with the construct and assaying for marker gene expression. Recombinant DNA constructs can be prepared, which comprise the polynucleotide sequences of the invention inserted into a vector suitable for transformation of plant cells. The construct can be made using standard recombinant DNA techniques (Sambrook et al., 1989) and can be introduced to the species of interest by Agrobacterium-mediated transformation or by other means of transformation as referenced below.

The vector backbone can be any of those typical in the art such as plasmids, viruses, artificial chromosomes, BACs, YACs and PACs and vectors of the sort described by (a) BAC: Shizuya et al., 1992, Proc. Natl. Acad. Sci. USA 89: 8794-8797; Hamilton et al., 1996, Proc. Natl. Acad. Sci. USA 93: 9975-9979; (b) YAC: Burke et al., 1987, Science 236:806-812; (c) PAC: Sternberg N. et al., 1990, Proc Natl Acad Sci USA. January; 87(1):103-7; (d) Bacteria-Yeast Shuttle Vectors: Bradshaw et al., 1995, Nucl Acids Res 23: 4850-4856; (e) Lambda Phage Vectors: Replacement Vector, e.g., Frischauf et al., 1983, J. Mol. Biol. 170: 827-842; or Insertion vector, e.g., Huynh et al., 1985, In: Glover N M (ed) DNA Cloning: A practical Approach, Vol. 1 Oxford: IRL Press; T-DNA gene fusion vectors: Walden et al., 1990, Mol Cell Biol 1: 175-194; and (g) Plasmid vectors: Sambrook et al., infra.

Typically, the construct comprises a vector containing a sequence of the present invention operationally linked to any marker gene. The polynucleotide was identified as a promoter by the expression of the marker gene. Although many marker genes can be used, Green Fluorescent Protein (GFP) is preferred. The vector may also comprise a marker gene that confers a selectable phenotype on plant cells. The marker may encode biocide resistance, particularly antibiotic resistance, such as resistance to kanamycin, G418, bleomycin, hygromycin, or herbicide resistance, such as resistance to chlorosulfuron or phosphinotricin (see below). Vectors can also include origins of replication, scaffold attachment regions (SARs), markers, homologous sequences, introns, etc.

6.7 Tissue or Cell-Type Preferential Transcription

The invention also provides a method of providing increased transcription of a nucleic acid sequence in a selected tissue, such as vegetative tissues, leaves, seeds, fruit, etc. The method comprises growing a plant having integrated in its genome a nucleic acid construct comprising, an exogeneous gene encoding CCA1, GLK1 or bZIP1, said gene operably associated with a tissue specific promoter, whereby transcription of said gene is increased (or decreased) in said selected tissue.

Specific promoters may be used in the compositions and methods provided herein. As used herein, “specific promoters” refers to a subset of promoters that have a high preference for modulating transcript levels in a specific tissue or organ or cell and/or at a specific time during development of an organism. By “high preference” is meant at least 3-fold, preferably 5-fold, more preferably at least 10-fold still more preferably at least 20-fold, 50-fold or 100-fold increase in transcript levels under the specific condition over the transcription under any other reference condition considered. Typical examples of temporal and/or tissue or organ specific promoters of plant origin that can be used in the compositions and methods of the present invention, include RCc2 and RCc3, promoters that direct root-specific gene transcription in rice (Xu et al., 1995, Plant Mol. Biol. 27:237 and TobRB27, a root-specific promoter from tobacco (Yamamoto et al., 1991, Plant Cell 3:371). Examples of tissue-specific promoters under developmental control include promoters that initiate transcription only in certain tissues or organs, such as roots

“Preferential transcription” is defined as transcription that occurs in a particular pattern of cell types or developmental times or in response to specific stimuli or combination thereof. Non-limitative examples of preferential transcription include: high transcript levels of a desired sequence in root tissues; detectable transcript levels of a desired sequence in certain cell types during embryogenesis; and low transcript levels of a desired sequence under drought conditions. Such preferential transcription can be determined by measuring initiation, rate, and/or levels of transcription.

Promoters and control elements providing preferential transcription in a root can modulate growth, metabolism, development, nutrient uptake, nitrogen fixation, or modulate energy and nutrient utilization in host cells or organisms. In a plant, for example, preferential modulation of genes, transcripts, and/or in a leaf, is useful (1) to modulate root size, shape, and development; (2) to modulate the number of roots, or root hairs; (3) to modulate mineral, fertilizer, or water uptake; (4) to modulate transport of nutrients; or (4) to modulate energy or nutrient usage in relation to other organs and tissues. Up-regulation and transcription down-regulation is useful for these applications. For instance, genes, transcripts, and/or polypeptides that increase growth, for example, may require up-regulation of transcription. In contrast, transcriptional down-regulation may be desired to inhibit nutrient usage in a root to be directed to the leaf instead, for instance.

Typically, promoter or control elements, which provide preferential transcription in cells, tissues, or organs of a root, produce transcript levels that are statistically significant as compared to other cells, organs or tissues. For preferential up-regulation of transcription, promoter and control elements produce transcript levels that are above background of the assay.

Root-preferred promoters are known and can be selected from the many available from the literature. See, for example, Hire et al., 1992, Plant Mol. Biol. 20(2): 207-218 (soybean root-preferred glutamine synthetase gene); Keller and Baumgartner, 1991, Plant Cell 3(10):1051-1061 (root-preferred control element in the GRP 1.8 gene of French bean); Sanger et al., 1990, Plant Mol. Biol. 14(3):433-443 (root-preferred promoter of the mannopine synthase (MAS) gene of Agrobacterium tumefaciens); Miao et al., 1991, Plant Cell 3(1):11-22 (full-length cDNA clone encoding cytosolic glutamine synthetase (GS), which is expressed in roots and root nodules of soybean). Bogusz et al., 1990, Plant Cell 2(7):633-641 (root-preferred promoters from hemoglobin genes from the nitrogen-fixing nonlegume Parasponia andersonii and the related non-nitrogen-fixing nonlegume Trema tomentosa). Leach and Aoyagi, 1991, Plant Science (Limerick) 79(1):69-76 (ro1C and ro1D root-inducing genes of Agrobacterium rhizogenes); Teeri et al., 1989, EMBO J. 8(2):343-350) (octopine synthase and TR2′ gene); (VfENOD-GRP3 gene promoter); Kuster et al., 1995, Plant Mol. Biol. 29(4):759-772 and Capana et al., 1994, Plant Mol. Biol. 25(4):681-691 ro1B promoter. See also U.S. Pat. Nos. 5,837,876; 5,750,386; 5,633,363; 5,459,252; 5,401,836; 5,110,732; and 5,023,179, root-specific glutamine synthetase (see Tingey et al., 1987, EMBO J., 6:1-9; Edwards et al., 1990, PNAS, 87:3439-3463). In addition, promoters of the above-listed orthologous genes in other plant species can be identified and used in the compositions and methods provided herein.

In specific embodiments, the compositions and methods provided herein use leaf-specific promoters operably associated to a nucleotide encoding bZIP1. In certain embodiments, the promoter is a constitutive or inducible promoter. In another specific embodiment, the compositions and methods provided herein use vegetative tissue-specific promoters operably associated to a nucleotide encoding CCA1 and/or GLK1. In certain embodiments, the promoter is a constitutive or inducible promoter.

6.8 Selectable Markers

Using any gene transfer technique, such as the above-listed techniques, an expression vector harboring the nucleic acid may be transformed into a cell to achieve temporary or prolonged expression. Any suitable expression system may be used, so long as it is capable of undergoing transformation and expressing of the precursor nucleic acid in the cell. In one embodiment, a pET vector (Novagen, Madison, Wis.), or a pBI vector (Clontech, Palo Alto, Calif.) is used as the expression vector. In some embodiments an expression vector further encoding a green fluorescent protein (“GFP”) is used to allow simple selection of transfected cells and to monitor expression levels. Non-limiting examples of such vectors include Clontech's “Living Colors Vectors” pEYFP and pEYFP-C.

The recombinant construct of the present invention may include a selectable marker for propagation of the construct. For example, a construct to be propagated in bacteria preferably contains an antibiotic resistance gene, such as one that confers resistance to kanamycin, tetracycline, streptomycin, or chloramphenicol. Suitable vectors for propagating the construct include plasmids, cosmids, bacteriophages or viruses, to name but a few.

In addition, the recombinant constructs may include plant-expressible selectable or screenable marker genes for isolating, identifying or tracking of plant cells transformed by these constructs. Selectable markers include, but are not limited to, genes that confer antibiotic resistances (e.g., resistance to kanamycin or hygromycin) or herbicide resistance (e.g., resistance to sulfonylurea, phosphinothricin, or glyphosate). Screenable markers include, but are not limited to, the genes encoding β-glucuronidase (Jefferson, 1987, Plant Molec Biol. Rep 5:387-405), luciferase (Ow et al., 1986, Science 234:856-859), B and C1 gene products that regulate anthocyanin pigment production (Goff et al., 1990, EMBO J. 9:2517-2522).

In some cases, a selectable marker may be included with the nucleic acid being delivered to the cell. As used herein, the term “selectable marker” refers to the use of a gene that encodes an enzymatic or other detectable activity (e.g., luminescence or fluorescence) that confers the ability to grow in medium lacking what would otherwise be an essential nutrient. A selectable marker may also confer resistance to an antibiotic or drug upon the cell in which the selectable marker is expressed. Selectable markers may be “dominant” in some cases; a dominant selectable marker encodes an enzymatic or other activity (e.g., luminescence or fluorescence) that can be detected in any cell or cell line.

Optionally, a selectable marker may be associated with the CCA1-, GLK1 or bZIP1-encoding nucleic acid. Preferably, the marker gene is an antibiotic resistance gene whereby the appropriate antibiotic can be used to select for transformed cells from among cells that are not transformed. Examples of suitable selectable markers include adenosine deaminase, dihydrofolate reductase, hygromycin-B-phosphotransferase, thymidine kinase, xanthine-guanine phospho-ribosyltransferase and amino-glycoside 3′-O-phosphotransferase II. Other suitable markers will be known to those of skill in the art.

6.9 Selection and Identification of Transformed Plants and Plant Cells

According to the present invention, desired plants may be obtained by engineering the disclosed gene constructs into a variety of plant cell types, including but not limited to, protoplasts, tissue culture cells, tissue and organ explants, pollens, embryos as well as whole plants. In specific embodiments, the gene constructs are engineered into leaves, preferably with the use of a leaf-specific promoter.

In an embodiment of the present invention, the engineered plant material is selected or screened for transformants (those that have incorporated or integrated the introduced gene construct(s)) following the approaches and methods described below. An isolated transformant may then be regenerated into a plant. Alternatively, the engineered plant material may be regenerated into a plant or plantlet before subjecting the derived plant or plantlet to selection or screening for the marker gene traits. Procedures for regenerating plants from plant cells, tissues or organs, either before or after selecting or screening for marker gene(s), are well known to those skilled in the art.

A transformed plant cell, callus, tissue or plant may be identified and isolated by selecting or screening the engineered plant material for traits encoded by the marker genes present on the transforming DNA. For instance, selection may be performed by growing the engineered plant material on media containing inhibitory amount of the antibiotic or herbicide to which the transforming gene construct confers resistance. Further, transformed plants and plant cells may also be identified by screening for the activities of any visible marker genes (e.g., the β-glucuronidase, luciferase, B or C1 genes) that may be present on the recombinant nucleic acid constructs of the present invention. Such selection and screening methodologies are well known to those skilled in the art.

Physical and biochemical methods also may be also to identify plant or plant cell transformants containing the gene constructs of the present invention. These methods include but are not limited to: 1) Southern analysis or PCR amplification for detecting and determining the structure of the recombinant DNA insert; 2) Northern blot, 51 RNase protection, primer-extension or reverse transcriptase-PCR amplification for detecting and examining RNA transcripts of the gene constructs; 3) enzymatic assays for detecting enzyme or ribozyme activity, where such gene products are encoded by the gene construct; 4) protein gel electrophoresis, Western blot techniques, immunoprecipitation, or enzyme-linked immunoassays, where the gene construct products are proteins. Additional techniques, such as in situ hybridization, enzyme staining, and immunostaining, also may be used to detect the presence or expression of the recombinant construct in specific plant organs and tissues. The methods for doing all these assays are well known to those skilled in the art.

6.10 Screening of Transformed Plants for Those with Improved Agronomic Traits

According to the present invention, to obtain plants with improved agronomic characteristics, the transformed plants may be screened for those exhibiting the desired physiological alteration. Alternatively, the transformed plants may be directly screened for those exhibiting the desired agronomic changes. A plant with the desired improvement can be isolated by screening the engineered plants for altered expression pattern or level of CCA1, GLK1 and/or bZIP1, or downstream gene products such as GLN1.3 or ASN1. A plant can also be screened for nutrient uptake, overall increased plant growth rate, enhanced vegetative yield, improved reproductive yields, increased levels of glutamine or asparagine, or increased nitrogen usage or storage. The screening of the engineered plants can involve Southern analysis to confirm the presence and number of transgene insertions; Northern analysis, RNase protection, primer extension, reverse transcriptase/PCR and the like to measure mRNA levels; measuring the amino acid composition, free amino acid pool or total nitrogen content of various plant tissues; measuring growth rates in terms of fresh weight gains over time; or measuring plant yield in terms of total dry weight and/or total seed weight, or a combination of any of the above methods. The procedures and methods for examining these parameters are well known to those skilled in the art.

In other embodiments, the screening of the transformed plants may be for improved agronomic characteristics (e.g., faster growth, greater vegetative or reproductive yields, or improved protein contents, etc.), as compared to unengineered progenitor plants, when cultivated under growth conditions (i.e., cultivated using soils or media containing or receiving sufficient amounts of nitrogen nutrients to sustain healthy plant growth).

Plants exhibiting increased growth and/or yield as compared with wild-type plants can be selected by visual observation, methods provided in the Examples, or other methods known in the art.

A “plant capable of increased yield” refers to a plant that can be induced to express its endogenous CCA1, GLK1 and/or bZIP1 gene to achieve increased yield. The term “promoter inducing amount” refers to that amount of an agent necessary to elevate such gene expression above such expression in a plant cell not contacted with the agent, by stimulating the endogenous promoter. For example, a transcription factor or a chemical agent may be used to elevate gene expression from native or chimeric CCA1, GLK1 and/or bZIP1 promoter, thus inducing the promoter and gene expression.

6.11 Cells

Optionally, germ line cells may be used in the methods described herein rather than, or in addition to, somatic cells. The term “germ line cells” refers to cells in the plant organism which can trace their eventual cell lineage to either the male or female reproductive cell of the plant. Other cells, referred to as “somatic cells” are cells which give rise to leaves, roots and vascular elements which, although important to the plant, do not directly give rise to gamete cells. Somatic cells, however, also may be used. With regard to callus and suspension cells which have somatic embryogenesis, many or most of the cells in the culture have the potential capacity to give rise to an adult plant. If the plant originates from single cells or a small number of cells from the embryogenic callus or suspension culture, the cells in the callus and suspension can therefore be referred to as germ cells. In the case of immature embryos which are prepared for treatment by the methods described herein, certain cells in the apical meristem region of the plant have been shown to produce a cell lineage which eventually gives rise to the female and male reproductive organs. With many or most species, the apical meristem is generally regarded as giving rise to the lineage that eventually will give rise to the gamete cells. An example of a non-gamete cell in an embryo would be the first leaf primordia in corn which is destined to give rise only to the first leaf and none of the reproductive structures.

6.12 Plant Regeneration

Following transformation, a plant may be regenerated, e.g., from single cells, callus tissue or leaf discs, as is standard in the art. Almost any plant can be entirely regenerated from cells, tissues, and organs of the plant. Available techniques are reviewed in Vasil et al., 1984, in Cell Culture and Somatic Cell Genetics of Plants, Vols. I, II, and III, Laboratory Procedures and Their Applications (Academic Press); and Weissbach et al., 1989, Methods For Plant Mol. Biol.

The transformed plants may then be grown, and either pollinated with the same transformed strain or different strains, and the resulting hybrid having expression of the desired phenotypic characteristic identified. Two or more generations may be grown to ensure that expression of the desired phenotypic characteristic is stably maintained and inherited and then seeds harvested to ensure expression of the desired phenotypic characteristic has been achieved.

Normally, a plant cell is regenerated to obtain a whole plant from the transformation process. The term “growing” or “regeneration” as used herein means growing a whole plant from a plant cell, a group of plant cells, a plant part (including seeds), or a plant piece (e.g., from a protoplast, callus, or tissue part).

Regeneration from protoplasts varies from species to species of plants, but generally a suspension of protoplasts is first made. In certain species, embryo formation can then be induced from the protoplast suspension. The culture media will generally contain various amino acids and hormones, necessary for growth and regeneration. Examples of hormones utilized include auxins and cytokinins. Efficient regeneration will depend on the medium, on the genotype, and on the history of the culture. If these variables are controlled, regeneration is reproducible.

Regeneration also occurs from plant callus, explants, organs or parts. Transformation can be performed in the context of organ or plant part regeneration (see Methods in Enzymology, Vol. 118 and Klee et al., Annual Review of Plant Physiology, 38:467, 1987). Utilizing the leaf disk-transformation-regeneration method of Horsch et al., Science, 227:1229, 1985, disks are cultured on selective media, followed by shoot formation in about 2-4 weeks. Shoots that develop are excised from calli and transplanted to appropriate root-inducing selective medium. Rooted plantlets are transplanted to soil as soon as possible after roots appear. The plantlets can be repotted as required, until reaching maturity.

In vegetatively propagated crops, the mature transgenic plants are propagated by utilizing cuttings or tissue culture techniques to produce multiple identical plants. Selection of desirable transgenics is made and new varieties are obtained and propagated vegetatively for commercial use.

In seed propagated crops, mature transgenic plants can be self crossed to produce a homozygous inbred plant. The resulting inbred plant produces seed containing the newly introduced foreign gene(s). These seeds can be grown to produce plants that would produce the selected phenotype, e.g., increased lateral root growth, uptake of nutrients, overall plant growth and/or vegetative or reproductive yields.

Parts obtained from the regenerated plant, such as flowers, seeds, leaves, branches, fruit, and the like are included in the invention, provided that these parts comprise cells comprising the isolated nucleic acid of the present invention. Progeny and variants, and mutants of the regenerated plants are also included within the scope of the invention, provided that these parts comprise the introduced nucleic acid sequences. Transgenic plants expressing the selectable marker can be screened for transmission of the nucleic acid of the present invention by, for example, standard immunoblot and DNA detection techniques. Transgenic lines are also typically evaluated on levels of expression of the heterologous nucleic acid. Expression at the RNA level can be determined initially to identify and quantitate expression-positive plants. Standard techniques for RNA analysis can be employed and include PCR amplification assays using oligonucleotide primers designed to amplify only the heterologous RNA templates and solution hybridization assays using heterologous nucleic acid-specific probes. The RNA-positive plants can then analyzed for protein expression by Western immunoblot analysis using the specifically reactive antibodies of the present invention. In addition, in situ hybridization and immunocytochemistry according to standard protocols can be done using heterologous nucleic acid specific polynucleotide probes and antibodies, respectively, to localize sites of expression within transgenic tissue. Generally, a number of transgenic lines are usually screened for the incorporated nucleic acid to identify and select plants with the most appropriate expression profiles.

A preferred embodiment is a transgenic plant that is homozygous for the added heterologous nucleic acid; i.e., a transgenic plant that contains two added nucleic acid sequences, one gene at the same locus on each chromosome of a chromosome pair. A homozygous transgenic plant can be obtained by sexually mating (selfing) a heterozygous transgenic plant that contains a single added heterologous nucleic acid, germinating some of the seed produced and analyzing the resulting plants produced for altered expression of a polynucleotide of the present invention relative to a control plant (i.e., native, non-transgenic). Back-crossing to a parental plant and out-crossing with a non-transgenic plant are also contemplated.

Transformed plant cells which are derived by any of the above transformation techniques can be cultured to regenerate a whole plant which possesses the transformed genotype. Such regeneration techniques often rely on manipulation of certain phytohormones in a tissue culture growth medium. For transformation and regeneration of maize see, Gordon-Kamm et al., 1990, The Plant Cell, 2:603-618.

Plants cells transformed with a plant expression vector can be regenerated, e.g., from single cells, callus tissue or leaf discs according to standard plant tissue culture techniques. It is well known in the art that various cells, tissues, and organs from almost any plant can be successfully cultured to regenerate an entire plant. Plant regeneration from cultured protoplasts is described in Evans et al., 1983, Protoplasts Isolation and Culture, Handbook of Plant Cell Culture, Macmillan Publishing Company, New York, pp. 124-176; and Binding, Regeneration of Plants, Plant Protoplasts, 1985, CRC Press, Boca Raton, pp. 21-73.

The regeneration of plants containing the foreign gene introduced by Agrobacterium from leaf explants can be achieved as described by Horsch et al., 1985, Science, 227:1229-1231. In this procedure, transformants are grown in the presence of a selection agent and in a medium that induces the regeneration of shoots in the plant species being transformed as described by Fraley et al., 1983, Proc. Natl. Acad. Sci. (U.S.A.), 80:4803. This procedure typically produces shoots within two to four weeks and these transformant shoots are then transferred to an appropriate root-inducing medium containing the selective agent and an antibiotic to prevent bacterial growth. Transgenic plants of the present invention may be fertile or sterile.

The regeneration of plants from either single plant protoplasts or various explants is well known in the art. See, for example, Methods for Plant Molecular Biology, A. Weissbach and H. Weissbach, eds., 1988, Academic Press, Inc., San Diego, Calif. This regeneration and growth process includes the steps of selection of transformant cells and shoots, rooting the transformant shoots and growth of the plantlets in soil. For maize cell culture and regeneration see generally, The Maize Handbook, Freeling and Walbot, Eds., 1994, Springer, New York 1994; Corn and Corn Improvement, 3rd edition, Sprague and Dudley Eds., 1988, American Society of Agronomy, Madison, Wis.

6.13 Plants and Plant Cells

Also provided herein are a plant cell having the nucleotide sequence constructs of the invention. A further aspect of the present invention provides a method of making such a plant cell involving introduction of a vector including the construct into a plant cell. For integration of the construct into the plant genome, such introduction will be followed by recombination between the vector and the plant cell genome to introduce the sequence of nucleotides into the genome. RNA encoded by the introduced nucleic acid construct may then be transcribed in the cell and descendants thereof, including cells in plants regenerated from transformed material. A gene stably incorporated into the genome of a plant is passed from generation to generation to descendants of the plant, so such descendants should show the desired phenotype.

In certain embodiments, a plant cell comprises a GLK1 nucleotide sequence operably associated with a vegetative tissue specific promoter, which is optionally a constitutive or inducible promoter. In other embodiments, a plant cell comprises multiple copies of a GLK1 operably associated with a vegetative tissue specific promoter. In specific embodiments provided herein are plants (and plant cells thereof) that overexpress, contitutionally express and/or inducibly express GLK1 in the vegetative tissues of the plant, as compared to other tissues in the plant and/or as compared to a wild type plant.

The present invention also provides a plant comprising a plant cell as disclosed. Transformed seeds and plant parts are also encompassed.

In addition to a plant, the present invention provides any clone of such a plant, seed, selfed or hybrid progeny and descendants, and any part of any of these, such as cuttings, seed. The invention provides any plant propagule, that is any part which may be used in reproduction or propagation, sexual or asexual, including cuttings, seed and so on. Also encompassed by the invention is a plant which is a sexually or asexually propagated off-spring, clone or descendant of such a plant, or any part or propagule of said plant, off-spring, clone or descendant. Plant extracts and derivatives are also provided.

Any species of woody, ornamental or decorative, crop or cereal, fruit or vegetable plant, and algae (e.g., Chlamydomonas reinhardtii) may be used in the compositions and methods provided herein. Non-limiting examples of plants include plants from the genus Arabidopsis or the genus Oryza. Other examples include plants from the genuses Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Persea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.

Plants included in the invention are any plants amenable to transformation techniques, including gymnosperms and angiosperms, both monocotyledons and dicotyledons.

Examples of monocotyledonous angiosperms include, but are not limited to, asparagus, field and sweet corn, barley, wheat, rice, sorghum, onion, pearl millet, rye and oats and other cereal grains.

Examples of dicotyledonous angiosperms include, but are not limited to tomato, tobacco, cotton, rapeseed, field beans, soybeans, peppers, lettuce, peas, alfalfa, clover, cole crops or Brassica oleracea (e.g., cabbage, broccoli, cauliflower, brussel sprouts), radish, carrot, beets, eggplant, spinach, cucumber, squash, melons, cantaloupe, sunflowers and various ornamentals.

Examples of woody species include poplar, pine, sequoia, cedar, oak, etc.

Still other examples of plants include, but are not limited to, wheat, cauliflower, tomato, tobacco, corn, petunia, trees, etc.

In certain embodiments, plants of the present invention are crop plants (for example, cereals and pulses, maize, wheat, potatoes, tapioca, rice, sorghum, millet, cassaya, barley, pea, and other root, tuber, or seed crops. Exemplary cereal crops used in the compositions and methods of the invention include, but are not limited to, any species of grass, or grain plant (e.g., barley, corn, oats, rice, wild rice, rye, wheat, millet, sorghum, triticale, etc.), non-grass plants (e.g., buckwheat flax, legumes or soybeans, etc.). Grain plants that provide seeds of interest include oil-seed plants and leguminous plants. Other seeds of interest include grain seeds, such as corn, wheat, barley, rice, sorghum, rye, etc. Oil seed plants include cotton, soybean, safflower, sunflower, Brassica, maize, alfalfa, palm, coconut, etc. Other important seed crops are oil-seed rape, sugar beet, maize, sunflower, soybean, and sorghum. Leguminous plants include beans and peas. Beans include guar, locust bean, fenugreek, soybean, garden beans, cowpea, mungbean, lima bean, fava bean, lentils, chickpea, etc.

Horticultural plants to which the present invention may be applied may include lettuce, endive, and vegetable brassicas including cabbage, broccoli, and cauliflower, and carnations and geraniums. The present invention may also be applied to tobacco, cucurbits, carrot, strawberry, sunflower, tomato, pepper, chrysanthemum, poplar, eucalyptus, and pine.

The present invention may be used for transformation of other plant species, including, but not limited to, corn (Zea mays), canola (Brassica napus, Brassica rapa ssp.), alfalfa (Medicago sativa), rice (Oryza sativa), rye (Secale cereale), sorghum (Sorghum bicolor, Sorghum vulgare), sunflower (Helianthus annuus), wheat (Triticum aestivum), soybean (Glycine max), tobacco (Nicotiana tabacum, Nicotiana benthamiana), potato (Solanum tuberosum), peanuts (Arachis hypogaea), cotton (Gossypium hirsutum), sweet potato (Ipomoea batatus), cassaya (Manihot esculenta), coffee (Coffea spp.), coconut (Cocos nucifera), pineapple (Ananas comosus), citrus trees (Citrus spp.), cocoa (Theobroma cacao), tea (Camellia sinensis), banana (Musa spp.), avocado (Persea americana), fig (Ficus casica), guava (Psidium guajava), mango (Mangifera indica), olive (Olea europaea), papaya (Carica papaya), cashew (Anacardium occidentale), macadamia (Macadamia integrifolia), almond (Prunus amygdalus), sugar beets (Beta vulgaris), oats, barley, Arabidopsis spp., vegetables, ornamentals, and conifers.

6.14 Cultivation

Methods of cultivation of plants are well known in the art. For example, for the cultivation of wheat see Alcoz et al., 1993, Agronomy Journal 85:1198-1203; Rao and Dao, 1992, J. Am. Soc. Agronomy 84:1028-1032; Howard and Lessman, 1991, Agronomy Journal 83:208-211; for the cultivation of corn see Tollenear et al., 1993, Agronomy Journal 85:251-255; Straw et al., Tennessee Farm and Home Science: Progress Report, Spring 1993, 166:20-24; Miles, S. R., 1934, J. Am. Soc. Agronomy 26:129-137; Dara et al., 1992, J. Am. Soc. Agronomy 84:1006-1010; Binford et al., 1992, Agronomy Journal 84:53-59; for the cultivation of soybean see Chen et al., 1992, Canadian Journal of Plant Science 72:1049-1056; Wallace et al., 1990, Journal of Plant Nutrition 13:1523-1537; for the cultivation of rice see Oritani and Yoshida, 1984, Japanese Journal of Crop Science 53:204-212; for the cultivation of linseed see Diepenbrock and Porksen, 1992, Industrial Crops and Products 1:165-173; for the cultivation of tomato see Grubinger et al., 1993, Journal of the American Society for Horticultural Science 118:212-216; Cerne, M., 1990, Acta Horticulture 277:179-182; for the cultivation of pineapple see Magistad et al., 1932, J. Am. Soc. Agronomy 24:610-622; Asoegwu, S, N., 1988, Fertilizer Research 15:203-210; Asoegwu, S, N., 1987, Fruits 42:505-509; for the cultivation of lettuce see Richardson and Hardgrave, 1992, Journal of the Science of Food and Agriculture 59:345-349; for the cultivation of mint see Munsi, P. S., 1992, Acta Horticulturae 306:436-443; for the cultivation of camomile see Letchamo, W., 1992, Acta Horticulturae 306:375-384; for the cultivation of tobacco see Sisson et al., 1991, Crop Science 31:1615-1620; for the cultivation of potato see Porter and Sisson, 1991, American Potato Journal, 68:493-505; for the cultivation of brassica crops see Rahn et al., 1992, Conference “Proceedings, second congress of the European Society for Agronomy” Warwick Univ., p. 424-425; for the cultivation of banana see Hegde and Srinivas, 1991, Tropical Agriculture 68:331-334; Langenegger and Smith, 1988, Fruits 43:639-643; for the cultivation of strawberries see Human and Kotze, 1990, Communications in Soil Science and Plant Analysis 21:771-782; for the cultivation of songhum see Mahalle and Seth, 1989, Indian Journal of Agricultural Sciences 59:395-397; for the cultivation of plantain see Anjorin and Obigbesan, 1985, Conference “International Cooperation for Effective Plantain and Banana Research” Proceedings of the third meeting. Abidjan, Ivory Coast, p. 115-117; for the cultivation of sugar cane see Yadav, R. L., 1986, Fertiliser News 31:17-22; Yadav and Sharma, 1983, Indian Journal of Agricultural Sciences 53:38-43; for the cultivation of sugar beet see Draycott et al., 1983, Conference “Symposium Nitrogen and Sugar Beet” International Institute for Sugar Beet Research—Brussels Belgium, p. 293-303. See also Goh and Haynes, 1986, “Nitrogen and Agronomic Practice” in Mineral Nitrogen in the Plant-Soil System, Academic Press, Inc., Orlando, Fla., p. 379-468; Engelstad, O. P., 1985, Fertilizer Technology and Use, Third Edition, Soil Science Society of America, p. 633; Yadav and Sharmna, 1983, Indian Journal of Agricultural Sciences, 53:3-43.

6.15 Products of Transgenic Plants

Engineered plants exhibiting the desired physiological and/or agronomic changes can be used directly in agricultural production.

Thus, provided herein are products derived from the transgenic plants or methods of producing transgenic plants provided herein. In certain embodiments, the products are commercial products. Some non-limiting example include genetically engineered trees for e.g., the production of pulp, paper, paper products or lumber; tobacco, e.g., for the production of cigarettes, cigars, or chewing tobacco; crops, e.g., for the production of fruits, vegetables and other food, including grains, e.g., for the production of wheat, bread, flour, rice, corn; and canola, sunflower, e.g., for the production of oils or biofuels.

In certain embodiments, commercial products are derived from a genetically engineered (e.g., comprising overexpression of GLK1 in the vegetative tissues of the plant) species of woody, ornamental or decorative, crop or cereal, fruit or vegetable plant, and algae (e.g., Chlamydomonas reinhardtii), which may be used in the compositions and methods provided herein. Non-limiting examples of plants include plants from the genus Arabidopsis or the genus Oryza. Other examples include plants from the genuses Acorus, Aegilops, Allium, Amborella, Antirrhinum, Apium, Arachis, Beta, Betula, Brassica, Capsicum, Ceratopteris, Citrus, Cryptomeria, Cycas, Descurainia, Eschscholzia, Eucalyptus, Glycine, Gossypium, Hedyotis, Helianthus, Hordeum, Ipomoea, Lactuca, Linum, Liriodendron, Lotus, Lupinus, Lycopersicon, Medicago, Mesembryanthemum, Nicotiana, Nuphar, Pennisetum, Peryea, Phaseolus, Physcomitrella, Picea, Pinus, Poncirus, Populus, Prunus, Robinia, Rosa, Saccharum, Schedonorus, Secale, Sesamum, Solanum, Sorghum, Stevia, Thellungiella, Theobroma, Triphysaria, Triticum, Vitis, Zea, or Zinnia.

In some embodiments, commercial products are derived from a genetically engineered gymnosperms and angiosperms, both monocotyledons and dicotyledons. Examples of monocotyledonous angiosperms include, but are not limited to, asparagus, field and sweet corn, barley, wheat, rice, sorghum, onion, pearl millet, rye and oats and other cereal grains. Examples of dicotyledonous angiosperms include, but are not limited to tomato, tobacco, cotton, rapeseed, field beans, soybeans, peppers, lettuce, peas, alfalfa, clover, cole crops or Brassica oleracea (e.g., cabbage, broccoli, cauliflower, brussel sprouts), radish, carrot, beets, eggplant, spinach, cucumber, squash, melons, cantaloupe, sunflowers and various ornamentals.

In certain embodiments, commercial products are derived from a genetically engineered (e.g., comprising overexpression of bZIP1 in the leaves or seeds of the plant) woody species, such as poplar, pine, sequoia, cedar, oak, etc.

In other embodiments, commercial products are derived from a genetically engineered (e.g., comprising overexpression of CCA1 and GLK1 in the vegetative tissues of the plant) plant including, but are not limited to, wheat, cauliflower, tomato, tobacco, corn, petunia, trees, etc.

In certain embodiments, commercial products are derived from a genetically engineered crop plants, for example, cereals and pulses, maize, wheat, potatoes, tapioca, rice, sorghum, millet, cassaya, barley, pea, and other root, tuber, or seed crops. In one embodiment, commercial products are derived from a genetically engineered (e.g., comprising overexpression of CCA1 and GLK1 and underexpression of bZIP1 in the vegetative tissues of the plant) cereal crops, including, but are not limited to, any species of grass, or grain plant (e.g., barley, corn, oats, rice, wild rice, rye, wheat, millet, sorghum, triticale, etc.), non-grass plants (e.g., buckwheat flax, legumes or soybeans, etc.). In another embodiments, commercial products are derived from a genetically engineered (e.g., comprising overexpression of bZIP1 and optionally underexpression of CCA1 and/or GLK1 in leaf or seed tissue of the plant) grain plants that provide seeds of interest, oil-seed plants and leguminous plants. In other embodiments, commercial products are derived from a genetically engineered grain seed plants, such as corn, wheat, barley, rice, sorghum, rye, etc. In yet other embodiments, commercial products are derived from a genetically engineered (e.g., comprising overexpression of bZIP1 and optionally underexpression of CCA1 and/or GLK1 in leaf or seed tissue of the plant) oil seed plants, such as cotton, soybean, safflower, sunflower, Brassica, maize, alfalfa, palm, coconut, etc. In certain embodiments, commercial products are derived from a genetically engineered oil-seed rape, sugar beet, maize, sunflower, soybean, or sorghum. In some embodiments, commercial products are derived from a genetically engineered leguminous plants, such as beans and peas (e.g., guar, locust bean, fenugreek, soybean, garden beans, cowpea, mungbean, lima bean, fava bean, lentils, chickpea, etc.)

In certain embodiments, commercial products are derived from a genetically engineered horticultural plant of the present invention, such as lettuce, endive, and vegetable brassicas including cabbage, broccoli, and cauliflower, and carnations and geraniums; tomato, tobacco, cucurbits, carrot, strawberry, sunflower, tomato, pepper, chrysanthemum, poplar, eucalyptus, and pine.

In still other embodiments, commercial products are derived from a genetically engineered corn (Zea mays), canola (Brassica napus, Brassica rapa ssp.), alfalfa (Medicago sativa), rice (Oryza sativa), rye (Secale cereale), sorghum (Sorghum bicolor, Sorghum vulgare), sunflower (Helianthus annuus), wheat (Triticum aestivum), soybean (Glycine max), tobacco (Nicotiana tabacum, Nicotiana benthamiana), potato (Solanum tuberosum), peanuts (Arachis hypogaea), cotton (Gossypium hirsutum), sweet potato (Ipomoea batatus), cassaya (Manihot esculenta), coffee (Coffea spp.), coconut (Cocos nucifera), pineapple (Ananas comosus), citrus trees (Citrus spp.), cocoa (Theobroma cacao), tea (Camellia sinensis), banana (Musa spp.), avocado (Peryea americana), fig (Ficus casica), guava (Psidium guajava), mango (Mangifera indica), olive (Olea europaea), papaya (Carica papaya), cashew (Anacardium occidentale), macadamia (Macadamia integrifolia), almond (Prunus amygdalus), sugar beets (Beta vulgaris), oats, barley, Arabidopsis spp., vegetables, ornamentals, and conifers.

6.16 Kits

In one aspect, the present invention provides any of the above-mentioned compositions in kits, optionally including instructions for use of the composition e.g., for the overexpression or underexpression of CCA1, GLK1 or bZIP1. The “kit” typically defines a package including one or more compositions of the invention and the instructions, and/or analogs, derivatives, or functionally equivalent compositions thereof. Thus, for example, the kit can include a description of use of the composition for participation in any technique associated in the overexpression or underexpression of genes. The kit can include a description of use of the compositions as discussed herein. Instructions also may be provided for use of the composition in any suitable technique as previously described. The instructions may be of any form provided in connection with the composition.

The kits described herein may also contain one or more containers, which may contain the inventive composition and other ingredients as previously described. The kits also may contain instructions for mixing, diluting, and/or administrating the compositions in some cases. The kits also can include other containers with one or more solvents, surfactants, preservative and/or diluents (e.g., normal saline (0.9% NaCl), or 5% dextrose) as well as containers for mixing, diluting and/or administrating the compositions.

The compositions of the kit may be provided as any suitable form, for example, as liquid solutions or as dried powders. When the composition provided is a dry powder, the composition may be reconstituted by the addition of a suitable solvent, which may also be provided. In embodiments where liquid forms of the composition are used, the liquid form may be concentrated or ready to use. The solvent will depend on the active compound(s) within the composition. Suitable solvents are well known, for example as previously described, and are available in the literature.

The invention also involves, in another aspect, promotion of the overexpression of a master regulatory gene of the present invention, e.g., CCA1/GLK1/bZIP1, according to any of the systems or methods described herein. As used herein, “promoted” includes all methods of doing business including methods of education, hospital and other clinical instruction, pharmaceutical industry activity including pharmaceutical sales, and any advertising or other promotional activity including written, oral and electronic communication of any form, associated with compositions of the invention. “Instructions” can define a component of promotion, and typically involve written instructions on or associated with packaging of compositions of the invention. Instructions also can include any oral or electronic instructions provided in any manner.

7. EXAMPLE

7.1 Introduction

Nitrogen (N) is an essential nutrient and a metabolic signal that is sensed and transduced resulting in the control of gene expression in plants. Studies using nitrate reductase (NR) mutant plants, have shown that nitrate can serve as a metabolic signal for inorganic N that regulates gene expression in Arabidopsis thaliana and other plant species (Wang et al., 2004, Plant Physiol 136:2512-2522; Wang et al., 2003, Plant Physiol 132:556-567; Forde, 2002, Ann. Rev. Plant Biology 53:203-224; Scheible, et al., 2004, Plant Physiol 136:2483-2499). There is also ample though less direct evidence that the assimilated forms of N such as Glu or Gln may also serve as signals that regulate gene expression in plants (Rawat et al., 1999, Plant J 19:143-152; Oliveira et al., 1999, Plant Physiol 121:301-310). The ability of plants to sense and respond to levels of inorganic and organic N metabolites provides a mechanism to balance the availability of organic N resources within the plant with the need for N uptake. Because nitrate uptake, reduction and its assimilation into organic form require energy, a mechanism that activates this N assimilatory pathway based on sensing levels of organic N available in the plant is an efficient way to control N-use efficiency (Forde, 2002, Ann. Rev. Plant Biology 53:203-224). In plants, the transcription of genes involved in the uptake and assimilation of inorganic N is induced when levels of organic N are low. Conversely, the uptake and reduction of inorganic N are shut off when levels of organic N are high (reviewed in Scheible, et al., 1997, Plant Cell 9:783-798).

Recent microarray studies have shown that nitrate can cause changes in the expression of a large number of genes in Arabidopsis (Wang et al., 2004, Plant Physiol 136:2512-2522; Wang et al., 2003, Plant Physiol 132:556-567). Treatment of Arabidopsis seedlings with low levels of nitrate has been shown to increase the levels of mRNA for hundreds of genes within minutes of exposure. The nitrate-responsive genes include nitrate transporters, NR and nitrite reductase, putative transcription factors, stress responses genes, as well as genes whose products play roles in glycolysis, iron metabolism, and sulfate uptake (Wang et al., 2004, Plant Physiol 136:2512-2522; Wang et al., 2003, Plant Physiol 132:556-567). In a related study, N-starved plants underwent a transcriptome/metabolome analysis 30 min and 3 h after nitrate treatment (Scheible, et al., 2004, Plant Physiol 136:2483-2499). The expression of nitrate transporters (at 30 min) preceded the induction of amino acid biosynthetic genes and the repression of amino acid breakdown genes (at 3 h). In addition, increases in amino acid levels were observed, consistent with the changes in expression of the cognate amino acid biosynthesis genes. Putative nitrate-responsive regulatory factors including transcription factors, protein kinases/phosphatases and trehalose and hormone metabolic genes were also identified in that study. Recently, using a NR-null mutant, it was shown that nitrate and not a product of nitrate reduction and assimilation, regulates the expression of genes involved in energy production, metabolism, glycolysis and gluconeogenesis (Wang et al., 2004, Plant Physiol 136:2512-2522).

Nitrogen metabolism genes can be regulated by negative feedback of the products of N assimilation including downstream organic N metabolites such as Glu or Gln. For example, the expression of the ammonium transporter gene ammonium transporter 1 (AMT1.1) is repressed in treatments with high levels of inorganic N. It has been shown that this repression is blocked by methionine sulfoximine (MSX), a non-metabolizable analog of Glu that irreversibly inhibits glutamine synthetase and hence blocks N assimilation into Gln (Rawat et al., 1999, Plant J 19:143-152). Thus, it appears that organic forms of N may regulate the uptake of N in plants. In addition, the genes encoding asparagine synthetase 1 (ASN1) and 2 (ASN2), are differentially regulated by organic and inorganic N sources. Organic N treatments were shown to positively regulate levels of ASN1 mRNA (Oliveira et al., 1999, Plant Physiol 121:301-310), whereas ASN2 gene expression appears to be responsive to inorganic N sources and not a downstream metabolite (Wang et al., 2004, Plant Physiol 136:2512-2522). Together, these studies prompt a model in which both inorganic as well as organic N sources can each regulate plant gene expression affecting N uptake, reduction and assimilation.

In study presented below, a genomic approach was used to identify gene networks whose expression is regulated by Glu or Glu-derived metabolites (organic N) in plants. Plants were treated with inorganic nitrogen sources in the presence or absence of MSX, which served to inhibit the assimilation of ammonium into Glu/Gln by blocking glutamine synthetase. The rationale for this approach was that a subset of nitrogen-responsive genes responding specifically to an organic signal (e.g. Glu/Gln) would not respond to nitrogen treatment if the synthesis of Glu/Gln was blocked by transient MSX treatments. Network analysis of the genes that responded to organic N revealed that transcription control of gene expression is important for a subnetwork of metabolic genes involved in the synthesis and degradation of asparagine (Asn), an important nitrogen-transport/storage compound synthesized when levels of nitrogen are abundant and degraded when nitrogen reserves are mobilized. The metabolic gene network discovered in this analysis provides molecular evidence for regulation of N-use at the level of gene expression. Moreover, the transcription factors regulated by organic N associated with this network provide a mechanistic link between circadian clock function and N-assimilation in plants.

7.2 Materials and Methods

Plant growth conditions. Wild type Arabidopsis thaliana ecotype Columbia-0 strain was used in all experiments unless indicated otherwise. Seeds were surface sterilized with ethanol and bleach as previously described (Brenner et al., 2000, Plant Physiol. 124:1615-1624) and sowed onto basal MS salts (Sigma, St Louis, Mo.) with 0.5% (w/v) sucrose, 0.8% BactoAgar, and 1 mM KNO3. After 14 days under long day (16 hours light: 8 hours dark) at 22° C., plants were transiently treated for 2 h in the light at the start of their light cycle by transferring them to basal medium with 0.5% sucrose and a combination of inorganic nitrogen sources (20 mM KNO3 and 20 mM NH4NO3) with or without 1 mM MSX (Sigma M-5379), 10 mM glutamate (Sigma G-1501) and/or 10 mM glutamine (Sigma G-3126): N; N+MSX; N+MSX+Glu respectively.

RNA isolation and quantitative real time PCR. RNA was isolated from whole plants with the TRIzol reagent and according to the instructions of the manufacturer (InVitrogen, Carlsbad, Calif.). cDNA synthesis from whole mRNA extractions was carried out according to kit manufacturer instructions (Invitrogen, Catalog number 11146-024). Real time quantitative PCR was carried out with a LightCycler (Roche Diagnostics, Mannheim, Germany) as described previously (Thum, K. E., Shasha, D. E., Lejay, L. V. & Coruzzi, G. M. (2003) Plant Physiol 132, 440-52).

Microarray experiments and analysis. cDNA synthesis, array hybridization, and normalization of the signal intensities were performed according to the instructions provided by Affymetrix (Santa Clara, Calif.). All raw microarray data was processed with MASv5.0 software as follows. Each hybridization was normalized to a median intensity of 150. Each treatment replica was compared with the two baselines to generate 4 comparisons per treatment. Data points with absent/marginal calls (Affymetrix quality control) in both baseline and treatment were removed. Data points with absent call in one hybridization and present call in the other hybridization were eliminated if the probe called present had a signal intensity of <100. The response of each gene was summarized using the Affymetrix change calls “I” for induced, “D” for decreased and “NC” for not changed. Data points were considered only if the change calls were consistent in at least 3 out of the 4 comparisons. This stepwise filtering resulted in a set of 834 genes that were detected and responded consistently in our experiments. We used custom made S-PLUS and PERL functions to analyze and visualize groups of genes with similar expression patterns based on the Affymetrix change calls.

Network analysis. For network analysis, an existing network model of plant gene interactions was used (Gutierrez, R. A., Lejay, L. V., Dean, A., Chiaromonte, F., Shasha, D. E. & Coruzzi, G. M. (2007) Genome Biol. 8(1):R7). In addition, protein:DNA interactions were predicted based as follows: The consensus sequence for transcription binding sites from well curated databases DATF (Guo, A., He, K., Liu, D., Bai, S., Gu, X., Wei, L. & Luo, J. (2005) Bioinformatics 21, 2568-2569) and AGRIS (Davuluri, R., Sun, H., Palaniswamy, S., Matthews, N., Molina, C., Kurtz, M. & Grotewold, E. (2003) BMC Bioinformatics 4, 25) were searched in 1500 base pairs of upstream sequence using the DNA pattern search tool from the RSA tools server with default parameters (van Helden, J. (2003) Nucleic Acids Res 31, 3593-3596). The search was performed in both strands of DNA, the upstream region was not allowed to overlap with the coding region of the upstream gene, motif matches were not allowed to overlap. A motif was considered over-represented if it was present in an upstream sequence more than 3 times the standard deviation above the mean occurrence in all the upstream sequences in the genome. A protein:DNA interaction was predicted when the upstream sequence of the gene contained an over representation of the regulatory motif for that transcription factor and the expression of the transcription factor and putative target gene was highly (≧0.7 or ≦−0.7) and significantly (p≦0.01) correlated. Similar regulatory predictions for other microarray data sets can be generated with the VirtualPlant system (http://www.virtualplant.org) using the “Gene Networks” tool.

Chromatin immunoprecipitation assays (ChIP): Immunoprecipitations (IP) were performed as previously described (Gendrel, A., Lippman, Z., Martienssen, R. A. & Colot, V. (2005) Profiling histone modification patterns in plants using genomic tiling microarrays Nat Methods 2, 219-224). Briefly, two weeks old wild-type and CCA1-ox plants were collected at the beginning of the light cycle and immediately fixed in 1% formaldehyde for 15 min in a vacuum at room temperature. Crosslinking was stopped by the addition of glycine to a final concentration of 0.125 M. Nuclei were prepared for chromatin isolation. The isolated chromatin was sonicated ten times for 20 s each at 100% power (Diagenode Bioruptor) in an ice water bath. A small aliquot of sheared chromatin was removed to serve as control. The diluted chromatin was used for IP with the CCA1 antibody and one control IP without antibody. The primer sequences used for amplification of the CCA1 binding sites in each of the genes tested are listed in Table 1.

TABLE 1
GenePUB locusPrimer 1Primer 2
bZIP1At5g494505′-GATCGAAAATAAGGAAAGTGGG-3′5′-ACTGGTCACCTATTAAGGAAC-3′
(SEQ ID NO: 5)(SEQ ID NO: 6)
TOC1At5g613805′-TGGACGGTGGAGATTAAGTC-3′5′-ACGAAACGAAGCCGAATCCT-3′
(SEQ ID NO: 7)(SEQ ID NO: 8)
ZTLAt5g573605′-AGTCGCCGGAGATTATGAAGACGG-5′-GGTTTTATCTACTTGACCCGACAG-3′
3′ (SEQ ID NO: 9)(SEQ ID NO: 10)
GDH1At5g181705′-TGTTTCAATAGCATTAGCCTCCA-3′5′-TGGGGAATGTGACACACATAATC-3′
(SEQ ID NO: 11)(SEQ ID NO: 12)
GLN1.3At3g178205′-TTGAATCCGAAGAGGGGAAAA-3′5′-AACAACTGCTACCAATTTCCTTG-3′
(SEQ ID NO: 13)(SEQ ID NO: 14)

PCR amplifications included 95° C. for 2 min followed by 36 cycles of 95° C. for 15 s, 58° C. (for bZIP1, TOC1 and GDH1) or 60° C. (for ZTL and GLN1.3) for 30 s and 72° C. for 30 s.

Circadian phase response curves: CCA1::LUC seedlings were entrained on MS basal medium plus 0.5% sucrose and 1 mM KNO3 for 8 d in 16/8 h light/dark (100-150 μmol m2 s1), after which seedlings were moved into continuous light. At 3-hr intervals, seedlings (n=16 per treatment) were transferred to fresh solid medium plus 2 mL liquid Nms or medium containing 10 mM Glu or 10 mM Gln for 4 hr, then rinsed in liquid entrainment medium 3 times for a total of 30 min and transferred individually to the wells of 96-well microtiter plates containing fresh solid media for luciferase activity measurements which were determined with a Packard TopCount scintillation counter as described (Salome, P. A., et al. (2002) The out of phase 1 mutant defines a role for PHYB in circadian phase control in Arabidopsis Plant Physiol 129, 1674-85). The period and phase of rhythms after the pulses were determined by fast-Fourier transform nonlinear least-square analysis (Plautz, J. D., et al. (1997) Quantitative analysis of Drosophila period gene transcription in living animals J Biol Rhythms 12, 204-17). The phase shifts were calculated as described (Covington, M. F., et al. (2001) ELF3 modulates resetting of the circadian clock in Arabidopsis Plant Cell 13, 1305-15).

7.3 Results

Inorganic versus organic N responses. To uncouple gene responses to inorganic N from those elicited by downstream products of inorganic N assimilation, treatments of Arabidopsis seedlings with combinations of inorganic N (nitrate and ammonium), organic forms of N (e.g., Glu, Gln), and MSX, an inhibitor of glutamine synthetase were performed (King et al., 1993, Plant Pysiol. 102:1279-1286) (FIG. 7). Genes regulated by inorganic N signals should be unaffected by MSX treatment. By contrast, genes responding to a downstream organic N signal should fail to show induction by inorganic N treatments if Glu/Gln synthesis is blocked by MSX. This block of induction by MSX should be relieved by Glu treatment. Following this rationale, two-week-old Arabidopsis seedlings grown on low concentrations of N (1 mM NO3) were transferred to media containing 40 mM NO3 and 20 mM NH4+ (referred to as “Nms”). Seedlings were then harvested after a 2 h treatment time. This treatment was carried out alone (Nms), in the presence of 1 mM MSX (Nms+MSX) or 1 mM MSX and 10 mM Glu (Nms+MSX+Glu). The Nms treatment consists of the same N source found in standard MS salts which is the established standard amount of N for plant growth (Murashige et al., 1962, Plant Physiol. 15:473-497). A concentration of 1 mM MSX has previously been established as effective in blocking the N repression of AMT1.1 in Arabidopsis seedlings and in decreasing levels of internal organic N (Rawat et al., 1999, Plant J 19:143-152). A concentration of 10 mM for Glu treatments was chosen because this has been shown to be effective in the regulation of N assimilatory genes while not being high enough to be detrimental to plant growth or development (Oliveria et al., 1999, Plant Physiol. 121-301-310). To evaluate the effect of MSX alone, plants were exposed to growth media that contained MSX. To control for the effect of the plant transfer to distinct media, plants were transferred onto media plates without any of the treatment factors. This latter control was used as the base line for the microarray experiments described below.

To evaluate the experimental design, the mRNA level of genes shown to be responsive to organic N (ASN1) or inorganic N (ASN2) was determined by reverse transcription followed by real time quantitative PCR(RT-qPCR). This analysis showed that the ASN1 mRNA level was induced 3.5-fold by the Nms treatment as compared to the control (FIG. 8, compare Nms versus the control). This induction of ASN1 mRNA was blocked when MSX was present (FIG. 8A, Nms+MSX versus Nms). Importantly, when exogenous Glu or Gln was added, ASN1 levels were induced regardless of the presence of MSX (FIG. 8A, compare Control to Nms+MSX+Glu and Nms+MSX+Gln). These results indicate that the induction of ASN1 is due to Glu or a downstream metabolite, as shown previously (Lam et al., 1998, Plant J 16:345-353; Oliveira et al., 2001, Braz J Med Biol Res 34:567-575). In addition, the control treatments showed that MSX alone does not induce expression of ASN1 or ASN2 (FIG. 8). The addition of Glu or Gln partially blocked the induction of ASN2 by the Nms treatment (FIG. 8B), consistent with the negative regulation by amino acids seen previously (Lam et al., 1998, Plant J 16:345-353). Conversely, the induction of ASN2 mRNA by Nms was insensitive to MSX addition (FIG. 8B), suggesting the induction was mediated by an inorganic N source. This finding was consistent with previous data which indicates that ASN2 gene expression correlates with ammonium levels (Wong et al., 2004, Plant Physiol 134:332-812).

Global genomic responses to organic and inorganic nitrogen signals. To investigate global gene expression changes that are mediated by Glu or a Glu-derived metabolite, the plant transcriptome was monitored using the ATH1 Affymetrix gene chip. Total RNA was extracted from plants treated with Nms, Nms+MSX or Nms+MSX+Glu as described above; two biological replicates per treatment were performed. The Nms+MSX+Gln treatments were not analyzed using microarrays because Gln and Glu responses were similar in our hands (FIG. 8). RNA was labeled and hybridized to the microarrays, the raw intensity values were normalized and the data filtered as described in Materials and Methods. A gene was kept in the data set only if its expression was reproducible and reliable across the 3 different treatments (Nms, Nms+MSX, Nms+MSX+Glu). A total of 5,904 genes were identified that passed these stringent quality control criteria. In order to verify the microarray results, we analyzed the mRNA levels of selected genes by RT-qPCR including the TAZ zinc binding (At4g37610) and bZIP (At5g49450) transcription factors with results similar to the microarray data (FIG. 9). As expected, the genomic experiments verified the previous observation that AMT1.1 and ASN1 are regulated by organic N. In addition, the results identified additional genes regulated by organic N as described below.

Genes were categorized based on their response to the treatments using the Affymetrix change calls: induced (I), no change (NC) or decreased (D). Each gene was assigned a three-part code (e.g. I-NC-I) which corresponds to the gene expression response in the Nms, Nms+MSX, and Nms+MSX+Glu treatments respectively. 21 unique patterns of response were found (See Annex) and Table 2 (in each column the gene listed on the left is predicted to control the expression of the gene on the right, i.e., At1g74840 is predicted to control the expression of At2g47060, At5g24800 is predicted to control the expression of At5g13930).

TABLE 2
At1g74840reg0.9At2g47060At5g24800reg0.7At5g13930
At5g14540reg0.9At5g53370At5g48655reg0.8At5g53370
At3g61150reg0.7At4g30810At1g74840reg0.8At5g01820
At2g46830reg0.8At5g01820At5g24800reg0.8At2g30040
At5g48655reg0.7At2g30040At2g33710reg0.8At2g30040
At4g17490reg0.8At2g30040At2g46830reg0.7At2g30040
At5g44190reg0.8At2g30040At1g74840reg0.7At4g28100
At2g20570reg0.8At4g28100At1g22070reg0.7At4g33300
At2g46830reg0.7At1g06000At5g48655reg0.9At5g11790
At1g74840reg0.8At4g36640At1g22070reg0.8At4g19810
At5g24800reg0.9At4g19810At5g49450reg0.9At2g39980
At3g01560reg0.7At2g15970At1g43160reg0.9At2g15970
At1g22070reg0.7At2g15970At2g20570reg0.7At2g22240
At5g49450reg0.8At1g49500At2g20570reg0.8At1g27730
At2g46830reg0.9At1g27730At4g37260reg0.7At3g04070
At5g24800reg0.8At2g36290At5g48655reg0.7At5g63790
At5g48655reg0.7At4g28250At2g04880reg0.9At5g45340
At2g25000reg0.7At5g45340At2g38470reg1.0At5g45340
At5g44190reg0.8At1g29670At5g14540reg0.7At1g70330
At1g53910reg0.7At1g70330At5g14540reg0.8At3g58560
At2g22430reg0.8At2g30870At5g47230reg0.7At2g30870
At5g61890reg0.7At2g30870At2g22430reg0.8At2g35930
At2g38470reg0.7At1g33590At3g01560reg0.7At5g06320
At5g14540reg0.7At5g06320At3g61150reg0.7At2g44210
At5g49450reg1.0At2g44080At3g61890reg0.7At5g60850
At1g22070reg0.7At3g59220At2g20570reg0.7At1g60780
At1g43160reg0.7At1g74840At5g61890reg0.8At1g74840
At5g49450reg0.9At4g27410At5g14540reg0.8At2g40270
At4g37260reg0.7At1g77510At5g14540reg0.8At4g33400
At1g74840reg0.7At4g36250At3g61890reg0.9At5g05600
At1g74840reg0.9At1g53310At2g22430reg0.7At4g14960
At1g43160reg0.9At5g15960At5g61890reg0.9At5g15960
At2g22430reg0.8At3g23750At1g53910reg0.8At3g23750
At5g61890reg0.8At3g19680At3g01560reg0.8At2g47180
At1g43160reg0.7At2g47180At5g47230reg0.8At2g47180
At5g61890reg0.7At2g47180At2g22430reg0.7At5g01540
At5g14540reg0.7At2g39530At5g48655reg0.8At2g39530
At2g33710reg0.8At2g39530At1g74840reg0.9At1g51680
At1g22070reg0.8At4g39330At5g24800reg0.7At4g39330
At1g53910reg0.9At4g03260At5g14540reg0.8At1g76670
At2g22430reg0.7At1g76670At3g61150reg0.7At1g76670
At5g24800reg0.9At5g02270At2g20570reg0.8At5g35735
At5g61890reg0.8At3g47960At1g74840reg0.8At3g21230
At2g04880reg0.8At4g31500At4g31800reg0.7At4g31500
At3g61150reg0.8At5g63850At3g01560reg0.7At2g46600
At4g37260reg0.9At1g10760At1g74840reg0.8At3g54640
At5g49450reg0.7At1g76590At1g25560reg0.7At1g76590
At1g68840reg0.8At1g76590At5g24800reg0.7At5g44190
At1g74840reg0.9At5g60920At5g14540reg0.8At5g60920
At1g25560reg0.8At4g38470At1g68840reg0.7At4g38470
At2g20570reg0.8At2g37430At2g46830reg0.9At2g37430
At2g04880reg0.8At2g37430At2g25000reg0.8At2g37430
At2g30250reg0.7At2g37430At2g38470reg0.9At2g37430
At4g01250reg0.7At2g37430At2g20570reg0.9At1g74460
At2g46830reg0.8At1g74460At1g22070reg0.7At4g23630
At3g01560reg0.9At3g14280At5g14540reg0.7At3g14280
At3g61150reg0.7At3g14280At2g20570reg0.7At3g14280
At2g46830reg0.8At3g14280At2g04880reg0.8At5g44070
At2g38470reg0.9At5g44070At4g01250reg0.7At5g44070
At5g24800reg0.7At1g73080At2g33710reg0.9At3g56710
At4g17490reg0.9At3g56710At2g20570reg0.8At3g56710
At2g46830reg0.8At3g56710At1g74840reg0.8At2g30490
At3g01560reg0.7At2g42540At1g43160reg0.9At2g42540
At5g61890reg0.8At2g42540At1g74840reg0.7At1g47128
At2g46830reg0.7At1g47128At5g24800reg0.7At4g11280
At2g20570reg0.7At3g60030At4g37260reg0.7At3g47620
At5g49450reg0.8At3g21870At5g14540reg0.8At4g33050
At5g48655reg0.7At4g33050At3g01560reg0.7At5g01600
At1g43160reg0.8At5g01600At1g43160reg0.8At3g05890
At1g74840reg0.7At2g16630At4g37260reg0.9At2g16630
At2g04880reg0.9At5g45340At2g25000reg0.7At5g45340
At2g38470reg1.0At5g45340At3g01560reg0.7At2g22880
At5g48655reg0.7At2g22880At2g04880reg0.8At3g52400
At1g43160reg0.9At1g29395At5g61890reg0.7At1g29395
At1g74840reg0.8At2g16430At1g74840reg0.8At4g23210
At1g22070reg0.7At4g23210At5g49450reg0.8At4g21150
At1g22070reg0.9At3g48610At5g24800reg0.7At3g48610
At5g47230reg0.7At2g38700At1g74840reg0.7At4g30280
At5g14540reg0.7At1g53500At5g48655reg0.8At1g53500
At3g01560reg0.7At2g23120At5g14540reg0.8At5g09440
At2g22430reg0.8At5g09440At1g74840reg0.8At5g09440
At5g24800reg0.7At2g41630At2g20570reg0.8At1g56150
At2g46830reg0.8At1g56150At5g49450reg0.7At1g10070
At2g22430reg0.8At3g21240At3g01560reg0.8At5g16010
At4g37260reg0.9At5g46710At1g25560reg0.7At5g11420
At1g68840reg0.7At5g11420At5g24800reg0.7At4g01250
At5g44190reg0.7At3g07790At2g30250reg0.7At1g13110
At2g38470reg0.8At1g13110At4g01250reg0.9At1g13110
At1g22070reg0.8At2g25000At2g20570reg0.9At2g25000
At2g46830reg0.8At2g25000At2g04880reg0.8At2g25000
At2g38470reg0.7At2g25000At4g31800reg0.8At2g25000
At5g24800reg0.7At1g35780At3g01560reg0.8At5g11110
At1g74840reg0.9At5g11110At1g43160reg0.8At5g11110
At5g47230reg0.7At5g11110At5g61890reg0.7At5g11110
At3g61890reg0.8At4g12490At1g74840reg0.7At1g51700
At1g74840reg0.8At3g55970At4g37260reg0.7At3g55970
At4g17500reg0.8At5g49910At1g22070reg0.7At4g39800
At1g74840reg0.8At4g39800At2g20570reg0.7At4g39800
At2g46830reg0.8At4g39800At2g20570reg0.8At2g13790
At2g46830reg0.8At2g13790At3g61890reg1.0At1g52400
At2g20570reg0.8At5g18470At2g46830reg0.7At5g18470
At2g22430reg0.9At1g53910At5g14540reg0.9At2g40140
At5g48655reg0.9At2g40140At2g20570reg0.8At2g40890
At2g46830reg0.8At2g40890At1g74840reg0.7At3g55070
At4g37260reg0.7At1g68520At1g74840reg0.9At1g14780
At1g43160reg0.8At1g14780At5g61890reg0.9At1g14780
At2g22430reg0.9At2g39210At2g20570reg0.9At1g76600
At2g46830reg0.9At1g76600At2g04880reg0.9At1g76600
At2g25000reg0.8At1g76600At2g38470reg0.8At1g76600
At5g48655reg0.8At5g19240At2g22430reg0.7At3g02910
At2g22430reg0.9At3g63010At3g61890reg0.9At3g49120
At1g74840reg0.7At3g49120At4g37260reg0.8At3g49120
At5g14540reg0.7At3g52450At2g23320reg0.7At3g52450
At4g31800reg0.9At3g52450At1g25560reg0.7At5g58710
At1g68840reg0.7At5g58710At5g49450reg0.7At5g58710
At3g01560reg0.8At4g25650At1g53910reg0.7At4g04020
At4g17490reg0.7At4g04020At5g49450reg0.9At3g47340
At5g49450reg0.8At1g77120At5g48655reg0.7At2g26190
At4g37260reg0.7At5g49450At1g22070reg0.9At1g20440
At1g22070reg0.7At5g59820At5g48655reg0.8At1g26250
At1g74840reg0.8At5g07010At4g37260reg0.7At5g07010
At1g74840reg0.7At3g54690At2g20570reg0.7At3g54690
At2g46830reg0.8At3g54690At2g20570reg0.8At5g26920
At2g46830reg0.7At5g26920At3g61890reg0.8At2g02990
At1g74840reg0.8At5g61890At5g49450reg0.7At2g34500
At1g74840reg0.8At4g01700At2g46830reg0.7At4g01700
At2g20570reg0.9At5g59730At2g46830reg0.9At5g59730
At3g01560reg0.8At3g52470At5g14540reg0.8At3g52470
At5g48655reg0.7At3g52470At2g46830reg0.8At3g02800
At5g49450reg0.8At4g24800At4g37260reg0.7At4g24800
At2g20570reg0.8At5g25630At2g46830reg0.7At5g25630
At5g24800reg0.7At5g28900At2g20570reg0.7At4g27280
At2g46830reg0.8At4g27280At5g49450reg0.9At3g13450
At5g24800reg0.9At1g20510At2g20570reg0.7At1g20510
At2g46830reg0.8At1g20510At5g44190reg0.7At1g20510
At2g46830reg0.7At1g14730At5g61890reg0.7At1g43160
At3g01560reg0.8At5g06700At5g14540reg0.8At5g06700
At1g22070reg0.7At5g067001g74840reg0.8At5g06700
At2g20570reg0.7At5g067005g24800reg0.7At4g34450
At1g43160reg1.0At2g28900At1g74840reg0.7At2g28900
At4g37260reg0.7At2g289002g20570reg0.7At5g42310
At3g01560reg0.8At5g42310At5g14540reg0.8At5g42310
At3g01560reg0.7At2g43620At3g61890reg0.8At2g43620
At1g74840reg0.7At3g23810At2g20570reg0.8At3g17820
At2g46830reg0.7At3g17820At3g01560reg0.8At3g23820
At5g14540reg0.7At3g23820At1g74840reg0.8At3g23820
At1g43160reg0.7At3g23820At5g47230reg0.8At3g23820
At5g61890reg0.8At3g23820At5g49450reg0.9At3g57520
At3g61890reg0.9At4g22212At2g30250reg0.7At2g46225
At4g01250reg0.7At2g46225At4g23810reg0.8At2g46225
At5g49450reg0.7At4g37260At5g24800reg0.7At2g24940
At1g25560reg0.9At3g19390At1g68840reg0.9At3g19390
At3g01560reg0.8At1g21790At1g74840reg0.8At1g21790
At4g37260reg0.8At1g21790At4g37260reg0.7At1g12780
At2g20570reg0.7At5g54490At2g46830reg0.9At5g54490
At1g22070reg0.9At3g11670At5g24800reg0.7At3g11670
At5g49450reg-0.7At2g30040At1g25560reg-0.7At2g30040
At1g68840reg-0.7At2g30040At2g20570reg-0.9At1g80180
At2g46830reg-0.8At1g80180At1g22070reg-0.7At1g06760
At5g24800reg-0.8At5g61790At5g48655reg-0.7At1g11545
At2g20570reg-0.8At1g07040At2g46830reg-0.8At1g07040
At4g17500reg-0.7At2g15970At2g22430reg-0.9At1g49500
At5g44190reg-0.7At3g04070At4g37260reg-0.8At4g22710
At5g49450reg-0.8At5g63790At5g14540reg-0.7At3g60320
At5g48655reg-0.9At3g60320At2g22430reg-0.7At3g60320
At3g01560reg-0.7At4g37450At4g37260reg-0.7At1g77450
At1g22070reg-0.7At1g42480At2g46830reg-0.7At5g64570
At2g20570reg-0.8At5g39610At2g22430reg-0.8At5g39610
At3g61890reg-0.7At2g34640At5g24800reg-0.8At4g16660
At2g20570reg-0.7At5g60680At2g46830reg-0.7At5g60680
At4g17500reg-0.7At2g47180At1g22070reg-0.9At1g09210
At2g04880reg-0.7At1g68840At2g38470reg-0.8At1g68840
At2g22430reg-0.7At1g49860At5g44190reg-0.8At1g09240
At1g74840reg-0.7At1g76690At4g37260reg-0.9At1g76690
At1g43160reg-0.9At4g31130At5g61890reg-0.7At4g31130
At1g74840reg-0.7At4g31130At4g37260reg-0.8At4g31130
At5g49450reg-0.9At2g38470At5g44190reg-0.7At4g39980
At5g14540reg-0.9At4g12600At4g37260reg-0.8At3g25230
At1g74840reg-0.8At1g32170At2g20570reg-0.7At1g32170
At2g46830reg-0.7At1g32170At1g43160reg-0.7At2g29490
At5g47230reg-0.7At2g29490At5g61890reg-0.8At2g29490
At5g14540reg-0.8At5g05440At5g48655reg-0.8At5g05440
At2g33710reg-0.8At4g39675At2g20570reg-0.7At2g04280
At2g46830reg-0.7At2g04280At1g74840reg-0.7At5g49480
At2g22430reg-0.7At5g49480At3g61150reg-0.7At5g49480
At5g48655reg-0.7At1g76590At4g37260reg-0.7At1g32920
At2g33710reg-0.9At4g38470At4g17490reg-0.8At4g38470
At2g20570reg-0.7At4g38470At2g46830reg-0.8At4g38470
At5g44190reg-0.7At5g15410At2g20570reg-0.7At1g67910
At2g46830reg-0.8At1g67910At3g01560reg-0.7At5g25460
At5g14540reg-0.9At5g25460At5g48655reg-0.8At5g25460
At3g61150reg-0.7At3g48990At1g22070reg-0.8At3g48990
At5g24800reg-0.8At3g48990At5g49450reg-0.7At3g62960
At1g25560reg-0.8At3g56710At1g68840reg-0.7At3g56710
At5g44190reg-0.7At3g51550At1g74840reg-0.8At3g62120
At4g17500reg-0.7At2g42540At5g49450reg-0.8At4g11280
At1g22070reg-0.8At3g15950At3g01560reg-0.9At3g19130
At1g74840reg-0.7At4g21620At4g37260reg-0.8At4g21620
At5g14540reg-0.7At3g21870At5g48655reg-0.7At3g21870
At2g20570reg-0.8At3g15450At2g46830reg-0.8At3g15450
At4g17500reg-0.7At5g01600At4g17500reg-0.7At3g05890
At2g46830reg-0.8At1g22570At5g48655reg-0.9At3g14310
At3g61150reg-0.8At5g65390At2g20570reg-0.8At1g76160
At2g46830reg-0.7At1g76160At4g17500reg-0.7At1g29395
At5g49450reg-0.7At5g66510At1g74840reg-0.7At1g62480
At5g44190reg-0.8At3g07390At2g20570reg-0.8At2g33830
At2g46830reg-0.8At2g33830At3g61890reg-0.7At3g06680
At4g37260reg-0.8At5g23020At5g24800reg-0.7At1g10070
At5g48655reg-0.8At4g36670At2g38470reg-0.9At4g36670
At1g22070reg-0.7At2g44310At5g24800reg-0.7At2g44310
At2g22430reg-0.7At2g44310At3g61150reg-0.7At2g44310
At3g01560reg-0.7At4g12880At5g14540reg-0.8At4g12880
At5g48655reg-0.9At4g12880At1g74840reg-0.8At4g13770
At4g37260reg-0.7At4g13770At3g61150reg-0.7At3g54400
At5g44190reg-0.7At5g06530At5g48655reg-0.9At5g11420
At2g33710reg-0.9At5g11420At4g17490reg-0.8At5g11420
At1g74840reg-0.7At1g19870At4g37260reg-0.7At1g19870
At1g22070reg-0.8At1g19870At4g17500reg-0.7At1g35780
At4g17500reg-0.7At5g11110At5g49450reg-0.9At1g10960
At5g44190reg-0.7At5g06530At5g44190reg-0.7At3g55970
At4g37260reg-0.8At3g11700At3g01560reg-0.7At5g49910
At3g61890reg-0.8At4g23180At1g74840reg-0.9At4g23180
At4g37260reg-0.7At4g23180At1g74840reg-0.8At4g10480
At2g46830reg-0.7At4g10480At2g22430reg-0.7At5g43970
At3g61150reg-0.7At5g43970At3g61890reg-0.7At5g11670
At1g22070reg-0.7At1g56330At5g48655reg-0.7At1g68520
At5g44190reg-0.7At1g68520At3g61150reg-0.7At1g31420
At5g44190reg-1.0At2g23810At2g20570reg-0.9At3g15630
At2g46830reg-0.8At3g15630At2g20570reg-0.9At2g39570
At2g46830reg-0.8At2g39570At5g49450reg-0.8At1g76600
At1g74840reg-0.9At2g06850At5g14540reg-0.7At2g37640
At5g48655reg-0.7At2g37640At2g20570reg-0.8At2g37640
At2g46830reg-0.9At2g37640At1g74840reg-0.7At1g02930
At4g37260reg-0.8At1g02930At2g33710reg-0.8At5g58710
At3g61890reg-0.7At1g64640At1g74840reg-0.8At1g64640
At2g20570reg-0.8At3g49780At2g46830reg-0.9At3g49780
At5g24800reg-0.8At3g49780At5g24800reg-0.7At3g47340
At5g44190reg-0.8At1g09330At5g48655reg-0.7At5g49450
At2g20570reg-0.8At5g49450At2g46830reg-0.7At5g49450
At5g44190reg-0.8At5g07010At5g49450reg-0.7At2g29550
At1g22070reg-0.7At2g34500At1g74840reg-0.8At3g61440
At5g14540reg-0.8At2g24500At5g24800reg-0.7At5g11520
At4g37260reg-0.7At1g62380At5g48655reg-0.7At1g80070
At2g22430reg-0.8At3g13450At5g14540reg-0.8At1g24530
At1g22070reg-0.7At1g24530At5g49450reg-0.7At1g20510
At5g14540reg-0.7At1g73120At4g17500reg-0.7At1g43160
At1g74840reg-0.9At1g53240At2g20570reg-0.8At5g18170
At2g46830reg-0.8At5g18170At3g61890reg-0.8At2g30010
At1g74840reg-0.7At2g30010At4g37260reg-0.9At2g30010
At5g49450reg-0.7At2g30010At5g24800reg-0.9At5g49700
At4g17500reg-0.8At2g28900At5g24800reg-0.8At1g15690
At5g44190reg-0.8At4g12480At2g04880reg-0.9At5g22920
At2g25000reg-0.7At5g22920At2g38470reg-1.0At5g22920
At5g44190reg-0.8At3g23810At5g48655reg-0.8At3g57520
At2g20570reg-0.7At3g57520At2g46830reg-0.8At3g57520
At5g24800reg-0.7At3g57520At1g53910reg-0.8At5g04340
At5g24800reg-0.8At2g05380At2g33710reg-0.7At3g19390
At4g17490reg-0.8At3g19390At4g37260reg-0.8At3g12740
At2g20570reg-0.7At1g12780At3g61890reg-0.8At3g16530

The largest pattern was NC-NC-NC, representing 5,070 genes not affected by the treatments. The remainder 20 patterns (834 genes) were grouped into six classes that summarize the types of N-responses observed: (A) inorganic N, (B) inorganic N with Glu feedback, (C) organic N with no exogenous Glu rescue, (D) exogenous Glu, (E) exogenous and endogenous Glu and (F) exogenous and endogenous Glu with opposite effects (Table 3).

TABLE 3
Treatment
Nms +Genes
Nms +MSX +per
ResponseNmsMSXGluGenesclass
A)Inorganic nitrogenDDD100159
III59
B)Inorganic nitrogenDDNC3048
and GluIINC15
DDI3
C)Internal GluDNCNC194334
INCNC56
NCII49
NCDD33
DII2
D)External GluNCNCD89126
NCNCI37
E)Internal/External GluNCINC55164
NCDNC36
DNCD47
INCI22
IDI3
NCDI1
F)OppositeDNCI23
Internal/External GluINCD1
834
Nitrogen responses.
Patterns of expression based on their response to the Nms, Nms + MSX and Nms + MSX + Glu treatments.
D = decreased;
I = increased;
NC = not changed.
Genes were categorized into six classes based on these patterns.

The genes regulated in the experiments were compared to published results (Wang et al., 2004, Plant Physiol 136:2512-2522). This previous study identified 595 genes that responded similarly to nitrate treatment in both a NR-null mutant and wild-type plants. Because the mutant plants cannot assimilate nitrate, the responses observed were attributed to the action of nitrate as a signal and not a downstream metabolite. 80 out of these 595 genes showed consistent and reliable responses in the current experiments. Surprisingly, only 17 of these genes were found regulated by inorganic N signals in both studies (Table 4). Among these, we found nitrite reductase and several high affinity nitrate transporters. The majority, 58 of these 80 genes (73%), belonged to the C, D or E classes in the present studies suggesting that many previously described nitrate-responsive genes may respond to organic N signals (Table 4).

TABLE 4
Regulated byPUB LOCUSGene Name
Inorganic NAt4g191709-cis-epoxycarotenoid dioxygenase, putative/neoxanthin cleavage enzyme,
putative/carotenoid cleavage dioxygenase, putative similar to 9-cis-
epoxycarotenoid dioxygenase [Phaseolus vulgaris][GI: 6715257]; neoxanthin
cleavage enzyme, Lycopersicon esculentum, PATX: E325797
(68417.m02829)
Inorganic NAt3g61820aspartyl protease family protein contains Pfam domain, PF00026: eukaryotic
aspartyl protease (68416.m06939)
Inorganic NAt4g30190ATPase 2, plasma membrane-type, putative/proton pump 2, putative/proton-
exporting ATPase, putative strong similarity to SP
Inorganic NAt4g31500cytochrome P450 83B1 (CYP83B1) Identical to Cytochrome P450
(SP: O65782)[Arabidopsis thaliana] (68417.m04474)
Inorganic NAt1g05340expressed protein (68414.m00541)
Inorganic NAt1g19020expressed protein (68414.m02367)
Inorganic NAt1g32920expressed protein (68414.m04055)
Inorganic NAt2g41730expressed protein (68415.m05158)
Inorganic NAt1g14870expressed protein similar to PGPS/D12 [Petunia x hybrida] GI: 4105794;
contains Pfam profile PF04749: Protein of unknown function, DUF614
(68414.m01778)
Inorganic NAt5g25350F-box family protein contains Pfam PF00646: F-box domain and Pfam PF00560:
Leucine Rich Repeat (6 copies); similar to F-box protein
FBL6 (GI: 4432860) [Homo sapiens] (68418.m03007)
Inorganic NAt2g15620ferredoxin--nitrite reductase, putative strong similarity to ferredoxin--nitrite
reductase [Nicotiana tabacum] GI: 19893; contains Pfam profiles
PF03460: Nitrite/Sulfite reductase ferredoxin-like half domain, PF01077: Nitrite
and sulphite reductase 4Fe—4S domain (68415.m01789) GDSL-motif
Inorganic NAt5g55050lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386,
EXL1 GI: 15054382, EXL2 GI: 15054384 from
[Arabidopsis thaliana]; contains Pfam profile PF00657: GDSL-like
Lipase/Acylhydrolase (68418.m06861)
Inorganic NAt5g18600glutaredoxin family protein contains glutaredoxin domain,
INTERPRO: IPR002109 (68418.m02201)
Inorganic NAt1g49860glutathione S-transferase, putative similar to GI: 860955 from [Hyoscyamus
muticus] (Plant Physiol. 109 (1), 253-260 (1995)) (68414.m05590)
Inorganic NAt1g08090high-affinity nitrate transporter (ACH1) identical to trans-membrane nitrate
transporter protein AtNRT2: 1 [Arabidopsis thaliana] GI: 3747058,
high-affinity nitrate transporter ACH1 [Arabidopsis thaliana] GI: 3608362
(68414.m00885)
Inorganic NAt1g12940high-affinity nitrate transporter, putative similar to trans-membrane nitrate
transporter protein AtNRT2: 1 [Arabidopsis thaliana] GI: 3747058,
high-affinity nitrate transporter ACH1 [Arabidopsis thaliana] GI: 3608362
(68414.m01503)
Inorganic NAt1g12110nitrate/chlorate transporter (NRT1.1) (CHL1) identical to nitrate/chlorate
transporter SP: Q05085 from [Arabidopsis thaliana]; contains Pfam
profile: PF00854 POT family (68414.m01402)
Organic andAt1g55920serine O-acetyltransferase, putative identical to GI: 608677 from [Arabidopsis
Inorganic Nthaliana] (68414.m06414)
Organic andAt2g16660nodulin family protein similar to nodulin-like protein [Arabidopsis thaliana]
Inorganic NGI: 3329368, nodule-specific protein Nlj70 [Lotus japonicus]
GI: 3329366 (68415.m01912)
Organic andAt3g45140lipoxygenase (LOX2) identical to SP
Inorganic N
Organic andAt5g64410oligopeptide transporter OPT family protein similar to SP
Inorganic N
Organic andAt5g65010asparagine synthetase 2 (ASN2) identical to asparagine synthetase (ASN2)
Inorganic N[Arabidopsis thaliana] GI: 3859536 (68418.m08178)
Organic NAt1g14780expressed protein (68414.m01767)
Organic NAt1g22160senescence-associated protein-related similar to senescence-associated protein
SAG102 (GI: 22331931) [Arabidopsis thaliana]
(68414.m02770)
Organic NAt1g31770ABC transporter family protein contains Pfam profile: PF00005: ABC transporter
(68414.m03899)
Organic NAt1g32450proton-dependent oligopeptide transport (POT) family protein contains Pfam
profile: PF00854 POT family (68414.m04005)
Organic NAt1g47128cysteine proteinase (RD21A)/thiol protease identical to SP
Organic NAt1g49500expressed protein (68414.m05548)
Organic NAt1g56150auxin-responsive family protein similar to SP: P33082 Auxin-induced protein
X15. [Soybean] {Glycine max} (68414.m06450)
Organic NAt1g67910expressed protein (68414.m07755)
Organic NAt1g74090sulfotransferase family protein similar to SP
Organic NAt1g74710isochorismate synthase 1 (ICS1)/isochorismate mutase identical to GI: 17223087
and GB: AF078080; contains Pfam profile PF00425: chorismate binding enzyme;
contains TIGRfam profile TIGR00543: isochorismate synthases; identical to
cDNA isochorismate synthase 1
precursor (ICS1) nuclear gene for plastid product GI: 17223086 (68414.m08655)
Organic NAt1g77760nitrate reductase 1 (NR1) identical to SP
Organic NAt1g78000sulfate transporter (Sultr1; 2) identical to sulfate transporter Sultr1; 2 [Arabidopsis
thaliana] GI: 7768660; contaisn Pfam profiles PF00916:
Sulfate transporter family and PF01740: STAS domain; contains TIGRfam
profile TIGR00815: sulfate permease (68414.m09090)
Organic NAt2g15970cold-acclimation protein, putative (FL3-5A3) similar to cold acclimation
Organic NAt2g27830WCOR413-like protein gamma form [Hordeum vulgare] gi
expressed protein (68415.m03374)
Organic NAt2g28550AP2 domain-containing transcription factor RAP2.7 (RAP2.7) nearly identical to
AP2 domain transcription factor RAP2.7 (GI: 2281639)
[Arabidopsis thaliana] (68415.m03469)
Organic NAt2g30040protein kinase family protein contains protein kinase domain, Pfam: PF00069
(68415.m03653)
Organic NAt2g31790UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam
profile: PF00201 UDP-glucoronosyl and UDP-glucosyl transferase
(68415.m03881)
Organic NAt2g33710AP2 domain-containing transcription factor family protein similar to RAP2.6
(GI: 17065542) {Arabidopsis thaliana} (68415.m04132)
Organic NAt2g33830dormancy/auxin associated family protein contains Pfam profile: PF05564
dormancy/auxin associated protein (68415.m04151)
Organic NAt2g35930U-box domain-containing protein similar to immediate-early fungal elicitor
protein CMPG1 [Petroselinum crispum] GI: 14582200; contains Pfam
profile PF04564: U-box domain (68415.m04410)
Organic NAt2g39200seven transmembrane MLO family protein/MLO-like protein 12 (MLO12)
identical to SP
Organic NAt2g39570ACT domain-containing protein contains Pfam ACT domain PF01842
(68415.m04854)
Organic NAt2g40140zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc
finger C-x8-C-x5-C-x3-H type (and similar) and Pfam domain,
PF00023: Ankyrin repeat (68415.m04937)
Organic NAt2g43100aconitase C-terminal domain-containing protein contains Pfam profile PF00694:
Aconitase C-terminal domain (68415.m05350)
Organic NAt3g02910expressed protein contains Pfam domain PF03674: Uncharacterised protein
family (UPF0131) (68416.m00286)
Organic NAt3g05200zinc finger (C3HC4-type RING finger) family protein (ATL6) contains Pfam
profile: PF00097: Zinc finger, C3HC4 type (RING finger)
(68416.m00567)
Organic NAt3g10520non-symbiotic hemoglobin 2 (HB2) (GLB2) identical to SP
Organic NAt3g13930dihydrolipoamide S-acetyltransferase, putative similar to dihydrolipoamide S-
acetyltransferase [Zea mays] GI: 5669871; contains Pfam profiles PF00198: 2-oxo
acid dehydrogenases acyltransferase (catalytic domain), PF00364: Biotin-
requiring enzyme, PF02817: e3 binding domain
(68416.m01759)
Organic NAt3g14940phosphoenolpyruvate carboxylase, putative/PEP carboxylase, putative strong
similarity to SP
Organic NAt3g15630expressed protein (68416.m01982)
Organic NAt3g47520malate dehydrogenase [NAD], chloroplast (MDH) identical to chloroplast NAD-
malate dehydrogenase [Arabidopsis thaliana] GI: 3256066;
contains InterPro entry IPR001236: Lactate/malate dehydrogenase; contains
Pfam profiles PF00056: lactate/malate dehydrogenase, NAD
binding domain and PF02866: lactate/malate dehydrogenase, alpha/beta C-
terminal domain (68416.m05168)
Organic NAt3g48740nodulin MtN3 family protein similar to MtN3 GI: 1619602 (root nodule
development) from [Medicago truncatula] (68416.m05322)
Organic NAt3g48990AMP-dependent synthetase and ligase family protein similar to peroxisomal-
coenzyme A synthetase (FAT2) [gi: 586339] from Saccharomyces cerevisiae;
contains Pfam AMP-binding enzyme domain PF00501; identical to cDNA;
identical to cDNA adenosine monophosphate binding
protein 3 AMPBP3 (AMPBP3)GI: 20799714 (68416.m05351)
Organic NAt3g49940LOB domain protein 38/lateral organ boundaries domain protein 38 (LBD38)
identical to SP
Organic NAt3g58990aconitase C-terminal domain-containing protein contains Pfam profile PF00694:
Aconitase C-terminal domain (68416.m06575)
Organic NAt3g60750transketolase, putative strong similarity to transketolase 1 [Capsicum annuum]
GI: 3559814; contains Pfam profiles PF02779: Transketolase, pyridine binding
domain, PF02780: Transketolase, C-terminal domain, PF00456: Transketolase,
thiamine diphosphate binding domain
(68416.m06796)
Organic NAt3g61190BON1-associated protein 1 (BAP1) identical to BON1-associated protein 1
[Arabidopsis thaliana] GI: 15487384; contains Pfam profile PF00168:
C2 domain; supporting cDNA gi
Organic NAt3g61890homeobox-leucine zipper protein 12 (HB-12)/HD-ZIP transcription factor 12
identical to homeobox-leucine zipper protein ATHB-12
(GI: 6899887) [Arabidopsis thaliana] (68416.m06951)
Organic NAt4g12280copper amine oxidase family protein contains Pfam domain, PF01179: Copper
amine oxidase, enzyme domain (68417.m01946)
Organic NAt4g13510ammonium transporter 1, member 1 (AMT1.1) identical to SP
Organic NAt4g13770cytochrome P450 family protein (68417.m02136)
Organic NAt4g24620glucose-6-phosphate isomerase, putative similar to glucose-6-phosphate
isomerase [Spinacia oleracea] GI: 3413511; contains Pfam profile
PF00342: glucose-6-phosphate isomerase (68417.m03526)
Organic NAt4g30470cinnamoyl-CoA reductase-related similar to cinnamoyl-CoA reductase from
Pinus taeda [GI: 17978649], Saccharum officinarum [GI: 3341511]
(68417.m04326)
Organic NAt4g36670mannitol transporter, putative similar to mannitol transporter [Apium graveolens
var. dulce] GI: 12004316; contains Pfam profile PF00083:
major facilitator superfamily protein (68417.m05203)
Organic NAt4g37540LOB domain protein 39/lateral organ boundaries domain protein 39 (LBD39)
identical to SP
Organic NAt4g37610TAZ zinc finger family protein/BTB/POZ domain-containing protein contains
Pfam PF00651: BTB/POZ domain; contains Pfam PF02135:
TAZ zinc finger; similar to Speckle-type POZ protein (SP: O43791) [Homo
sapiens] (68417.m05321)
Organic NAt4g38470protein kinase family protein similar to protein kinase [gi: 170047] from Glycine
max; contains Pfam protein kinase domain PF00069
(68417.m05436)
Organic NAt4g39800inositol-3-phosphate synthase isozyme 1/myo-inositol-1-phosphate synthase 1/
MI-1-P synthase 1/IPS 1 identical to SP
Organic NAt5g04950nicotianamine synthase, putative similar to nicotianamine synthase [Lycopersicon
esculentum][GI: 4753801], nicotianamine synthase 2
[Hordeum vulgare][GI: 4894912] (68418.m00524)
Organic NAt5g40850urophorphyrin III methylase (UPM1) identical to urophorphyrin III methylase
(GI: 1146165) [Arabidopsis thaliana]; similar to s-adenosyl-L-methionine-
dependent uroporphyrinogen III methyltransferase (GI: 1490606) [Arabidopsis
thaliana]; similar to Diphthine synthase (Diphtamide biosynthesis
methyltransferase) (DPH5) (SP: P32469) [Saccharomyces cerevisiae]; contains
Pfam PF00590: Tetrapyrrole (Corrin/Porphyrin)
Methylases domain; contains TIGRFAM PF00590: Tetrapyrrole
(Corrin/Porphyrin) Methylases (68418.m04960)
Organic NAt5g416706-phosphogluconate dehydrogenase family protein contains Pfam profiles:
PF00393 6-phosphogluconate dehydrogenase C-terminal domain,
PF03446 NAD binding domain of 6-phosphogluconate (68418.m05063)
Organic NAt5g45340cytochrome P450 family protein similar to SP
Organic NAt5g46050proton-dependent oligopeptide transport (POT) family protein contains Pfam
profile: PF00854 POT family (68418.m05663)
Organic NAt5g48370thioesterase family protein similar to SP
Organic NAt5g49480sodium-inducible calcium-binding protein (ACP1)/sodium-responsive calcium-
binding protein (ACP1) identical to NaCl-inducible Ca2+-binding
protein GI: 2352828 from [Arabidopsis thaliana] (68418.m06123)
Organic NAt5g51830pfkB-type carbohydrate kinase family protein contains Pfam profile: PF00294
pfkB family carbohydrate kinase (68418.m06426)
Organic NAt5g54170expressed protein weak similarity to SP
Organic NAt5g58140protein kinase family protein/non phototropic hypocotyl 1-like protein (NPL1)
contains Pfam domains, PF00069: Protein kinase domain and PF00785: PAC
motif; similar to SP: O48963 Nonphototropic hypocotyl protein 1 (Phototropin)
[Mouse-ear cress] {Arabidopsis thaliana};
identical to cDNA non phototropic hypocotyl 1-like (NPL1) GI: 5391441
(68418.m07277)

This table contains a list of genes that were previously identified as regulated by inorganic N (Wang et al., 2004 Plant Physiol 136:2512-2522) and that were found regulated in the current study. The first column summarizes the regulatory pattern observed in this study.

Nitrogen signals control amino acid metabolism in Arabidopsis seedlings. To evaluate the biological significance of the observed patterns of response to the treatments, the distribution of functional categories in the six classes defined in Table 3 were analyzed using the BioMaps program (Gutierrez et al., 2007, Genome Biol. 8:R7). To focus on the most prominent biological processes affected, over-represented functional terms (p≦0.01) with 5 or more genes (Table 5) were analyzed. This analysis indicated that inorganic N represses amino acid biosynthesis, and in particular a subset of genes related to the metabolism of S-containing amino acids. In addition, increased levels of internal Glu appears to induce the expression of genes involved in cell wall biosynthesis, especially genes in the xyloglucan:xyloglucosyl transferase family. Internal Glu also appears to repress genes involved in several aspects of metabolism, most prominently amino acid and carbohydrate metabolism. This analysis also showed that genes involved in secondary metabolism are repressed by both internal and external organic N sources. These results indicate that the balance between organic and inorganic N controls the expression of genes involved in N-reduction, N-assimilation and amino acid metabolism in Arabidopsis plants and coordinates N-assimilation with cellular processes including for example, cell wall biosynthesis.

TABLE 5
ResponseMIPS Functional Termp-valueGenes
Inorganic nitrogen repressionamino acid biosynthesis (12)0.00322At3g54640, At4g13890, At3g01120, At5g37600, At3g23810,
(100)At2g36880, At4g39980, At4g15560, At5g23020, At3g17390,
At5g16570, At3g03780
Internal Glu induction (89)cell wall (7)0.00933At5g64570, At1g03870, At1g32170, At2g01850, At1g11545,
At3g23730, At3g14310
Internal Glu repression (246)METABOLISM (98)6.95E−05At3g61190, At5g65620, At5g64440, At5g37990, At3g02360,
At1g08920, At5g49720, At1g75680, At2g44160, At2g30490,
At5g35170, At1g77760, At4g00370, At1g51680, At1g15130,
At3g19420, At4g33580, At1g17840, At3g60750, At2g30870,
At3g54690, At1g15950, At2g47180, At5g01820, At5g20070,
At4g24620, At2g46830, At5g05730, At4g21850, At1g06640,
At5g20980, At5g48370, At4g36640, At4g34050, At2g38010,
At4g19810, At3g48690, At2g27860, At5g03555, At1g22610,
At2g36690, At3g63010, At3g21240, At4g29900, At2g39210,
At1g37130, At4g33680, At1g79380, At4g39800, At4g36250,
At5g63850, At1g02400, At1g53500, At1g66900, At5g01800,
At4g14440, At1g11840, At3g44720, At2g20360, At2g22240,
At5g54960, At4g12280, At5g55910, At1g03590, At2g38700,
At5g54160, At1g65960, At2g16430, At5g11110, At2g30040,
At4g11570, At3g21230, At5g58140, At4g39640, At5g37510,
At4g00360, At3g01560, At4g30440, At2g40890, At2g47880,
At3g48560, At5g49630, At1g76670, At5g43370, At4g30470,
At4g25300, At2g29450, At2g40140, At4g39330, At1g07890,
At4g30280, At1g12000, At2g36290, At5g53370, At1g74710,
At3g45640, At3g23820, At3g17820
amino acid metabolism (28)0.00017At3g61190, At5g64440, At5g63850, At4g39640, At5g05730,
At4g21850, At1g06640, At5g20980, At1g02400, At2g44160,
At3g48560, At5g49630, At2g30490, At1g11840, At1g77760,
At3g44720, At1g22610, At4g25300, At5g54960, At3g60750,
At2g36690, At1g07890, At3g54690, At1g37130, At1g65960,
At1g74710, At4g33680, At3g17820
complex cofactor binding (13)0.00235At4g36250, At3g60750, At5g37510, At4g36640, At1g15950,
At2g44160, At3g48560, At1g53500, At2g30490, At2g27860,
At4g33680, At5g54960, At4g12280
C-compound and0.00673At4g36250, At3g02360, At5g49720, At1g75680, At2g44160,
carbohydrate utilization (36)At1g53500, At1g11840, At2g20360, At2g22240, At5g54960,
At4g33580, At3g60750, At3g54690, At1g15950, At5g11110,
At2g47180, At4g11570, At4g24620, At3g21230, At5g37510,
At5g20980, At4g30440, At3g48560, At3g48690, At2g27860,
At1g76670, At4g30470, At4g39330, At4g30280, At3g21240,
At3g63010, At2g36290, At1g12000, At5g53370, At3g23820,
At4g39800
Internal/External Glu repressionsecondary metabolism (19)0.0036At3g16150, At1g13110, At4g15390, At3g58990, At1g06000,
(102)At4g39950, At4g22710, At4g30210, At1g20510, At2g05710,
At5g48010, At5g26030, At1g02500, At5g40850, At1g10360,
At1g05010, At2g34460, At5g47990, At5g45340

Network analysis reveals a metabolic gene network connected to regulatory transcription factors regulated by organic N. To uncover the mechanism underlying gene regulation in response to sensing Glu or a Glu-derived product, network analysis was used to identify the subnetwork of genes regulated by organic N (FIG. 3). The subnetwork of N-regulated genes using an Arabidopsis multinetwork was generated as described previously (Gutierrez et al., 2007, Genome Biol 8:R7). Cytoscape was used to visualize the resulting subnetworks wherein genes were represented as nodes connected by edges that represented distinct interactions (e.g., metabolic reactions, regulatory interactions). In addition to the interactions described previously (Gutierrez et al., 2007, Genome Biol 8:R7), regulatory connections were predicted between genes and associated transcription factors (see, Materials and Methods). In order to identify putative “master regulators” that control the expression of genes regulated by organic N, the transcription factors regulated in these experiments were ranked based on the number of regulatory connections in the subnetwork (Table 6). At the top of the list, were a Myb family transcription factor (At1g74840), the central clock gene CCA1 (At2g46830) and a golden 2-related transcription factor (GLK1; At2g20570). Interestingly, both CCA1 and GLK1 were predicted to positively affect the expression of a gene for glutamine synthetase (GLN1.3) (which uses Glu in a biosynthetic reaction), and to negatively affect the expression of a glutamate dehydrogenase gene (GDH1) (which catabolizes Glu) (FIG. 3). Moreover, the analysis suggests that both CCA1 and GLK1 block the expression of a bZIP transcription factor (bZIP1) which is predicted to induce the expression of the Gln-dependent ASN1 gene. Thus, Glu regulation of the GLK1 and CCA1 transcription factors appears to coordinate the expression of genes involved in making Gln (GLN1.3) vs. those involved in metabolizing Gln into Glu (ASN1, GDH1). In addition, another gene in this gene subnetwork encodes a putative asparaginase gene (ANS) that controls the degradation of Asn (to Asp and Glu) (FIG. 3). The ASN1 (Asn biosynthesis) and ANS (Asn degradation) genes had inverse expression patterns (correlation=−0.51), suggesting that Glu coordinates the reciprocal regulation of Asn synthesis and degradation by coordinating an antiregulation of the cognate.

TABLE 6
Number ofPUB
connectionsLOCUSAnnotation
51At1g74840myb family transcription factor.
47At2g46830myb-related transcription factor (CCA1)
46At2g20570golden2-like transcription factor (GLK1)
31At4g37260myb family transcription factor (MYB73)
30At5g24800bZIP1 transcription factor family protein
contains
30At5g49450bZIP1 family transcription factor
29At5g14540proline-rich family protein contains proline
rich extensin domains.
29At5g48655zinc finger (C3HC4-type RING finger)
family protein
24At1g22070bZIP1 family transcription factor (TGA3)
23At3g01560proline-rich family protein contains proline
rich extensin domains.
20At2g22430homeobox-leucine zipper protein 6 (HB-6)
19At5g44190myb family transcription factor (GLK2)
16At1g43160AP2 domain-containing protein RAP2.6
(RAP2.6)
15At3g61890homeobox-leucine zipper protein 12 (HB-12)
14At5g61890AP2 domain-containing transcription factor
family protein similar to RAP2.6
12At3g61150homeobox-leucine zipper family protein
11At2g38470WRKY family transcription factor
11At4g17500ethylene-responsive element-binding
protein 1 (ERF1)
10At2g25000WRKY family transcription factor

Validation of network model predictions highlights the regulatory role of CCA1 in the N-assimilatory pathway. The model in FIG. 3 predicts that CCA1 and/or GLK1 genes are important regulators of genes involved in N-assimilation and over-expression of either one of these genes would repress the expression of ASN1 and GDH1 and induce the expression of the GLN1.3 gene. Conversely, a knockout of the CCA1 or GLK1 gene should increase ASN1 and GDH1 expression levels and diminish GLN1.3 mRNA levels. To test these hypotheses, we used previously characterized CCA1 overexpressor (CCA1-ox) (Wang et al., 1998, Cell 93:1207-1217) and GLK1 gene knockout (glk1) (Fitter et al., 2002, Plant J 31:713-727) lines. A stronger phenotype for the overexpressor lines was anticipated as compared to the knockout, as the model predicts redundancy in the function of CCA1 and GLK1 in regulating ASN1, GDH1 and GLN1.3 gene expression. CCA1-ox, glk1 and wild-type plants were grown for two weeks as above, and samples were collected in the morning (3 h after dawn). Total RNA was extracted from whole seedlings and RT-qPCR was performed to determine mRNA levels for ASN1, GLN1.3 and GDH1 in the three genotypes. As shown in FIG. 4, all three genes tested showed altered expression patterns in the mutant lines utilized (as determined by analysis of variance, p≦0.05) which were consistent with the predicted network model shown in FIG. 1. In addition, bZIP1 mRNA level was also repressed in CCA1-ox (FIG. 10). ASN1, GDH1 and GLN1.3 mRNA levels were not altered in the glk1 line, with the exception of a small increase in GDH1 mRNA levels. This is probably due to the redundant function of GLK1 and CCA1 in regulating the expression of the tested genes. In contrast, and as predicted by the model shown in FIG. 3, ASN1 and GDH1 levels were decreased in the CCA1-ox line. Also consistent with the predictions of the model, GLN1.3 mRNA levels were increased as compared to wild-type in the CCA1-ox.

The network model predicts that the effect of CCA1 on the expression of the target genes will be direct. To test this hypothesis, ChIP assays were used using a CCA1 antibody (FIG. 4B). As controls, it was demonstrated that the ChIP assays could detect binding of CCA1 protein to a region of the TOC1 promoter, a known target of CCA1, but was not able to detect the ZTL promoter which has no circadian oscillation at the mRNA level. Consistent with the model for CCA1, ChIP assays in both wild-type and CCA1-ox lines were able to confirm binding of CCA1 to the promoter regions of GLN1.3, GDH1 and bZIP1 promoters. These results support the model, and indicate that CCA1 regulates expression of bZIP1, GDH1 and GLN1.3 genes directly, and indirectly for ASN1 through bZIP1.

N-nutrient signals act as input to the Arabidopsis circadian clock. CCA1 is a key component of a negative feedback loop at the center of the Arabidopsis circadian clock (McClung, 2006, Plant Cell 18:792-803; Millar, 2004, J. Exp. Bot. 55:277-283). Because the results showed that N-treatments affected CCA1 expression, it was hypothesized that N might serve as an input capable of affecting the circadian clock function. To test this hypothesis, pulses of inorganic or organic N were provided at intervals spanning a circadian cycle and determined the effects on the phase of the oscillation in CCA1::LUC expression. Each treatment resulted in stable phase shifts indicating that N status serves as an input to the circadian clock (FIG. 5 and FIG. 11). Inorganic N and 10 mM Glu treatments conferred slight phase advances whereas 10 mM Gln conferred only delays. The Nms and Glu pulses did not affect the period but the Gln pulse shortened the period as determined by one-way analysis of variance and Dunn's multiple comparison tests. Thus, the clock regulates a number of steps in N metabolism, such as NR expression and activity (Pilgrim et al., 1993, Plant Mol Biol 23:349-64) and ASN1 expression as demonstrated herein (see also Harmer et al., 2000, Science 290:2110-2113). In turn, N status feeds back to the clock, at least in part through its effect on CCA1 expression.

7.4 Discussion

In the present study, genomic and pharmacological approaches were used to distinguish organic from inorganic N responses in Arabidopsis seedlings. The majority of the genes regulated by the N-treatments used in this study (81%) are responding to organic N signals. Among the genes regulated by organic N, we distinguished two classes of genes: (i) genes that responded only to external Glu application and (ii) genes that responded to internal and external sources of Glu (Table 3). The difference in these two expression patterns raises the possibility that there are different mechanisms for sensing internally produced cellular Glu vs. extra cellular Glu that is transported between cells. The other possibility is that the differences in internal vs. external Glu responses observed in this study reflect distinct threshold responses to Glu levels. There is precedence for internal and external Glu sensing mechanisms in other organisms. Bacteria regulate ammonium assimilation via a mechanism involving PII, a sensor that measures levels of α-ketoglutarate and Glu (Arcondeguy et al., 2001, Microbiol Mol Biol Rev 65:80-105). Plants contain a PII protein that is localized to chloroplasts (Hsieh et al., 1998, Proc Natl Acad Sci USA 95:13965-13970), a potential sensor of internal levels of Glu. By contrast, extracellular Glu is sensed by Glu receptors in animal brains (Sykova, 2004, Neuroscience 129:861-876). The presence of Glu receptor genes in plants (Lacombe et al., 2001, Science 292:1486-1487) raises the possibility that Glu receptors in plants may serve to sense levels of external apoplastic transported Glu.

Analysis of the genes regulated by N, identified a gene network with transcription factors that appear to regulate the expression of N-assimilatory genes. New to this study is the finding that the NR genes (NIA1, NIA2) are repressed by organic N, as is GLN1.3, which is involved in Gln biosynthesis. Within this N-regulated network we also found genes involved in N uptake and metabolism including an ammonium transporter (AMT1.1), genes involved in assimilating N into and out of Asn (ASN1, ANS), as well as amino acid transporter genes. Organic N negatively regulated AMT1.1 and ANS, but induced the ASN1 gene. It was therefore hypothesized that in the presence of Glu, or a Glu-derived metabolite, Asn production is optimized and regulated at the level of transcription by increasing levels of ASN1 and decreasing levels of ANS transcripts. These results are consistent with Asn serving as a major N storage compound (Lam et al., 1994, Plant Physiol 106:1347-1357) controlled by the ASN1 gene, and suggest a mechanism to maximize Asn production, degradation and distribution depending on levels of internal sources of organic N.

The network analysis proposed a mechanism for transcriptional regulation of N-assimilation. ASN1 was a predicted target of the transcription factor bZIP1; GDH1, GLN1.3 and bZIP1 were predicted targets of GLK1 and CCA1. Because bZIP1 is also regulated by carbon (Gutierrez et al., 2007, Genome Biol 8:R7), this gene may be an integrator of C and N signaling for regulation of N-assimilation in Arabidopsis. This our network model was validated by measuring mRNA levels of the target genes in CCA1-ox and glk1 knockout lines. As predicted, ASN1 and GDH1 mRNA levels were down regulated and GLN1.3 mRNA was elevated in the CCA1-ox line. In contrast, mRNA levels for these three genes were not affected in the glk1 knockout line. The lack of a molecular phenotype in the glk1 knockout may be explained by the fact that CCA1 and GLK1 are predicted to have the same regulatory function in the subnetwork. The predictions that CCA1 directly targets a number of genes in the network was validated using CCA1 antibodies in ChIP experiments. Because CCA1 is one of the central components of the circadian clock in Arabidopsis, regulation of CCA1 expression in response to organic N suggests that the circadian clock may receive N nutritional inputs in plants. Thus, in addition to light and temperature (Millar, 2004, J. Exp. Bot. 55:277-283; McClung, 2001, Ann. Rev. Plant Physiol Plant Mol. Biol. 52:139-162), nutrients—such as N—may act as input for the clock. The phase response curve analysis results presented herein are consistent with weak (type 1) resetting similar to those observed in response to light pulses in Lemna gibba (Kondo, 1983, Plant Cell Physiol. 24:659-665), KCl or ethanol pulses in Phaseolus coccineus (Bunning and Moser, 1973, Proc Natl Acad Sci USA 70:3387-3389) and cAMP or imidazole pulses in Trifolium repens (Bollig et al., 1978, Planta 141:225-230), strengthening the hypothesis that N status feeds back to the clock, at least in part through its effect on CCA1 expression. In Arabidopsis, light pulses evoke strong delays (˜8 h) in the early night and strong advances (5-10 h) later in the night (Covington et al., 2001, Plant Cell 13:1305-1315). Although the molecular basis of these phase shifts is not definitively established, they may involve induction of CCA1 by light (Wang et al., 1998, Cell 93:1207-1217). In the above-experiments, N treatment would decrease CCA1 mRNA abundance. That this elicits only small phase shifts suggests that posttranscriptional regulation buffers against CCA1 activity changes from reduced mRNA, at least over the time frames tested with our 4-h N pulses. Alternatively, N treatment may also modulate other clock components either at the mRNA, protein abundance or protein activity level in ways that reduce the magnitude of the phase shifts in response to CCA1 mRNA decrease. The emerging view of the circadian clock is as a key integrator of multiple metabolic and physiologic processes (Lam et al., 1994, Plant Physiol 106:1347-1357; Kondo, 1983, Plant Cell Physiol. 24:659-665). As such it receives input not only from environmental stimuli but also from multiple metabolic pathways, many of which are subject to circadian regulation. Thus, the clock regulates a number of steps in N metabolism, such as NR expression and activity (Bunning and Moser, 1973, Proc Natl Acad Sci USA 70:3387-3389) and ASN1 expression. In turn, N status feeds back to the clock, at least in part through its effect on CCA1 expression. This feedback is more subtle than the effects of saturating light pulses and our results are consistent with N status fine tuning clock function rather than conferring large changes such as those observed in response to light (FIG. 6).

Oscillations in the mRNA of genes that code for metabolic enzymes could have an impact on metabolite levels, as recently shown (Gibon et al., 2006, Genome Biology 7:R76). Predicting time of food availability is key for the survival in most animals (Stephan, 2002, J Biol Rhythms 17:284-292). The data presented herein suggest that this may also be the case in Arabidopsis, e.g., anticipating the availability of carbon skeletons produced by photosynthesis to assimilate inorganic N into amino acids. Moreover, this data provides a plausible molecular mechanism for how this could happen in plants via CCA1. The present study thus provides evidence that plant nutrition, like in animals, is tightly linked to circadian functions as previously hypothesized (Harmer et al., 2000, Science 290:2110-2113). Recently, it was shown that the central clock gene Per2 is necessary for food anticipation in mice (Feillet et al., 2006, Curr Biology 16:2016-2022). The present data indicates that the central clock gene CCA1 plays a role in circadian regulation of N-assimilation in plants (FIG. 12). This data is consistent with a model in which the N-assimilatory pathway is a downstream target of the clock with CCA1 being the direct regulatory factor. Moreover, Glu or other Glu-derived signal act as input to the circadian clock providing a link between plant N-nutrition and circadian rhythms.

8. EQUIVALENTS

Although the invention is described in detail with reference to specific embodiments thereof, it will be understood that variations which are functionally equivalent are within the scope of this invention. Indeed, various modifications of the invention in addition to those shown and described herein will become apparent to those skilled in the art from the foregoing description and accompanying drawings. Such modifications are intended to fall within the scope of the appended claims. Those skilled in the art will recognize, or be able to ascertain using no more than routine experimentation, many equivalents to the specific embodiments of the invention described herein. Such equivalents are intended to be encompassed by the following claims.

All publications, patents and patent applications mentioned in this specification are herein incorporated by reference into the specification to the same extent as if each individual publication, patent or patent application was specifically and individually indicated to be incorporated herein by reference in their entireties.

Annex: Expression patterns in response to the Nms, Nms MSX, and Nms MSX Glu treatments.
Pattern or
response to
the
treatments
Nms-Nms/
MSX-
#Class and interpretationName/MSX text missing or illegible when filed ProbeIDAGI locusGene annotation
1(A) Inorganic NitrogenI-I-I267293_atAt2g23810senescence-associated family protein similar to senescence-associated protein 5 [Hemerocallis hybrid cultivar]
induction
2(A) Inorganic NitrogenI-I-I267028_atAt2g38470WRKY family transcription factor contains Pfam profile: PF03106 WRKY DNA-binding domain; (68415.m04725)
induction
3(A) Inorganic NitrogenI-I-I266800_atAt2g22880VQ motif-containing protein contains PF05678: VQ motif (68415.m02716)
induction
4(A) Inorganic NitrogenI-I-I266097_atAt2g37970SOUL heme-binding family protein weak similarity to SOUL protein [Mus musculus] GI: 4886906; contain Pfam profile PF04832:
inductionSOUL heme-binding protein (68415.m04660)
5(A) Inorganic NitrogenI-I-I265475_atAt2g15620ferredoxin-nitrite reductase, putative strong similarity to ferredoxin--nitrite reductase [Nicotiana tabacum] GI: 19893; contains Pfam
inductionprofiles PF03460: Nitrite/Sulfite reductase ferredoxin-like half domain, PF01077: Nitrite and sulphite reductase 4Fe—4S domain
(68415.m01789)
6(A) Inorganic NitrogenI-I-I265075_atAt1g55450embryo-abundant protein-related similar to embryo-abundant protein GI: 1350531 from [Picea glauca] (68414.m06342)
induction
7(A) Inorganic NitrogenI-I-I264953_atAt1g77120alcohol dehydrogenase (ADH) identical to alcohol dehydrogenase GI: 469467 from (Arabidopsis thaliana) (68414.m06982)
induction
8(A) Inorganic NitrogenI-I-I264636_atAt1g65490expressed protein (68414.m07431)
induction
9(A) Inorganic NitrogenI-I-I264580_atAt1g05340expressed protein (68414.m00541)
induction
10(A) Inorganic NitrogenI-I-I263475_atAt2g31945expressed protein (68415.m03902)
induction
11(A) Inorganic NitrogenI-I-I263182_atAt1g005575expressed protein (68414.m00576)
induction
12(A) Inorganic NitrogenI-I-I262832_s_atAt1g14870expressed protein similar to PGPS/D12 [Petunia x hybrida] GI: 4105794; contains Pfam profile PF04749: Protein of unknown
inductionfunction, DUF614 (68414.m01778)
13(A) Inorganic NitrogenI-I-I262571_atAt1g15430expressed protein (68414.m01852)
induction
14(A) Inorganic NitrogenI-I-I262238_atAt1g48300expressed protein (68414.m05395)
induction
15(A) Inorganic NitrogenI-I-I261892_atAt1g80840WRKY family transcription factor similar to WRKY transcription factor GB: BAA87058 GI: 6472585 from [Nicotiana tabacum]
induction(68414.m09484)
16(A) Inorganic NitrogenI-I-I261749_atAt1g76180dehydrin (ERD14) identical to SP|P42763 Dehydrin ERD14 {Arabidopsis thaliana} (68414.m08846)
induction
17(A) Inorganic NitrogenI-I-I261648_atAt1g27730zinc finger (C2H2 type) family protein (ZAT10)/salt-tolerance zinc finger protein (STZ) identical to salt-tolerance zinc finger protein
inductionGB: CAA64820 GI: 1565227 from [Arabidopsis thaliana]; contains Pfam domain, PF00096: Zinc finger, C2H2 type; identical to cDNA
zinc finger protein STZ/ZAT10 (STZ/ZAT10) GI: 9965730 (68414.m03389)
18(A) Inorganic NitrogenI-I-I261193_atAt1g32920expressed protein (68414.m04055)
induction
19(A) Inorganic NitrogenI-I-I260522_x_atAt2g41730expressed protein (68415.m05158)
induction
20(A) Inorganic NitrogenI-I-I260101_atAt1g73260trypsin and protease inhibitor family protein/Kunitz family protein similar to trypsin inhibitor propeptide [Brassica oleracea]
inductionGI: 841208; contains Pfam profile PF00197: Trypsin and protease inhibitor (68414.m08478)
21(A) Inorganic NitrogenI-I-I259979_atAt1g76800expressed protein (68414.m08913)
induction
22(A) Inorganic NitrogenI-I-I259705_atAt1g77450no apical meristem (NAM) family protein contains Pfam PF02385: No apical meristem (NAM) domain; similar to GRAB1 protein
inductionGB: CAA09371, a novel member of the NAC domain family (68414.m09019)
23(A) Inorganic NitrogenI-I-I259570_atAt1g20440dehydrin (COR47) identical to dehydrin COR47 (Cold-induced COR47 protein) [Arabidopsis thaliana] SWISS-PROTT: P31168
induction(68414.m02547)
24(A) Inorganic NitrogenI-I-I259479_atAt1g19020expressed protein (68414.m02367)
induction
25(A) Inorganic NitrogenI-I-I259037_atAt3g09350armadillo/beta-catenin repeat family protein contains Pfam profile: PF00514 armadillo/beta-catenin-like repeat (68414.m01109)
induction
26(A) Inorganic NitrogenI-I-I257206_atAt3g16530leguma lectin family protein contains Pfam domain, PF00139: Legume lectins beta domain (68416.m02111)
induction
27(A) Inorganic NitrogenI-I-I256337_atAt1g72060expressed protein (68414.m08330)
induction
28(A) Inorganic NitrogenI-I-I255543_atAt4g01870tolB protein-related contains weak similarity to TolB protein precursor (Swiss-Prot: P44677) [Haemophilus influenzae]
induction(68417.m00245)
29(A) Inorganic NitrogenI-I-I254926_atAt4g112801-aminocyclopropane-1-carboxylate synthase 6/ACC synthase 6 (ACS6) identical to GI: 3746125 (68417.m01824)
induction
30(A) Inorganic NitrogenI-I-I254158_atAt4g24380expressed protein contains Pfam profile: PF03959 domain of unknown function (DUF341) (68417.m03496)
induction
31(A) Inorganic NitrogenI-I-I253915_atAt4g27280calcium-binding EF hand family protein similar to EF-hand Ca2+-binding protein CCD1 [Triticum aestivum] GI: 9255753; contains
inductionINTERPRO: IPR002048 calcium-binding EF-hand domain (68417.m03915)
32(A) Inorganic NitrogenI-I-I253872_atAt4g27410no apical meristem (NAM) family protein (RD26) contains Pfam PF02365: No apical meristem (NAM) domain; Arabidopsis thaliana
inductionnap gene, PID: e1234813; identical to cDNA RD26 mRNA for NAM-like protein GI: 1046270 fom [Arabidopsis thaliana]
(68417.m05078)
33(A) Inorganic NitrogenI-I-I253161_atAt4g35770senescence-associated protein (SEN1) identical to senescence-associated protein GI: 1046270 from [Arabidopsis thaliana]
induction(68417.m05078)
34(A) Inorganic NitrogenI-I-I253046_atAt4g37370cytochrome P450, putative similar to Cytochrome P450 91A1 (SP: Q9FG65)[Arabidopsis thaliana]; cytochrome P450, Glycyrrhiza
inductionechinata, AB001379 (68417.m05292)
35(A) Inorganic NitrogenI-I-I252908_atAt4g39670expressed protein (68417.m05610)
induction
36(A) Inorganic NitrogenI-I-I252671_atAt3g44190pyridine nucleotide-disulphide oxidoreductase family protein low similarity to dihydrolipoamide dehydrogenase from Clostridium
inductionmagnum [GI: 472330]; contains Pfam profile PF00070 Pyridine nucleotide-disulphide oxidoreductase domain (68416.m04738)
37(A) Inorganic NitrogenI-I-I252234_atAt3g49780phytosulfokines 3 (PSK3) identical to phytosulfokines 3 (PSK3) SP: Q9M2Y0 from [Arabidopsis thaliana] (68418.m05443)
induction
38(A) Inorganic NitrogenI-I-I250781_atAt5g05410DRE-binding protein (DREB2A) identical to DREB2A GI: 3738230 from [Arabidopsis thaliana]; supported by
inductioncDNA: gi_3738229_dbj_AB007790.1 AB007790 (68418.m00583)
39(A) Inorganic NitrogenI-I-I250351_atAt5g1203017.7 kDa class II heat shock protein 17.6A (HSP17.7-CII) identical to heat shock protein 17.6A GI: 3256075 from [Arabidopsis
inductionthaliana] (68418.m01406)
40(A) Inorganic NitrogenI-I-I249996_atAt5g18600glutaredoxin family protein contains glutaredoxin domain, INTERPRO: IPR002109 (68418.m02201)
induction
41(A) Inorganic NitrogenI-I-I249719_atAt5g35735auxin-responsive family protein similar to auxin-induced protein AIR12 GI: 11357190 [Arabidopsis thaliana] (68418.m04276)
induction
42(A) Inorganic NitrogenI-I-I248790_atAt5g47450major intrinsic family protein/MIP family protein contains Pfam profile: MIP PF00230 (68418.m05853)
induction
43(A) Inorganic NitrogenI-I-I248164_atAt5g54490calcium-binding EF-hand protein, putative similar to EF-hand Ca2+-binding protein CCD1 [Triticum aestivum] GI: 9255753; contains
inductionINTERPRO: IPR002048 calcium-binding EF-hand domain (68418.m06785)
44(A) Inorganic NitrogenI-I-I248146_atAt5g54940eukaryotic translation initiation factor SUI1, putative similar to SP|P32911 Protein translation factor SUI1 {Saccharomyces
inductioncerevisiae}; contains Pfam profile PF01253: Translation initiation factor SUI1 (68418.m06842)
45(A) Inorganic NitrogenI-I-I247655_atAt5g59820zinc finger (C2H2 type) family protein (ZAT12) identical to zinc finger protein ZAT12 [Arabidopsis thaliana]
inductiongi|1418325|emb|CAA67232 (68418.m07500)
46(A) Inorganic NitrogenI-I-I247488_atAt5g61820expressed protein MtN19, Medicago truncatula, EMBL: MTY15367 (68418.m07757)
induction
47(A) Inorganic NitrogenI-I-I247351_atAt5g63790no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) domain; contains similarity to NAC-
inductiondomain protein (68418.m08006)
48(A) Inorganic NitrogenI-I-I246744_atAt5g27760hypoxia-responsive family protein contains Pfam profile: PF04588 hypoxia induced protein conserved region (68418.m03329)
induction
49(A) Inorganic NitrogenI-I-I246293_atAt3g56710sigA-binding protein identical to SigA binding protein [Arabidopsis thaliana] gi|6980074|gb|AAF34713; contains Pfam PF05678: VQ
inductionmotif (68416.m06308)
50(A) Inorganic NitrogenI-I-I246099_atAt5g20230plastocyanin-like domain-containing protein (68418.m02408)
induction
51(A) Inorganic NitrogenI-I-I245734_atAt1g73480hydrolase, alpha/beta fold family protein low similarity to monoglyceride lipase from [Homo sapiens] GI: 14594904, [Mus musculus]
inductionGI: 2632162; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68414.m08507)
52(A) Inorganic NitrogenI-I-I245711_atAt5g04340zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger, C2H2 type (68416.m00426)
induction
53(A) Inorganic NitrogenI-I-I245250_atAt4g17490ethylene-responsive element-binding protein, putative similar to SP|O80341 Ethylene responsive element binding factor 5 (AtERF5)
induction{Arabidopsis thaliana} (68417.m02617)
54(A) Inorganic NitrogenI-I-I245026_atatpHATPase III subunit
induction
55(A) Inorganic NitrogenI-I-I245006_atpsaBPSI P700 apoprotein A2
induction
56(A) Inorganic NitrogenI-I-I245017_atpsaIPSI I protein
induction
57(A) Inorganic NitrogenI-I-I244961_atycf5hypothetical protein
induction
58(A) Inorganic NitrogenI-I-I257536_atAt3g02800tyrosine specific protein phosphatase family protein contains tyrosine specific protein phosphatases active site, PROSITE: PS00383
induction(68416.m00272)
59(A) Inorganic NitrogenI-I-I257540_atAt3g21520expressed protein contains Pfam profile PF05078: Protein of unknown function (DUF679) (68416.m02715)
induction
60(A) Inorganic NitrogenD-D-D267422_atAt2g35050 + 1protein kinase family protein contains Pfam profile: PF00069 Eukeryotic protein kinase domain (68415.m04300)
repression
61(A) Inorganic NitrogenD-D-D266588_atAt2g14890arabinogalactan-protein (AGP9) identical to gi|10880495|gb|AAG24277 (68415.m01692)
repression
62(A) Inorganic NitrogenD-D-D266022_atAt2g05920subtilase family protein contains similarity to cucumisin-like serine protease GI: 3176874 from [Arabidopsis thaliana]
repression(68415.m00642)
63(A) Inorganic NitrogenD-D-D265733_atAt2g01190octicosapeptide/Phox/Bem1p (PB1) domain-containing protein Pfam profile PF00564: PB1 domain (68415.m00030)
repression
64(A) Inorganic NitrogenD-D-D265400_atAt2g10940protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to proline-rich cell wall protein [Medicago sativa]
repressionGI: 3818416; contains Pfam profile PF00234 Protease inhibitor/seed storage/LTP family (68415.m01167)
65(A) Inorganic NitrogenD-D-D265042_atAt1g04040acid phosphatase class B family protein similar to SP|P15490 STEM 28 kDa glycoprotein precursor (Vegetative storage protein A)
repression{Glycine max}, acid phosphatase [Glycine max] GI: 3341443; contains Pfam profile PF03767: HAD superfamily (subfamily IIIB)
phosphatase; supporting cDNA gi|13926197|gb|AF370572.1|AF370572 (68414.m00391)
66(A) Inorganic NitrogenD-D-D265028_atAt1g24530transducin family protein/WD-40 repeat family protein similar to Vegetatible incompatibility protein HET-E-1 (SP: Q00808)
repression{Podospora anserina}; contains 7 WD-40 repeats (PF00400) (68414.m03088)
67(A) Inorganic NitrogenD-D-D264857_atAt1g24170glycosyl transferase family 6 protein contains Pfam profile: PF01501 glycosyl transferase family 8 (68414.m03049)
repression
68(A) Inorganic NitrogenD-D-D264348_atAt1g12110nitrate/chlorate transporter (NRT1.1) (CHL1) identical to nitrate/chlorate transporter SP: Q05085 from [Arabidopsis thaliana];
repressioncontains Pfam profile: PF00854 POT family (68414.m01402)
69(A) Inorganic NitrogenD-D-D264335_s_atAt1g70320ubiquitin-protein figase 2 (UPL2) nearly identical to ubiquitin-protein ligase 2 [Arabidopsis thaliana] GI: 7108523; E3, HECT-domain
repressionprotein family; similar to ubiquitin-protein ligase 2 GI: 7108523 from [Arabidopsis thaliana] (68414.m08090)
70(A) Inorganic NitrogenD-D-D264309_atAt1g62020coatomer protein complex, subunit alpha, putative contains Pfam PF00400: WD domain, G-beta repeat; similar to Coatomer alpha
repressionsubunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) (SP: P53621) [Homo sapiens] (68414.m06995)
71(A) Inorganic NitrogenD-D-D264260_atAt1g09210calreticulin 2 (CRT2) identical to SP|Q38858 Calreticulin 2 precursor {Arabidopsis thaliana} (68414.m01028)
repression
72(A) Inorganic NitrogenD-D-D264261_atAt1g09240nicotianamine synthase, putative similar to nicotianamine synthase [Lycopersicon esculentum][GI: 4753801], nicotianamine
repressionsynthase 2 [Hordeum vulgare][GI: 4894912] (68414.m01031)
73(A) Inorganic NitrogenD-D-D263989_atAt2g42880mitogen-activated protein kinase, putative/MAPK, putative (MPK20) mitogen-activated protein kinase (MAPK)(AtMPK20),
repressionPMID: 12119167 (68415.m05309)
74(A) Inorganic NitrogenD-D-D263838_atAt2g36880S-adenosylmethionine synthetase, putative similar to S-adenosylmethionine synthetase 3 (Methionine adenosyltransferase 3.
repressionAdoMet synthetase 3) [Lycopersicon esculentum] SWISS-PROT: P43282 (68415.m04521)
75(A) Inorganic NitrogenD-D-D263836_atAt2g40330Bet v I allergen family protein contains Pfam profile PF00407: Pathogenesis-related protein Bet v I family (68415.m04972)
repression
76(A) Inorganic NitrogenD-D-D263662_atAt1g04430dehydration-responsive protein-related similar to early-responsive to dehydration stress ERD3 protein [Arabidopsis thaliana]
repressionGI: 15320410; contains Pfam profile PF03141: Putative methyltransferase (68414.m00434)
77(A) Inorganic NitrogenD-D-D263590_atAt2g01820leucine-rich repeat protein kinase, putative similar to protein kinase TMK1 gi|186888|gb|AAA32876; contains Pfam domains
repressionPF00560: Leucine Rich Repeat and PF00069: Protein kinase domain (68415.m00113)
78(A) Inorganic NitrogenD-D-D263326_atAt2g04280expressed protein (68415.m00420)
repression
79(A) Inorganic NitrogenD-D-D263153_s_atAt1g54010myrosinase-associated protein, putative similar to myrosinase-associated protein GI: 1769969 from [Brassica napus]; contains Pfam
repressionprofile PF00657: Lipase/Acylhydrolase with GDSL-like motif (68414.m06153)
80(A) Inorganic NitrogenD-D-D262504_atAt1g21750protein disulfide isomerase, putative similar to SP|P29828 Protein disulfide isomerase precursor (PDI) (EC 5.3.4.1) {Medicago
repressionsativa}; isoform contains non-consensus GA donor splice site at intron 9 (68414.m02722)
81(A) Inorganic NitrogenD-D-D262373_atAt1g73120expressed protein (68414.m08454)
repression
82(A) Inorganic NitrogenD-D-D261728_atAt1g76160multi-copper oxidase type I family protein similar to pollen-specific BP10 protein [SP|Q00624][Brassica napus]; contains Pfam
repressionprofile: PF00394 Multicopper oxidase (68414.m08844)
83(A) Inorganic NitrogenD-D-D261598_atAt1g49750leucine-rich repeat family protein contains leucine-rich repeats, Pfam: PF00560 (68414.m05579)
repression
84(A) Inorganic NitrogenD-D-D261198_atAt1g12940high-affinity nitrate transporter, putative similar to trans-membrane nitrate transporter protein AtNRT2:1 [Arabidopsis thaliana]
repressionGI: 3747058, high-affinity nitrate transporter ACH1 [Arabidopsis thaliana] GI: 3608362 (68414.m01503)
85(A) Inorganic NitrogenD-D-D261053_atAt1g01320tetratricopeptide repeat (TPR)-containing protein low similarity to SP|P46825 Kinesin light chain (KLC) {Loligo pealeii}; contains
repressionPfam profile PF00515: TPR Domain (68414.m00048)
86(A) Inorganic NitrogenD-D-D261055_atAt1g01300aspartyl protease family protein contains Pfam domain, PF00026: eukaryotic aspartyl protease (68414.m00046)
repression
87(A) Inorganic NitrogenD-D-D260623_atAt1g08090high-affinity nitrate transporter (ACH1) identical to trans-membrane nitrate transporter protein AtNRT2:1 [Arabidopsis thaliana]
repressionGI: 3747058, high-affinity nitrate transporter ACH1 [Arabidopais thaliana] GI: 3608362 (68414.m00885)
88(A) Inorganic NitrogenD-D-D259969_atAt1g76550pyrophosphate-fructose-6-phosphate 1-phosphotransferase alpha subunit, putative/pyrophosphate-dependent 6-
repressionphosphofructose-1-kinase, putative strong similarity to SP|Q41140 Pyrophosphate-fructose 6-phosphate 1-phosphotransferase
alpha subunit (EC 2.7.1.90) (PFP) (PPI-PFK) {Ricinus communis}; contains Pfam profile PF00365: Phosphofructokinase
(68414.m08908)
89(A) Inorganic NitrogenD-D-D259813_atAt1g49860glutathione S-transferase, putative similar to GI: 860955 from [Hyoscyamus muticus] (Plant Physiol. 109 (1), 253-260 (1995))
repression(68414.m05590)
90(A) Inorganic NitrogenD-D-D259771_atAt1g29470dehydration-responsive protein-related similar to early-responsive to dehydration stress ERD3 protein [Arabidopsis thaliana]
repressionGI: 15320410; contains Pfam profile PF03141: Putative methyltransferase (68414.m03605)
91(A) Inorganic NitrogenD-D-D259786_atAt1g29660GDSL-motif lipase/hydrolase family protein low similarity to family II lipase EXL1 [Arabidopsis thaliana] GI: 15054382, contains
repressionInterPro Entry IPR001087 Lipolytic enzyme, G-D-S-L family (68414.m03625)
92(A) Inorganic NitrogenD-D-D259757_atAt1g77510protein disulfide isomerase, putative similar to protein disulfide isomerase precursor GB: P29828 GI: 4704786 [Medicago sativa];
repressionPfam HMM hit: PF00085 Thioredoxins (68414.m09026)
93(A) Inorganic NitrogenD-D-D259343_s_atAt3g037805-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase, putative/vitamin-B12-independent methionine synthase,
repressionputative/cobalamin-independent methionine synthase, putative very strong similarity to SP|O50008 5-
methyltetrahydropteroyltriglutamate-homocysteine methyltransferase (EC 2.1.1.14) (Vitamin-B12-independent methionine
synthase isozyme) (Cobalamin-independent methionine synthase isozyme) {Arabidopsis thaliana}; contains Pfam profile PF01717:
Methionine synthase, vitamin-B12 independent (68416.m00386)
94(A) Inorganic NitrogenD-D-D259279_atAt3g01120cystathionine gamma-synthase, chloroplast/O-succinylhomoserine (Thiol)-lyase (CGS) identical to SP|P55217 Cystathionine
repressiongamma-synthase, chloroplast precursor (EC 4.2.99.9) (CGS) (O-succinylhomoserine (Thiol)-lyase) {Arabidopsis thaliana}
(68418.m00016)
95(A) Inorganic NitrogenD-D-D259072_atAt3g11700beta-Ig-H3 domain-containing protein/fasciclin domain-containing protein contains Pfam profile PF02469: Fascictin domain
repression(68416.m01434)
96(A) Inorganic NitrogenD-D-D259018_atAt3g07390auxin-responsive protein/auxin-induced protein (AIR12) identical (with 7 residue gap) to auxin-induced protein AIR12 GI: 11357190
repression[Arabidopsis thaliana] (68416.m00881)
97(A) Inorganic NitrogenD-D-D258415_atAt3g17390S-adenosylmethionine synthetase, putative similar to S-adenosylmethionine synthetase 2 (Methionine adenosyltransferase 2,
repressionAdoMet synthetase 2) [Catharanthus roseus] SWISS-PROT: Q96552 (68418.m02222)
98(A) Inorganic NitrogenD-D-D257173_atAt3g23810adenosylhomocysteinase, putative/S-adenosyl-L-homocysteine hydrolase, putative/AdoHcyase, putative strong similarity to
repressionSP|P50248|SAHH_TOBAC Adenosylhomocysteinase (EC 3.3.1.1) (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase) {Nicotiana
sylvestris}; contains Pfam profile PF00670: S-adenosyl-L-homocysteine hydrolase, NAD binding domain (68416.m02993)
99(A) Inorganic NitrogenD-D-D257071_atAt3g28180glycosyl transferase family 2 protein similar to beta-(1-3)-glucosyl transferase GB: AAC62210 GI: 3687658 from [Bradyrhizobium
repressionjaponicum], cellulose synthase from Agrobacterium tumeficiens [gi: 710492] and Agrobacterium radiobacter [gi: 710493]; contains
Pfam glycosyl transferase, group 2 family protein domain PF00535 (68416.m03521)
100(A) Inorganic NitrogenD-D-D256847_atAtg13610oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to desacetoxyvindoline 4-hydroxylase [Catharanthus
repressionroseus][GI: 1916643], flavonol synthase 1 [SP|Q96330]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain
(68416.m01713)
101(A) Inorganic NitrogenD-D-D256482_atAt1g31420leucine-rich repeat transmembrane protein kinase, putative contains Pfam profile: PF00069: Eukaryotic protein kinase domain
repression(68414.m03848)
102(A) Inorganic NitrogenD-D-D256216_atAt1g56340calreticulin 1 (CRT1) identical to calreticulin (crt1) GI: 2052379 [Arabidopsis thaliana] (68414.m06476)
repression
103(A) Inorganic NitrogenD-D-D256224_atAt1g56330GTP-binding protein (SAR1B) identical to GTP-binding protein (SAR1B) [Arabidopsis thaliana] SP: Q01474 (68414.m06475)
repression
104(A) Inorganic NitrogenD-D-D255595_atAt4901700chitinase, putative similar to peanut type II chitinase GI: 1237025 from [Arachis hypogaea] (68417.m00221)
repression
105(A) Inorganic NitrogenD-D-D255474_atAt4g02470
repression
106(A) Inorganic NitrogenD-D-D255492_atAt4g02680tetratricopeptide repeat (TPR)-containing protein contains Pfam profile PF00515 TPR Domain (68417.m00363)
repression
107(A) Inorganic NitrogenD-D-D255068_atAt4g08920cryptochrome 1 apoprotein (CRY1)/flavin-type blue-light photoreceptor (HY4) contains Pfam PF03441: FAD binding domain of
repressionDNA photolyase; member of Pfam PF00875: deoxyribodipyrimidine photolyase superfamily; 99% identical to Cryptochrome 1
apoprotein (Blue light photoreceptor) (flavin-type blue-light photoreceptor) (SP: Q43125) [Arabidopsis thaliana] (68417.m01469)
108(A) Inorganic NitrogenD-D-D254925_atAt4g11380beta-adaptin, putative strong similarity to SP|Q10567 Adapter-related protein complex 1 beta 1 subunit (Beta-adaptin 1) [Homo
repressionsapiens], beta-adaptin [Drosophila melanogaster] GI: 434902; contains Pfam profile: PF01602 Adaptin N terminal region
(68417.m01835)
109(A) Inorganic NitrogenD-D-D254805_atAt4g12480protease inhibitor/seed storage/lipid transfer protein (LTP) family protein identical to pEARLI 1 (Accession No. L43080): an
repressionArabidopsis member of a conserved gene family (PGF95-099), Plant Physiol. 109 (4), 1497 (1995); contains Pfam protease
inhibitor/seed storage/LTP family domain PF00234 (68417.m01973)
110(A) Inorganic NitrogenD-D-D254785-atAt4g12730fasciclin-like arabinogalactan-protein (FLA2) identical to gi_13377778_gb_AAK20858 (68417.m01999)
repression
111(A) Inorganic NitrogenD-D-D254740_s_atAt4g13890glycine hydroxymethyltransferase, putative/serine hydroxymethyltransferase, putative/serine/threonine aldolase, putative similar
repressionto serine hydroxymethyltransferase [Chlamydomonas reinhardtii] GI: 17066746; contains Pfam profile PF00484: serine
hydroxymethyltransferase (68417.m02152)
112(A) Inorganic NitrogenD-D-D254564_atAt4g191709-cis-epoxycarotenoid dioxygenase, putative/neoxanthin cleavage enzyme, putative/carotenoid cleavage dioxygenase, putative
repressionsimilar to 9-cis-epoxycarotenoid dioxygenase [Phaseolus vulgaris][GI: 6715257]: neoxanthin cleavage enzyme, Lycopersicon
esculentum, PATX: E325797 (68417.m02829)
113(A) Inorganic NitrogenD-D-D254166_atAt4g24190shepherd protein (SHD)/clavata formation protein, putative nearly identical to SHEPHERD [Arabidopsis thaliana] GI: 19570872;
repressioncontains Pfam profiles PF02518: ATPase, histidine kinase-, DNA gyrase B-, and HSP90-like domain protein, PF00183: Hsp90
protein (68417.m03472)
114(A) Inorganic NitrogenD-D-D253887_atAt4g27730oligopeptide transporter OPT family protein similar to SP|P40900 Sexual differentiation process protein isp4 {Schizosaccharomyces
repressionpombe}, oligopeptide transporter Opt1p [Candida albicans] GI: 2367386; contains Pfam profile PF03169: OPT oligopeptide
transporter protein (68417.m03985)
115(A) Inorganic NitrogenD-D-D253609_atAt4g30190ATPase 2, plasma membrane-type, putative/proton pump 2, putative/proton-exporting ATPase, putative strong similarity to
repressionSP|P19456 ATPase 2, plasma membrane-type (EC 3.6.3.6) (Proton pump 2) {Arabidopsis thaliana}; contains InterPro accession
IPR001757: ATPase, E1-E2 type; contains Pfam profile PF00690: Cation transporter/ATPase, N-terminus (68417.m04292)
116(A) Inorganic NitrogenD-D-D253534_atAt4g31500cytochrome P450 83B1 (CYP83B1) Identical to Cytochrome P450 (SP: O65782)[Arabidopsis thaliana] (68417.m04474)
repression
117(A) Inorganic NitrogenD-D-D253050_atAt4g37450arabinogalactan-protein (AGP18) identical to gi_11935088_gb_AAG41964 (68417.m05301)
repression
118(A) Inorganic NitrogenD-D-D252971_atAt4g38770proline-rich family protein (PRP4) similar to proline-rich protein [Arabidopsis thaliana] gi|6782442|gb|AAF28388; contains proline-
repressionrich extensin domains, INTERPRO: IPR002965 (68417.m05490)
119(A) Inorganic NitrogenD-D-D252831_atAt4g399802-dehydro-3-deoxyphosphoheptonate aldolase 1/3-deoxy-D-arabino-heptulosonate 7-phosphate synthase 1/DAHP synthetase 1
repression(DHS1) nearly identical to SP|P29965 (68417.m05662)
120(A) Inorganic NitrogenD-D-D252255_atAt3949220pectinesterase family protein contains Pfam profile: PF01095 pectinesterase (68416.m05379)
repression
121(A) Inorganic NitrogenD-D-D251918_atAt3g54040photoassimilate-responsive protein-related contains weak similarity to mRNA inducible by sucrose and salicylic acid expressed in
repressionsugar-accumulating tobacco plants (GI: 871487) [Nicotiana tabacum] (68416.m05975)
122(A) Inorganic NitrogenD-D-D251899_atAt3g54400aspartyl protease family protein contains Pfam profile: PF00026 eukaryotic aspartyl protease (68416.m06015)
repression
123(A) Inorganic NitrogenD-D-D251847_atAt3g54640tryptophan synthase, alpha subunit (TSA1) identical to gi: 619753 (68416.m06045)
repression
124(A) Inorganic NitrogenD-D-D251413_atAt3g60320expressed protein contains Pfam profiles: PF04782: protein of unknown function (DUF632), PF04783: protein of unknown function
repression(DUF630) (68416.m06742)
125(A) Inorganic NitrogenD-D-D251287_atAt3g61820aspartyl protease family protein contains Pfam domain, PF00026: eukaryotic aspartyl protease (68416.m06939)
repression
126(A) Inorganic NitrogenD-D-D251182_atAt3g62800DNAJ heat shock family protein similar to DnaJ homolog subfamily B member 11 precursor (SP: Q99KV1)[Mus musculus]; contains
repressionPfam PF00226: DnaJ domain; contains PfaPF01556: DnaJ C terminal regionm (68416.m07032)
127(A) Inorganic NitrogenD-D-D251174_atAt3g63200patatin-related low similarity to patatin-like latex protein allergen Hev b 7 - Hevea brasiliensis, EMBL: AF113546; contains patatin
repressiondomain PF01734 (68416.m07100)
128(A) Inorganic NitrogenD-D-D251109_atAt5g01600ferritin 1 (FER1) identical to ferritin [Arabidopsis thaliana] GI: 1246401, GI: 8163920 (68418.m00075)
repression
129(A) Inorganic NitrogenD-D-D250437_atAt5g10430arabinogalactan-protein (AGP4) identical to gi_3883126_gb_AAC77826 (68418.m01209)
repression
130(A) Inorganic NitrogenD-D-D250207_atAt5g13930chalcone synthase/naringenin-chalcone synthase identical to SP|P13114 (68418.m01629)
repression
131(A) Inorganic NitrogenD-D-D250100_atAt5g16570glutamine synthetase, putative similar to glutamine synthetase, cytosolic isozyme (glutamate-ammonia lipase) [Alfalfa] SWISS-
repressionPROT: P04078 (68418.m01939)
132(A) Inorganic NitrogenD-D-D249867_atAt5g230202-isopropylmalate synthase 2 (IMS2) identical to 2-isopropylmalate synthase (IMS2) [Arabidopsis thaliana] GI: 12330689
repression(68416.m02691)
133(A) Inorganic NitrogenD-D-D249812_atAt5g23830MD-2-related lipid recognition domain-containing protein/ML domain-containing protein contains Pfam profile PF02221: ML
repressiondomain (68418.m02797)
134(A) Inorganic NitrogenD-D-D249677_atAt5g35970DNA-binding protein, putative similar to SWISS-PROT: Q60560 DNA-binding protein SMUBP-2 (Immunoglobulin MU binding
repressionprotein 2, SMUBP-2) [Mesocricetus auratus] (68418.m04332)
135(A) Inorganic NitrogenD-D-D249581_atAt5g37600glutamine synthetase, putative similar to glutamine synthetase, cytosolic isozyme (Glutamate-ammonia ligase, GS1) [Lotus
repressionjaponicus] SWISS-PROT: Q42899 (68418.m04529)
136(A) Inorganic NitrogenD-D-D249037_atAt5g44130fasciclin-like arabinogalactan-protein, putative similar to gi_13377784_gb_AAK20861 (68418.m05401)
repression
137(A) Inorganic NitrogenD-D-D248942_atAt5g45480expressed protein contains Pfam domain, PF04578: Protein of unknown function, DUF594 (68418.m05587)
repression
138(A) Inorganic NitrogenD-D-D248721_atAt5g47780glycosyl transferase family 8 protein contains Pfam profile: PF01501 glycosyl transferase family 8; strong similarity to unknown
repressionprotein (emb|CAB71043.1) (68418.m05902)
139(A) Inorganic NitrogenD-D-D248703_atAt5g48430expressed protein low similarity to extracellular dermal glycoprotein EDGP precursor [Daucus carota] GI: 285741, SP|P13917 Basic
repression7S globulin precursor {Glycine max}; expression supported by MPSS (68418.m05988)
140(A) Inorganic NitrogenD-D-D248252_atAt5g53250arabinogalactan-protein, putative (AGP22) similar to arabinogalactan protein [Arabidopsis thaliana] gi|10880509|gb|AAG24284
repression(68418.m06819)
141(A) Inorganic NitrogenD-D-D248118_atAt5g55050GDSL-motif lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386, EXL1 GI: 15054382, EXL2 GI: 15054384
repressionfrom [Arabidopsis thaliana]; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrolase (68418.m06861)
142(A) Inorganic NitrogenD-D-D248037_atAt5g55930oligopeptide transporter OPT family protein similar to SP|P40900 Sexual differentiation process protein isp4 {Schizosaccharomyces
repressionpombe}, oligopeptide transporter Opt1p [Candida albicans] GI: 2367386; contains Pfam profile PF03169: OPT oligopeptide
transporter protein (68418.m06976)
143(A) Inorganic NitrogenD-D-D247517_atAt5g61780tudor domain-containing protein/nuclease family protein contains Pfam domains PF00567: Tudor domain and PF00565:
repressionStaphylococcal nuclease homologue (68418.m07753)
144(A) Inorganic NitrogenD-D-D247492_atAt5g61890AP2 domain-containing transcription factor family protein similar to RAP2.6 (GP: 17065542) {Arabidopsis thaliana}; AP2 domain
repressioncontaining protein, Arabidopsis thaliana, EMBL: ATAF3099 (68418.m07764)
145(A) Inorganic NitrogenD-D-D247494_atAt5g61790calnexin 1 (CNX1) identical to calnexin homolog 1, Arabidopsis thaliana, EMBL: AT08315 [SP|P29402] (68418.m07754)
repression
146(A) Inorganic NitrogenD-D-D247480_atAt5g62390calmodulin-binding family protein contains IQ calmodulin-binding motif, Pfam: PF00612 (68418.m07830)
repression
147(A) Inorganic NitrogenD-D-D247189_atAt5g65390arabinogalacten-protein (AGP7) (68418: m08224)
repression
148(A) Inorganic NitrogenD-D-D246935_atAt5g25350F-box family protein contains Pfam PF00646: F-box domain and Pfam PF00560: Leucine Rich Repeat (6 copies); similar to F-box
repressionprotein FBL6 (GI: 4432860) [Homo sapiens] (68418.m03007)
149(A) Inorganic NitrogenD-D-D246855_atAt5g26280meprin and TRAF homology domain-containing protein/MATH domain-containing protein low similarity to ubiquitin-specific
repressionprotease 12 [Arabidopsis thaliana] GI: 11993471; contains Pfam profile PF00917: MATH domain (68418.m03137)
150(A) Inorganic NitrogenD-D-D246510_atAt5g15410cyclic nucleotide-regulated ion channel/cyclic nucleotide-gated channel (CNGC2) identical to cyclic nucleotide-gated cation
repressionchannel GI: 3894399 from [Arabidopsis thaliana] (68418.m01803)
151(A) Inorganic NitrogenD-D-D245956_s_atAt5g28540luminal binding protein 1 (BiP-1) (BP1) SWISS-PROT: Q9LKR3 PMID: 8888624 (68418.m03480)
repression
152(A) Inorganic NitrogenD-D-D245915_s_atAt5g19770tubulin alpha-3/alpha-5 chain (TUA3) nearly identical to SP|P20383 Tubulin alpha-3/alpha-5 chain {Arabidopsis thaliana}
repression(68418.m02350)
153(A) Inorganic NitrogenD-D-D245874_atAt1g26250proline-rich extensin, putative similar to extensin gi|1165322|gb|AAB53156; contains proline-rich extensin domains,
repressionINTERPRO: IPR002965 (68414.m03202)
154(A) Inorganic NitrogenD-D-D245688_atAt1g28290pollen Ole e 1 allergen and extensin family protein similar to arabinogalactan protein [Daucus carota] GI: 11322245; contains Pfam
repressionprofile PF01190: Pollen proteins Ole e I family (68414.m03472)
155(A) Inorganic NitrogenD-D-D245281_atAt4g155601-deoxy-D-xylulose 5-phosphate synthase, putative/1-deoxyxylulose-5-phosphate synthase, putative/DXP-synthase, putative
repression(DEF) (CLA1) identical to SP|Q38854 Probable 1-deoxy-D-xylulose 5-phosphate synthase, chloroplast precursor (EC 4.1.3.37) (1-
deoxyxylulose-5-phosphate synthase) (DXP synthase) (DXPS). [Mouse-ear cress] {Arabidopsis thaliana}, DEF (deficient in
photosynthesis) protein [Arabidopsis thaliana] GI: 1399261 (68417.m02377)
156(A) Inorganic NitrogenD-D-D245293_atAt4g16660heat shock protein 70, putative/HSP70, putative (68417.m02517)
repression
157(A) Inorganic NitrogenD-D-D245175_atAt2g47470thioredoxin family protein similar to protein disulfide isomerase [Dictyostelium discoideum] GI: 2627440; contains Pfam profile:
repressionPF00085 Thioredoxin (68415.m05924)
158(A) Inorganic NitrogenD-D-D245012_atndhCNADH dehydrogenase D3
repression
159(A) Inorganic NitrogenD-D-D244984_atrps3 chloroplribosomal protein S3
repression
1(B) Inorganic NitrogenI-I-NC266296_atAt2g29420glutathione S-transferase, putative (68415.m03575)
induction and external
2(B) Inorganic NitrogenI-I-NC265499_atAt2g15480UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
induction and externaltransferase (68415.m01771)
3(B) Inorganic NitrogenI-I-NC263046_atAt2g05380glycine-rich protein (GRP3S) identical to cDNA glycine-rich protein 3 short isoform (GRP3S) GI: 4206766 (68415.M00566)
induction and external
4(B) Inorganic NitrogenI-I-NC262119_s_atAt1g02930glutathione S-transferase, putative similar to glutathione S-transferase GI: 860955 from [Hyoscyamus muticus] (68414.m00260)
induction and external
5(B) Inorganic NitrogenI-I-NC260602_atAt1g55920serine O-acetyltransferase, putative identical to GI: 608677 from [Arabidopsis thaliana] (68414.m06414)
induction and external
6(B) Inorganic NitrogenI-I-NC259875_s_atAt1g7669012-oxophytodienoate reductase (OPR2) identical to 12-oxophytodienoate reductase OPR2 GB: AAC78441 [Arabidopsis thaliana]
induction and external(68414.m08924)
7(B) Inorganic NitrogenI-I-NC259428_atAt1g01560mitogen-activated protein kinase, putative/MAPK, putative (MPK11) similar to MAP kinase 5 GI: 4239889 from [Zea mays]; mitogen
induction and externalactivated protein kinase (MAPK)(AtMPK11), PMID: 12119167 (68414.m00073)
8(B) Inorganic NitrogenI-I-NC256245_atAt3g12580heat shock protein 70, putative/HSP70, putative strong similarity to heat shock protein GI: 425194 [Spinacia olerecea]
induction and external(68416.m01567)
9(B) Inorganic NitrogenI-I-NC254256_atAt4g23180receptor-like protein kinase 4, putative (RLK4) nearly identical to receptor-like protein kinase 4 [Arabidopsis thaliana] GI: 13506745;
induction and externalcontains Pfam domain, PF00069: Protein kinase domain; identical to cDNA receptor-like protein kinase 4 (RLK4) GI: 13506744
(68417.m03344)
10(B) Inorganic NitrogenI-I-NC253268_s_atAt4g34135UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
induction and externaltransferase (68417.m04842)
11(B) Inorganic NitrogenI-I-NC252037_atAt3g51920calmodulin-9 (CAM9) identical to calmodulin 9 GI: 5825602 from [Arabidopsis thaliana]; contains Pfam profile PF00036: EF hand
induction and external(68416.m05695)
12(B) Inorganic NitrogenI-I-NC248657_atAt5g48570peptidyl-prolyl cis-trans isomerase, putative/FK506-binding protein, putative similar to rof1 [Arabidopsis thaliana] GI: 1373396
induction and external(68418.m06007)
13(B) Inorganic NitrogenI-I-NC247218_atAt5g65010asparagine synthetase 2 (ASN2) identical to asparagine synthetase (ASN2) [Arabidopsis thaliana] GI: 3859536 (68418.m08177)
induction and external
14(B) Inorganic NitrogenI-I-NC245252_atAt4g17500ethylene-responsive element-binding protein 1 (ERF1)/EREBP-2 protein identical to SP|O80337 Ethylene responsive element
induction and externalbinding factor 1 (EREBP-2 protein) [Arabidopsis thaliana]; a false single by exon was added to circumvent a single basepair
insertion in the genomic sequence, supported by cDNA/genome alignment. (68417.m02618)
15(B) Inorganic NitrogenI-I-NC245011_atpsbGphotosystem II G protein
induction and external
16(B) Inorganic NitrogenD-D-I267147_atAt2g38240oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to flavonol synthase [Citrus unshiu][gi: 4126403], leucoanthocyanidin
repression and externtext missing or illegible when filed dioxygenase [Daucus carota][gi: 5924383]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68415.m04696)
17(B) Inorganic NitrogenD-D-I263497_atAt2g42540cold-responsive protein/cold-regulated protein (cor15a) identical to cold-regulated protein cor15a [Arabidopsis thaliana]
repression and externtext missing or illegible when filed GI: 507149; contains Pfam profile PF02987: Late embryogenesis abundant protein (68415.m05264)
18(B) Inorganic NitrogenD-D-I251770_atAt3g55970oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to leucoanthocyanidin dioxygenase, Malus domestics, SP|P51091;
repression and externtext missing or illegible when filed contains Pfam profile PF03171: oxidoreductase, 2OG-Fe(II) oxygenase family (68416.m06219)
19(B) Inorganic NitrogenD-D-NC266743_atAt2g02990ribonuclease 1 (RNS1) identical to ribonuclease SP: P42813 Ribonuclease 1 precursor (EC 3.1.27.1) {Arabidopsis thaliana}
repression and externtext missing or illegible when filed GI: 561998 from [Arabidopsis thaliana] (68415.m00251)
20(B) Inorganic NitrogenD-D-NC266225_atAt2g28900mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family protein contains Pfam PF02466:
repression and externtext missing or illegible when filed Mitochondrial import inner membrane translocase subunit Tim17 (68415.m03512)
21(13) Inorganic NitrogenD-D-NC265411_atAt2g16630proline-rich family protein contains proline-rich extensin domains, INTERPRO: IPR002965 (68415.m01909)
repression and externtext missing or illegible when filed
22(B) Inorganic NitrogenD-D-NC265414_atAt2g16660nodulin family protein similar to nodulin-like protein [Arabidopsis thaliana] GI: 3329368, nodule-specific protein Nlj70 [Lotus
repression and externtext missing or illegible when filed japonicus] GI: 3329366 (68415.m01912)
23(B) Inorganic NitrogenD-D-NC264611_atAt1g04680pectate lyase family protein similar to pectate lyase GP: 14531296 from [Fregaria x ananassa] (68414.m00465)
repression and externtext missing or illegible when filed
24(B) Inorganic NitrogenD-D-NC262784_atAt1g10760starch excess protein (SEX1) identical to SEX1 [Arabidopsis thaliana] GI: 12044358: supporting cDNA
repression and externtext missing or illegible when filed gi|12044357|gb|AF312027.1|AF312027 (68414.m01231)
25(B) Inorganic NitrogenD-D-NC262068_atAt1g80070splicing factor, putative strong similarity to splicing factor Prp8 [Homo sapiens] GI: 3661610; contains Pfam profile PF01398:
repression and externtext missing or illegible when filed Mov34/MPN/PAD-1 family (68414.m09373)
28(B) Inorganic NitrogenD-D-NC261485_atAt1g14360UDP-galactose/UDP-glucose transporter, putative very similar to UDP-galactose/UDP-glucose transporter (GI: 22651763)
repression and externtext missing or illegible when filed {Arabidopsis thaliana} (68414.m01702)
27(B) Inorganic NitrogenD-D-NC259936_atAt1g71220UDP-glucose:glycoprotein glucosyltransferase, putative similar to UDP-glucose:glycoprotein glucosyltransferase precursor
repression and externtext missing or illegible when filed GB: Q09332 [SP|Q09332] from Drosophila melanogaster, [gi: 7670748] and [gi: 11346464] from Homo sapiens (68414.m08219)
28(B) Inorganic NitrogenD-D-NC259789_atAt1g29395stress-responsive protein, putative similar to cold acclimation WCOR413-like protein gamma form [Hordeum vulgare]
repression and externtext missing or illegible when filed gi|18449100|gb|AAL69988; similar to stress-regulated protein SAP1 [Xerophyta viscose] gi|21360378|gb|AAM47505
(68414.m03595)
29(B) Inorganic NitrogenD-D-NC259640_atAt1g52400glycosyl hydrolase family 1 protein/beta-glucosidase, putative (BG1) contains Pfam PF00232: Glycosyl hydrolase family 1
repression and externtext missing or illegible when filed domain; TIGRFAM TIGR01233: 6-phospho-beta-galactosidase; identical to GI: 6651430 from [Arabidopsis thaliana]
(68414.m05913)
30(B) Inorganic NitrogenD-D-NC259553_x_atAt1g21310proline-rich extensin-like family protein contains extensin-like region, Pfam: PF04554 (68414.m02662)
repression and externtext missing or illegible when filed
31(B) Inorganic NitrogenD-D-NC258040_atAt3g21190expressed protein contains Pfam PF03138: Plant protein family. The function of this family of plant proteins is unknown;
repression and externtext missing or illegible when filed (68416.m02678)
32(B) Inorganic NitrogenD-D-NC257202_atAt3g23750leucine-rich repeat family protein/protein kinase family protein contains Pfam domains PF00560: Leucine Rich Repeat and
repression and externtext missing or illegible when filed PF00069: Protein kinase domain (68416.m02986)
33(B) Inorganic NitrogenD-D-NC256787_atAt3g13790beta-fructosidase (BFRUCT1)/beta-fructofuranosidase/cell wall invertase identical to beta-fructofuranosidase GI: 402740 from
repression and externtext missing or illegible when filed [Arabidopsis thaliana] (68416.m01742)
34(B) Inorganic NitrogenD-D-NC255942_atAt1g22360UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
repression and externtext missing or illegible when filed transferase (68414.m02797)
35(B) Inorganic NitrogenD-D-NC254832_atAt4g12490protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to pEARLI 1 (Accession No. L43080): an
repression and externtext missing or illegible when filed Arabidopsis member of a conserved gene family (PGF95-099), Plant Physiol 109 (4), 1497 (1995); contains Pfam protease
inhibitor/seed storage/LTP family domain PF00234 (88417.m01974)
36(B) Inorganic NitrogenD-D-NC254468_atAt4g20460NAD-dependent epimerase/dehydratase family protein similar to UDP-galactose 4-epimerase from Cyamopsis tetragonoloba
repression and externtext missing or illegible when filed GI: 3021357 [EMBL: AJ005082], Bacillus subtilis SP|P55180; contains Pfam profile PF01370 NAD dependent
epimerase/dehydratase family (68417.m02985)
37(B) Inorganic NitrogenD-D-NC254361_atAt4g22212expressed protein (68417.m03211)
repression and externtext missing or illegible when filed
38(B) Inorganic NitrogenD-D-NC252618_atAt3g45140lipoxygenase (LOX2) identical to SP|P38418 (68416.m04872)
repression and externtext missing or illegible when filed
39(B) Inorganic NitrogenD-D-NC252066_atAt3g51550protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68416.m05645)
repression and externtext missing or illegible when filed
40(B) Inorganic NitrogenD-D-NC251513_atAt3g59220pirin, putative similar to SP|O00625 Pirin {Homo sapiens}; contains Pfam profile PF02678: Pirin (68416.m06602)
repression and externtext missing or illegible when filed
41(B) Inorganic NitrogenD-D-NC251390_atAt3g60860guanine nucleotide exchange family protein similar to guanine nucleotide exchange factor, Homo sapiens, GI: 5456754; contains
repression and externtext missing or illegible when filed Pfam profile PF01369: Sec7 domain (68416.m06808)
42(B) Inorganic NitrogenD-D-NC250930_atAt5g03160DNAJ heat shock N-terminal domain-containing protein similar to P58 protein. Bos primigenius taurus, PIR: A56534; similar to p58
repression and externtext missing or illegible when filed (GI: 1353270) {Homo sapiens}; contains Pfam PF00226: DnaJ domain; contains Pfam PF00515: TPR Domain (68418.m00264)
43(B) Inorganic NitrogenD-D-NC250690_atAt5g06530ABC transporter family protein (68418.m00736)
repression and externtext missing or illegible when filed
44(B) Inorganic NitrogenD-D-NC250661_atAt5g07030aspartyl protease family protein contains Pfam profile: PF00026 eukaryotic aspartyl protease (68418.m00796)
repression and externtext missing or illegible when filed
45(B) Inorganic NitrogenD-D-NC250662_atAt5g07010sulfotransferase family protein similar to steroid sulfotransferase 3 [Brassica napus] GI: 3420008, steroid sulfotransferase 1
repression and externtext missing or illegible when filed [Brassica napus] GI: 3420004; contains Pfam profile PF00685: Sulfotransferase domain (68418.m00794)
46(B) Inorganic NitrogenD-D-NC247552_atAt5g60920phytochetatin synthetase. putative/COBRA cell expansion protein COB, putative similar to phytochelatin synthetase GI: 29570314;
repression and externtext missing or illegible when filed similar to GB: AAK56072; identified in Roudier, et al, Plant Phys. (2002) 130: 538-548 (PMID: 12376623); identical to cDNA putative
phytochelatin synthetase GI: 3559804, contains Pfam profile PF04833: Phytochelatin synthetase-like conserved region
(68418.m07642)
47(B) Inorganic NitrogenD-D-NC247284_atAt5g64410oligopeptide transporter OPT family protein similar to SP|P40900 Sexual differentiation process protein isp4 {Schizosaccharomyces
repression and externtext missing or illegible when filed pombe}; contains Pfam profile PF03169: OPT oligopeptide transporter protein (68418.m08091)
48(B) Inorganic NitrogenD-D-NC247251_atAt5g64740cellulose synthase, catalytic subunit, putative similar to gi: 2827141 cellulose synthase catalytic subunit (Ath-A), Arabidopsis
repression and externtext missing or illegible when filed thaliana (68418.m08141)
1(C) Internal Glu inductionI-NC-NC267366_atAt2g44310calcium-binding EF hand family protein contains INTERPRO: IPR002048 calcium-binding EF-hand domain (68415.m05513)
2(C) Internal Glu inductionI-NC-NC266983_atAt2g39400hydrolase, alpha/beta fold family protein similar to monoglyceride lipase from [Homo sapiens] GI: 14594904, [Mus musculus]
GI: 2632162; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68415.m04835)
3(C) Internal Glu inductionI-NC-NC266290_atAt2929490glutathione S-transferase, putative similar to glutathione S-transferase 103-1A [Arabidopsis thaliana] SWISS-PROT: P46421
(68416.m03582)
4(C) Internal Glu inductionI-NC-NC265662_atAt2g24500zinc finger (C2H2 type) family protein contains Pfam profile: PF00098 zinc finger, C2H2 type (68415.m02927)
5(C) Internal Glu inductionI-NC-NC265116_atAt1g62480vacuolar calcium-binding protein-related contains weak similarity to vacuolar calcium binding protein [Raphanus sativus]
gi|9049359|dbj|BAA99394 (68414.m07050)
6(C) Internal Glu inductionI-NC-NC264561_atAt1g55810uracil phosphoribosyltransferase, putative/UMP pyrophosphorylase, putative/UPRTase, putative similar to SP|O65583 Uracil
phosphoribosyltransferase (EC 2.4.2.9) (UMP pyrophosphorylase) (UPRTase) {Arabidopsis thaliana}; contains Pfam profile
PF00485: Phosphoribulokinase/Uridine kinase family (68414.m06394)
7(C) Internal Glu inductionI-NC-NC264279_s_atAt1g78820curculin-like (mannose-binding) lectin family protein/PAN domain-containing protein similar to S locus glycoprotein [Brassica rapa]
GI: 12246840; contains Pfam profile PF01453: Lectin (probable mannose binding) (68414.m09188)
8(C) Internal Glu inductionI-NC-NC263866_atAt2g36950heavy-metal-associated domain-containing protein nearly identical to famesylated protein ATFP2 [GI: 4097545] Pfam profile
PF00403: Heavy-metal-associated domain (68415.m04531)
9(C) Internal Glu inductionI-NC-NC263403_atAt2g04040MATE efflux family protein contains Pfam profile: PF01554 uncharacterized membrane protein family (68415.m00385)
10(C) Internal Glu inductionI-NC-NC263275_atAt2g14170methylmalonate-semialdehyde dehydrogenase, putative similar to methylmalonate-semialdehyde dehydrogenase [acylating],
mitodiondrial precursor (MMSDH) [Rattus norvegicus] SWISS-PROT: Q02253 (68415.m01578)
11(C) Internal Glu inductionI-NC-NC263118_atAt1g03090methylcrotonyl-CoA carboxylase alpha chain, mitochondrial/3-methylcrotonyl-CoA carboxylase 1 (MCCA) nearly identical to
SP|Q42523 Methylcrotonyl-CoA carboxylase alpha chain, mitochondrial precursor (EC 6.4.1.4) (3-Methylcrotonyl-CoA carboxylase
1) (MCCase alpha subunit) (3-methylcrotonyl-CoA:carbon dioxide ligase alpha subunit) {Arabidopsis thaliana} (68414.m00283)
12(C) Internal Glu inductionI-NC-NC262603_atAt1g15380lactoylglutathione lyase family protein/glyoxalase I family protein contains glyoxalase family protein domain, Pfam: PF00903
(68414.m01841)
13(C) Internal Glu inductionI-NC-NC262517_atAt1g17180glutathione S-transferase, putative Second of three repeated putative glutathione transferases. 72% identical to glutathione
transferase [Arabidopsis thaliana] (gi|4006934). Location of ests 191A10T7 (gb|R90188) and 171N13T7 (gb|R65532)
(68414.m02094)
14(C) Internal Glu inductionI-NC-NC262518_atAt1g17170glutathione S-transferase, putative One of three repeated putative glutathione transferases. 72% identical to glutathione
transferase [Arabidopsis thaliana] (gi|4006934) (68414.m02093)
15(C) Internal Glu inductionI-NC-NC262049_atAt1g80180expressed protein (68414.m09384)
16(C) Internal Glu inductionI-NC-NC260592_atAt1g55850cellulose synthase family protein similar to cellulose synthase catalytic subunit [gi: 13925881] from Nicotiana alata, cellulose
synthase-5 [gi: 9622882] from Zea mays (68414.m06405)
17(C) Internal Glu inductionI-NC-NC259996_atAt1g67910expressed protein (68414.m07755)
18(C) Internal Glu inductionI-NC-NC259911_atAt1g72680cinnamyl-alcohol dehydrogenase, putative similar to cinnamyl-alcohol dehydrogenase GB: AAC35846 [Medicago sativa],
SP|Q08350 [Picea abies] (68414.m08405)
19(C) Internal Glu inductionI-NC-NC259478_atAt1g18980germin-like protein, putative similar to germin-like protein subfamily T member 1 [SP|P92995]; contains PS00725 germin family
signature (68414.m02361)
20(C) Internal Glu inductionI-NC-NC258837_atAt3g0711060S ribosomal protein L13A (RPL13aA) similar to ribosomal protein L13A GB: O49885 [Lupinus luteus] (68416.m00847)
21(C) Internal Glu inductionI-NC-NC258699_atAt3g09460
22(C) Internal Glu inductionI-NC-NC258284_atAt3g1608060S ribosomal protein L37 (RPL37C) similar to ribosomal protein L37 GB: BAA04888 from [Homo sapiens] (68416.m02032)
23(C) Internal Glu inductionI-NC-NC257658_atAt3g13230expressed protein (68416.m01665)
24(C) Internal Glu inductionI-NC-NC256965_atAt3g134502-oxoisovalerate dehydrogenase/3-methyl-2-oxobutanoate dehydrogenase/branched-chain alpha-keto acid dehydrogenase E1
beta subunit (DIN4) identical to branched chain alpha-keto acid dehydrogenase E1 beta subunit [Arabidopsis thaliana] GI: 7021286
(68416.m01692)
25(C) Internal Glu inductionI-NC-NC256453_atAt1g75270dehydroascorbate reductase, putative similar to GI: 6939839 from [Oryza sativa] (68414.m08744)
26(C) Internal Glu inductionI-NC-NC256385_atAt1g6658060S ribosomal protein L10 (RPL10C) contains Pfam profile: PF00826: Ribosomal L10 (68414.m07565)
27(C) Internal Glu inductionI-NC-NC256225_atAt1g56220dormancy/auxin associated family protein similar to Auxin-repressed 12.5 kDa protein (Swiss-Prot: Q05349) [Fragaria ananassa];
similar to auxin-repressed protein (GI: 927034) [Fragaria x ananassa]; similar to dormancy-associated protein (GI: 2605887) [Pisum
sativum] (68414.m06461)
28(C) Internal Glu inductionI-NC-NC256061_atAt1g07040expressed protein (68414.m00750)
29(C) Internal Glu inductionI-NC-NC254923_atAt4g11240serine/threonine protein phosphatase PP1 isozyme 6 (PP1BG) (TOPP6) identical to SP|P48486 Serine/threonine protein
phosphatase PP1 isozyme 6 (EC 3.1.3.16) {Arabidopsis thaliana} (68417.m01820)
30(C) Internal Glu inductionI-NC-NC254831_atAt4g12600ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein Similar to NHP2/L7Ae family proteins, see SWISSPROT: P32495 and
PMID: 2063628. (68417.m01986)
31(C) Internal Glu inductionI-NC-NC254318_atAt4g22530embryo-abundant protein-related similar to embryo-abundant protein [Picea glauca] GI: 1350531 (68417.m03251)
32(C) Internal Glu inductionI-NC-NC253203_atAt4g34710arginine decarboxylase 2 (SPE2) identical to SP|O23141 Arginine decarboxylase 2 (EC 4.1.1.19) (ARGDC 2) (ADC 2) (ADC-N)
{Arabidopsis thaliana} (68417.m04926)
33(C) Internal Glu inductionI-NC-NC253043_atAt4g37540LOB domain protein 39/lateral organ boundaries domain protein 39 (LBD39) identical to SP|Q9SZE8 LOB domain protein 39
{Arabidopsis thaliana} (68417.m05312)
34(C) Internal Glu inductionI-NC-NC252991_atAt4g38470protein kinase family protein similar to protein kinase [gi: 170047] from Glycine max; contains Pfam protein kinase domain PF00069
(68417.m05436)
35(C) Internal Glu inductionI-NC-NC252882_atAt4g39675expressed protein (68417.m05612)
36(C) Internal Glu inductionI-NC-NC252293_atAt3g48990AMP-dependent synthetase and ligase family protein similar to peroxisomal-coenzyme A synthetase (FAT2) [gi: 586339] from
Saccharomyces cerevisiae; contains Pfam AMP-binding enzyme domain PF00501; identical to cDNA; identical to cDNA adenosine
monophosphate binding protein 3 AMPBP3 (AMPBP3)GI: 20799714 (68416.m05351)
37(C) Internal Glu inductionI-NC-NC252034_atAt3g52040expressed protein (68416.m05708)
38(C) Internal Glu inductionI-NC-NC251486_atAt3g5954060S ribosomal protein L38 (RPL38B) 60S RIBOSOMAL PROTEIN L38 - Lycopersicon esculentum, EMBL X69979 (68416.m06645)
39(C) Internal Glu inductionI-NC-NC250670_atAt5g06860polygalacturonase inhibiting protein 1 (PGIP1) identical to polygalacturonase inhibiting protein 1 (PGIP1) [Arabidopsis thaliana]
gi|7800199|gb|AAF69827; contains leucine rich-repeat (LRR) domains Pfam: PF00560, INTERPRO: IPR001611 (68418.m00776)
40(C) Internal Glu inductionI-NC-NC250385_atAt5g11520aspartate aminotransferase, chloroplast/transaminase A (ASP3) (YLS4) identical to SP|P46644 Aspartate aminotransferase,
chloroplast precursor (EC 2.6.1.1) (Transaminase A) {Arabidopsis thaliana}; identical to cDNA YLS4 mRNA for aspartate
aminotransferase (ASP3), partial cds GI: 13122285 (68418.m01344)
41(C) Internal Glu inductionI-NC-NC250032_atAt5g18170glutamate dehydrogenase 1 (GDH1) identical to glutamate dehydrogenase 1 (GDH 1) [Arabidopsis thaliana] SWISS-
PROT: Q43314 (68418.m02133)
42(C) Internal Glu inductionI-NC-NC249941_atAt5g22270expressed protein similar to unknown protein (gb AAF02129.1) (68418.m02595)
43(C) Internal Glu inductionI-NC-NC249752_atAt5g24660expressed protein (68418.m02914)
44(C) Internal Glu inductionI-NC-NC249467_atAt5g39610no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) protein; similar to cup-shaped
cotyledon CUC2 (GI: 1944132) [Arabidopsis thaliana] (68418.m04797)
45(C) Internal Glu inductionI-NC-NC249125_atAt5g434502-oxoglutarate-dependent dioxygenase, putative similar to 2A6 (GI: 599622) and tomato ethylene synthesis regulatory protein E8
(SP|P10967) (68418.m05312)
46(C) Internal Glu inductionI-NC-NC249076_atAt5g43970expressed protein (68418.m05380)
47(C) Internal Glu inductionI-NC-NC248607_atAt5g49480sodium-inducible calcium-binding protein (ACP1)/sodium-responsive calcium-binding protein (ACP1) identical to NaCl-inducible
Ca2+-binding protein GI: 2352828 from [Arabidopsis thaliana] (68418.m06123)
48(C) Internal Glu inductionI-NC-NC248381_atAt5g51830pfkB-type carbohydrate kinase family protein contains Pfam profile: PF00294 pfkB family carbohydrate kinase (68418.m06426)
49(C) Internal Glu inductionI-NC-NC247283_atAt5g642502-nitropropane dioxygenase family/NPD family contains Pfam profile PF03060: oxidoreductase, 2-nitropropane dioxygenase
(NPD) family (68418.m08071)
50(C) Internal Glu inductionI-NC-NC247009_atAt5g67600expressed protein (68418.m08524)
51(C) Internal Glu inductionI-NC-NC246745_atAt5g2777060S ribosomal protein L22 (RPL22C) ribosomal protein L22 (cytosolic), Rattus norvegicus, PIR: S52084 (68418.m03330)
52(C) Internal Glu inductionI-NC-NC246463_atAt5g16970NADP-dependent oxidoreductase, putative (P1) identical to probable NADP-dependent oxidoreductase P1, zeta-crystallin homolog
[SP|Q39172][gi: 886428], Arabidopsis thaliana similar to allyl alcohol dehydrogenase [Nicotiana tabacum] GI: 6692816; contains
Pfam profile PF00107: oxidoreductase, zinc-binding dehydrogenase family (68418.m01988)
53(C) Internal Glu inductionI-NC-NC245794_atAt1g32170xyloglucan:xyloglucosyl transferase, putative/xyloglucan endotransglycosylase, putative/endo-xyloglucan transferase, putative
(XTR4) identical to N-terminal partial sequence of xyloglucan endotransglycosylase-related protein XTR4 GI: 1244754 from
[Arabidopsis thaliana]; similar to endoxyloglucan transferase [Arabidopsis thaliana] GI: 5533311 (68414.m03957)
54(C) Internal Glu inductionI-NC-NC245765_atAt1g33600leucine-rich repeat family protein contains leucine rich-repeat (LRR) domains Pfam: PF00560. INTERPRO: IPR001611; contains
similarity to gi|9294355|dbj|BAB02252 [Arabidopsis thaliana] (68414.m04159)
55(C) Internal Glu inductionI-NC-NC245512_atAt4g1577060S ribosome subunit biogenesis protein, putative contains similarity to 60S ribosome subunit biogenesis protein NIP7 (Swiss-
Prot: Q08962) [Saccharomyces cerevisiae] (68417.m02401)
56(C) Internal Glu inductionI-NC-NC245038_atAt2g26560patatin, putative similar to patatin-like latex allergen [Hevea brasiliensis][PMID: 10589016]; contains patatin domain PF01734
(68415.m03186)
57(C) Internal Glu inductionNC-D-D267209_atAt2g30930expressed protein (68415.m03771)
58(C) Internal Glu inductionNC-D-D265066_atAt1g03870fasciclin-like arabinogalactan-protein (FLA9) identical to gi_13377784_gb_AAK20861 (68414.m00371)
59(C) Internal Glu inductionNC-D-D264672_atAt1g09750chloroplast nucleoid DNA-binding protein-related contains Pfam profile PF00026: Eukaryotic aspartyl protease; b similar to CND41,
chloroplast nucleoid DNA binding protein (GI: 2541876) [Nicotiana tabacum] (68414.m01094)
60(C) Internal Glu inductionNC-D-D264371_atAt1g12090protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to 14 kDa polypeptide [Catharanthus roseus]
GI: 407410; contains Pfam protease inhibitor/seed storage/LTP family domain PF00234 (68414.m01399)
61(C) Internal Glu inductionNC-D-D263598_atAt2g01850xyloglucan:xyloglucosyl transferase/xyloglucan endotransglycosylase/endo-xyloglucan transferase (EXGT-A3) identical to
endoxyloglucan transferase [Arabidopsis thaliana] GI: 5533313 (68415.m00118)
62(C) Internal Glu inductionNC-D-D261975_atAt1g64640plastocyanin-like domain-containing protein contains InterPro: IPR003245 plastocyanin-like domain (68414.m07328)
63(C) Internal Glu inductionNC-D-D261825_atAt1g11545xyloglucan:xyloglucosyl transferase, putative/xyloglucan endotransglycosylase, putative/endo-xyloglucan transferase, putative
similar to endo-xyloglucan transferase GI: 2244732 from [Gossypium hirsutum] (68414.m01326)
64(C) Internal Glu inductionNC-D-D260221_atAt1g74670gibberellin-responsive protein, putative similar to SP|P48890 Gibberellin-regulated protein 4 precursor {Arabidopsis thaliana}
GASA4; contains Pfam profile PF02704: Gibberellin regulated protein (68414.m08647)
65(C) Internal Glu inductionNC-D-D259980_atAt1g76520auxin efflux carrier family protein contains auxin efflux carrier domain. Pfam: PF03547 (68414.m08904)
66(C) Internal Glu inductionNC-D-D259803_atAt1g72150SEC14 cytosolic factor family protein/phosphoglyceride transfer family protein similar to SEC14-like protein 2 (Alpha-tocopherol
associated protein) (TAP) (bTAP) (Fragment) (SP: P58875) {Bos taurus}; similar to GI: 807956 from [Saccharomyces cerevisiae];
contains Pfam PF00650: CRAL/TRIO domain; contains Pfam PF03765: CRAL/TRIO, N-terminus (68414.m08342)
67(C) Internal Glu inductionNC-D-D259588_atAt1g27930expressed protein contains Pfam profile PF04669: Protein of unknown function (DUF579) (68414.m03422)
68(C) Internal Glu inductionNC-D-D258410_atAt3g1678060S ribosomal protein L19 (RPL19B) similar to ribosomal protein L19 GB: CAA45090 from [Homo sapiens] (68416.m02142)
69(C) Internal Glu inductionNC-D-D258369_atAt3g14310pectinesterase family protein contains Pfam profiles: PF01095 pectinesterase, PF04043 plant invertase/pectin methylesterase
inhibitor; similar to pectin methylesterase GB: Q42534 from [Arabidopsis thaliana] (68416.m01810)
70(C) Internal Glu inductionNC-D-D257798_atAt3g15950DNA topoisomerase-related similar to DNA topoisomerase IV subunit A (GI: 26454107) [Mycoplasma penetrans] (68416.m02017)
71(C) Internal Glu inductionNC-D-D257203_atAt3g23730xyloglucan:xyloglucosyl transferase, putative/xyloglucan endotransglycosylase, putative/endo-xyloglucan transferase, putative
similar to xyloglucan endotransglycosylase-related protein GI: 1244780 from [Arabidopsis thaliana] (68416.m02984)
72(C) Internal Glu inductionNC-D-D257037_atAt3g19130RNA-binding protein, putative similar to RNA Binding Protein 47 [Nicotiana plumbaginifolia] GI: 9663769, DNA binding
protein ACBF GB: AAC49850 from [Nicotiana tabacum]; contains InterPro entry IPR000504: RNA-binding region RNP-1
(RNA recognition motif) (RRM) (68416.m02429)
73(C) Internal Glu inductionNC-D-D256543_atAt1g42480expressed protein (68414.m04898)
74(C) Internal Glu inductionNC-D-D255856_atAt1g66940protein kinase-related (68414.m07608)
75(C) Internal Glu inductionNC-D-D254789_atAt4g12880plastocyanin-like domain-containing protein (68417.m02016)
76(C) Internal Glu inductionNC-D-D254726_atAt4g13660pinoresinol-lariciresinol reductase, putative similar to pinoresinol-lariciresinol reductase TH1 [Tsuga heterophylla][GI: 7578915];
contains isoflavone reductase domain PF02718 (68417.m02124)
77(C) Internal Glu inductionNC-D-D252407_atAt3g47520malate dehydrogenase [NAD], chloroplast (MDH) identical to chloroplast NAD-malate dehydrogenase [Arabidopsis thaliana]
GI: 3256066; contains InterPro entry IPR001236: Lactate/malate dehydrogenase; contains Pfam profiles PF00056: lactate/malate
dehydrogenase, NAD binding domain and PF02866: lactate/malate dehydrogenase, alpha/beta C-terminal domain
(68416.m05168)
78(C) Internal Glu inductionNC-D-D252220_atAt3g49940LOB domain protein 38/lateral organ boundaries domain protein 38 (LBD38) identical to SP|Q9SN23 LOB domain protein 38
{Arabidopsis thaliana} (68416.m05461)
79(C) Internal Glu inductionNC-D-D252199_atAt3g50270transferase family protein similar to anthranilate N-hydroxycinnamoyl/benzoyltransferase, Dianthus caryophyllus [gi: 2239091];
contains Pfam transferase family domain PF002458 (68416.m05497)
80(C) Internal Glu inductionNC-D-D251830_atAt3g55010phosphoribosylformylglycinamidine cyclo-ligase. chloroplast/phosphoribosyl-aminoimidazole synthetase/AIR synthase (PUR5)
identical to phosphoribosylformylglycinamidine cyclo-ligase, chloroplast precursor SP: Q05728 from [Arabidopsis thaliana]; contains
Pfam profiles: PF02769 AIR synthase related protein, C-terminal domain, PF00586 AIR synthase related protein, N-terminal
domain (68416.m06108)
81(C) Internal Glu inductionNC-D-D251015_atAt5g02480expressed protein p (68418.m00181)
82(C) Internal Glu inductionNC-D-D250777_atAt5g05440expressed protein low similarity to cytokinin-specific binding protein [Vigna radiata] GI: 4190976 (68418.m00586)
83(C) Internal Glu inductionNC-D-D250366_atAt5g11420expressed protein contains Pfam profile PF04862: Protein of unknown function, DUF642 (68418.m01333)
84(C) Internal Glu inductionNC-D-D248564_atAt5g49700DNA-binding protein-related contains Pfam domain PF03479: Domain of unknown function (DUF296), found in AT-hook motifs
Pfam: PF02178 (68418.m06153)
85(C) Internal Glu inductionNC-D-D247555_atAt5g61020YT521-B-like family protein contains Pfam profile PF04146: YT521-B-like family (68418.m07655)
86(C) Internal Glu inductionNC-D-D247266_atAt5g64570glycosyl hydrolase family 3 protein (68418.m08115)
87(C) Internal Glu inductionNC-D-D246919_atAt5g25460expressed protein contains Pfam profile PF04862: Protein of unknown function, DUF642 (68418.m03026)
88(C) Internal Glu inductionNC-D-D246550_atAt5g14920gibberellin-regulated family protein similar to SP|P46689 Gibberellin-regulated protein 1 precursor (Arabidopsis thaliana); contains
Pfam profile PF02704: Gibberellin regulated protein (68418.m01750)
89(C) Internal Glu inductionNC-D-D245164_atAt2g33210chaperonin, putative similar to SWISS-PROT: Q05046-chaperonin CPN60-2, mitochondrial precursor (HSP60-2) [Cucurbita
maxima]; contains Pfam: PF00118 domain, TCP-1/cpn60 chaperonin family (68415.m04069)
90(C) Internal Glu RepressionD-I-I264213_atAt1g65400
91(C) Internal Glu RepressionD-I-I245329_atAt4g14365zinc finger (C3HC4-type RING finger) family protein/ankyrin repeat family protein contains Pfam profile: PF00097 zinc finger,
C3HC4 type (RING finger) and Pfam profile: PF00023 ankyrin repeat (68417.m02213)
92(C) Internal Glu RepressionD-NC-NC267470_atAt2g30490trans-cinnamate 4-monooxygenase/cinnamic acid 4-hydroxylase (C4H) (CA4H)/cytochrome P450 73 (CYP73) (CYP73A5)
identical to SP|P92994| Trans-cinnamate 4-monooxygenase (EC 1.14.13.11) (Cinnamic acid 4-hydroxylase) (CA4H) (C4H)
(P450C4H) (Cytochrome P450 73). {Arabidopsis thaliana}; molecular marker C4H (GB: U71080) (68415.m03714)
93(C) Internal Glu RepressionD-NC-NC267367_atAt2g44210expressed protein Pfam profile PF03080: Arabidopsis proteins of unknown function (68415.m05502)
94(C) Internal Glu RepressionD-NC-NC267187_s_atAt2g44160methylenetetrahydrofolate reductase 2 (MTHFR2) identical to SP|O80585 Methylenetetrahydrofolate reductase (EC 1.5.1.20)
{Arabidopsis thaliana} (68415.m05493)
95(C) Internal Glu RepressionD-NC-NC267154_atAt2g30870glutathione S-transferase, putative supported by cDNA GI: 443698 GB: D17673 (68415.m03762)
96(C) Internal Glu RepressionD-NC-NC267136_atAt2g23460extra-large guanine nucleotide binding protein/G-protein (XLG) identical to extra-large G-protein (XLG) [Arabidopsis thaliana]
GI: 3201680 (68415.m02801)
97(C) Internal Glu RepressionD-NC-NC266993_atAt2g39210nodulin family protein similar to nodulin-like protein [Arabidopsis thaliana] GI: 3329368, nodule-specific protein Nlj70 [Lotus
japonicus] GI: 3329366 (68415.m04816)
98(C) Internal Glu RepressionD-NC-NC266967_atAt2g39530integral membrane protein, putative contains 3 transmembrane domains; contains Pfam PF04535: Domain of unknown function
(DUF588): similar to putative ethylene responsive element binding protein (GI: 22135858) [Arabidopsis thaliana] (68415.m04850)
99(C) Internal Glu RepressionD-NC-NC266857_atAt2g26900bile acid:sodium symporter family protein low similarity to SP|Q12908 lleal sodium/bile acid cotransporter {Homo sapiens}; contains
Pfam profile PF01758: Sodium Bile acid symporter family (68415.m03227)
100(C) Internal Glu RepressionD-NC-NC266808_atAt2g29995expressed protein (68415.m03649)
101(C) Internal Glu RepressionD-NC-NC266719_atAt2g46830myb-related transcription factor (CCA1) identical to myb-related transcription factor (CCA1) GI: 4090569 from [Arabidopsis thaliana]
(68415.m05843)
102(C) Internal Glu RepressionD-NC-NC266591_atAt2g46225expressed protein (68415.m05748)
103(C) Internal Glu RepressionD-NC-NC266516_atAt2g47880glutaredoxin family protein contains INTERPRO Domain IPR002109, Glutaredoxin (thioltransferese) (68415.m05979)
104(C) Internal Glu RepressionD-NC-NC266414_atAt2g38700mevalonate diphosphate decarboxylase (MVD1) identical to mevalonate diphosphate decarboxylase [Arabidopsis thaliana]
gi|2288887|emb|CAA74700 (68415.m04753)
105(C) Internal Glu RepressionD-NC-NC266295_atAt2g29550tubulin beta-7 chain (TUB7) identical to GB: M84704 SP|P29515 Tubulin beta-7 chain {Arabidopsis thaliana} (68415.m03589)
106(C) Internal Glu RepressionD-NC-NC266205_s_atAt2g27860expressed protein (68415.m03377)
107(C) Internal Glu RepressionD-NC-NC266089_atAt2g38010ceramidase family protein contains Pfam domain, PF04734: Neutral/alkaline nonlysosomal ceramidase (68415.m04665)
108(C) Internal Glu RepressionD-NC-NC265286_atAt2g20360expressed protein (68415.m02377)
109(C) Internal Glu RepressionD-NC-NC265208_atAt2g36690oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to IDS3 [Hordeum vulgare][GI: 4514655], leucoanthocyanidin
dioxygenase [SP|P51091][Malus domestica]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68415.m04501)
110(C) Internal Glu RepressionD-NC-NC264914_atAt1g60780clathrin adaptor complexes medium subunit family protein contains Pfam profile: PF00928 adaptor complexes medium subunit
family (68414.m06842)
111(C) Internal Glu RepressionD-NC-NC264833_atAt1g03590protein phosphatase 2C family protein/PP2C family protein similar to protein phosphatase-2C; PP2C (GI: 3643088)
[Mesembryanthemum crystallinum]; contains Pfam PF00481: Protein phosphatase 2C domain; (68414.m00339)
112(C) Internal Glu RepressionD-NC-NC264434_atAt1g10340ankyrin repeat family protein contains ankyrin repeat domains, Pfam: PF00023 (68414.m01164)
113(C) Internal Glu RepressionD-NC-NC264386_atAt1g12000pyrophosphate-fructose-6-phosphate 1-phosphotransferase beta subunit, putative/pyrophosphate-dependent 6-phosphofructose-
1-kinase, putative strong similarity to SP|Q41141 Pyrophosphate-fructose 6-phosphate 1-phosphotransferase beta subunit (EC
2.7.1.90) (PFP) ((PPI-PFK) {Ricinus communis}; contains Pfam profile PF00365: Phosphofructokinase (68414.m01386)
114(C) Internal Glu RepressionD-NC-NC264372_atAt1g11840lactoylglutathione lyase, putative/glyoxalase I, putative highly similar to putative lactoylglutathione lyase SP: Q39366 from
[Brassica oleracea] (68414.m01360)
115(C) Internal Glu RepressionD-NC-NC264316_atAt1g70330equilibrative nucleoside transporter family protein contains similarity to SWISS-PROT: Q14542 equilibrative nucleoside transporter 2
(Equilibrative nitrobenzylmercaptopurine riboside-insensitive nucleoside transporter, Equilibrative NBMPR-insensitive nucleoside
transporter, Nucleoside transporter, ei-type, 38 kDa nucleolar protein HNP36, Hydrophobic nucleolar protein, 36 kDa, Delayed-early
response protein 12) [Homo sapiens] (68414.m08091)
116(C) Internal Glu RepressionD-NC-NC264057_atAt2g28550AP2 domain-containing transcription factor RAP2.7 (RAP2.7) nearly identical to AP2 domain transcription factor RAP2.7
(GI: 2281639) [Arabidopsis thaliana] (68415.m03468)
117(C) Internal Glu RepressionD-NC-NC264005_atAt2g22470arabinogalactan-protein (AGP2) identical to gi|3883122|gb|AAC77824; supported by cDNA gi|3883121|gb|AF082299
(68415.m02664)
118(C) Internal Glu RepressionD-NC-NC264006_atAt2g22430homeobox-leucine zipper protein 6 (HB-6)/HD-ZIP transcription factor 6 identical to homeobox-leucine zipper protein ATHB-6 (HD-
ZIP protein ATHB-6) (SP: P46668) [Arabidopsis thaliana] (68415.m02660)
119(C) Internal Glu RepressionD-NC-NC263935_atAt2g35930U-box domain-containing protein similar to immediate-early fungal elicitor protein CMPG1 [Petroselinum crispum] GI: 14582200;
contains Pfam profile PF04564: U-box domain (68415.m04410)
120(C) Internal Glu RepressionD-NC-NC263900_atAt2g36290hydrolase, alpha/beta fold family protein low similarity to 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase [Rhodococcus sp.
RHA1] GI: 8978311; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68415.m04453)
121(C) Internal Glu RepressionD-NC-NC263804_atAt2g40270protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68415.m04954)
122(C) Internal Glu RepressionD-NC-NC263715_atAt2g20570golden2-like transcription factor (GLK1) identical to golden2-like transcription factor GI: 13311003 from [Arabidopsis thaliana];
contains Pfam profile: PF00249 Myb-like DNA-binding domain (68415.m02402)
123(C) Internal Glu RepressionD-NC-NC263626_atAt2g04880WRKY family transcription factor (ZAP1) identical to ZAP1 GI: 1064883 from [Arabidopsis thaliana]; contains Pfam profile: PF03106
WRKY DNA-binding domain (68415.m06038)
124(C) Internal Glu RepressionD-NC-NC263553_atAt2g16430purple acid phosphatase (PAP10) identical to purple acid phosphatase (PAP10) GI: 20257482 from [Arabidopsis thaliana]
(68415.m01881)
125(C) Internal Glu RepressionD-NC-NC263536_atAt2g25000WRKY family transcription factor contains Pfam profile: PF03106 WRKY DNA-binding domain (68415.m02989)
126(C) Internal Glu RepressionD-NC-NC263433_atAt2g22240inositol-3-phosphate synthase isozyme 2/myo-inositol-1-phosphate synthase 2/MI-1-P synthase 2/IPS 2 identical to SP|Q38862
Myo-inositol-1-phosphate synthase isozyme 2 (EC 5.5.1.4) (MI-1-P synthase 2) (IPS 2) {Arabidopsis thaliana} (68415.m02639)
127(C) Internal Glu RepressionD-NC-NC262980_atAt1g75680glycosyl hydrolase family 9 protein similar to endo-beta-1,4-glucanase GB: AAC12685 GI: 3025470 from [Pinus radiata]
(68414.m08792)
128(C) Internal Glu RepressionD-NC-NC262919_atAt1g79380copine-related low similarity to SP|Q99829 Copine I {Homo sapiens} (68414.m09251)
129(C) Internal Glu RepressionD-NC-NC262637_atAt1g066402-oxoglutarate-dependent dioxygenase, putative similar to 2AB (GI: 599622) and tomato ethylene synthesis regulatory protein E8
(SP|P10967); contains Pfam profile: PF00671 Iron/Ascorbate oxidoreductase family (68414.m00701)
130(C) Internal Glu RepressionD-NC-NC262588_atAt1g15130hydroxyproline-rich glycoprotein family protein (68414.m01807)
131(C) Internal Glu RepressionD-NC-NC262376_atAt1g72970glucose-methanol-choline (GMC) oxidoreductase family protein similar to mandelonitrile lyase from Prunus serotina [SP|P52706,
SP|P52707]; contains Pfam profile PF00732 GMC oxidoreductase (68414.m08439)
132(C) Internal Glu RepressionD-NC-NC262313_atAt1g70900expressed protein (68414.m08181)
133(C) Internal Glu RepressionD-NC-NC262197_atAt1g53910AP2 domain-containing protein RAP2.12 (RAP2.12) identical to AP2 domain containing protein GI: 2281649 from [Arabidopsis
thaliana] (68414.m06137)
134(C) Internal Glu RepressionD-NC-NC262177_atAt1g74710isochorismate synthase 1 (ICS1)/isochorismate mutase identical to GI: 17223087 and GB: AF078080; contains Pfam profile
PF00425: chorismate binding enzyme; contains TIGRfam profile TIGR00543: isochorismate synthases; identical to cDNA
isochorismate synthase 1 precursor (ICS1) nuclear gene for plastid product GI: 17223086 (68414.m08654)
135(C) Internal Glu RepressionD-NC-NC262051_atAt1g79990coatomer protein complex, subunit beta 2 (beta prime), putative contains 7 WD-40 repeats (PF00400) (1 weak); similar to
Coatomer beta′ subunit (Beta′-coat protein) (Beta′-COP) (p102) (SP: P35606) [Homo sapiens]; similar to Coatomer beta′ subunit
(Beta′-coat protein) (Beta′-COP) (p102) (SP: O55029) [Mus musculus] (68414.m09356)
136(C) Internal Glu RepressionD-NC-NC262052_atAt1g80020
137(C) Internal Glu RepressionD-NC-NC261970_atAt1g65960glutamate decarboxylase 2 (GAD 2) similar to glutamate decarboxylase (gad) GI: 294111 from [Petunia hybrida] (68414.m07484)
138(C) Internal Glu RepressionD-NC-NC261935_atAt1g22610C2 domain-containing protein contains INTERPRO: IPR000008 C2 domain (68414.m02823)
139(C) Internal Glu RepressionD-NC-NC261792_atAt1g15950cinnamoyl-CoA reductase, putative nearly identical to CCR1 (GI: 12034897), similar to cinnamoyl CoA reductase GI: 2058310 from
[Eucalyptus gunnii] (68414.m01914)
140(C) Internal Glu RepressionD-NC-NC261469_atAt1g28340leucine-rich repeat family protein contains leucine rich-repeat (LRR) domains Pfam: PF00560, INTERPRO: IPRO01611; contains
some similarity to receptor-like protein kinases (68414.m03481)
141(C) Internal Glu RepressionD-NC-NC261412_atAt1g07890L-ascorbate peroxidase 1, cytosolic (APX1) identical to SP|Q05431 L-ascorbate peroxidase, cytosolic (EC 1.11.1.11) (AP)
{Arabidopsis thaliana}, L-ascorbate peroxidase [Arabidopsis thaliana] gi|16173|emb|CAA42168; strong similarity to cytosolic
ascorbate peroxidase [Spinacia oleracea] gi|1384110|dbj|BAA12890 (68414.m00856)
142(C) Internal Glu RepressionD-NC-NC261286_atAt1g35780expressed protein (68414.m04448)
143(C) Internal Glu RepressionD-NC-NC260985_atAt1g53500NAD-dependent epimerase/dehydratase family protein low similarity to dTDP-D-glucose-4,6-dehydratase from Aneurinibacillus
thermoaerophilus GI: 16357481, Sphingomonas sp. GI: 1314581; contains Pfam profile PF01370: NAD dependent
epimerase/dehydratase family; putative NDP-rhamnose synthase (rhm2 gene) GI: 31559258 (68414.m06066)
144(C) Internal Glu RepressionD-NC-NC260880_atAt1g21380VHS domain-containing protein/GAT domain-containing protein weak similarity to Hrs [Rattus norvegicus] GI: 8547026; contains
Pfam profiles PF00790: VHS domain, PF03127: GAT domain (68414.m02875)
145(C) Internal Glu RepressionD-NC-NC260839_atAt1g43690ubiquitin interaction motif-containing protein contains Pfam profile PF02809: Ubiquitin interaction motif (68414.m05019)
146(C) Internal Glu RepressionD-NC-NC260800_atAt1g78240dehydration-responsive protein-related similar to early-responsive to dehydration stress ERD3 protein [Arabidopsis thaliana]
GI: 15320410; contains Pfam profile PF03141: Putative methyltransferase (68414.m09118)
147(C) Internal Glu RepressionD-NC-NC260693_atAt1g32450proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m04005)
148(C) Internal Glu RepressionD-NC-NC260618_atAt1g53230TCP family transcription factor 3 (TCP3) identical to transcription factor 3 (TCP3) [Arabidopsis thaliana] (GI: 3243274); similar to
flower development protein cycloidea (cyc3) GI: 6358611 from [Misopates orontium] (68414.m06032)
149(C) Internal Glu RepressionD-NC-NC260590_atAt1g53310phosphoenolpyruvate carboxylase, putative/PEP carboxylase, putative (PPC1) strong similarity to SP|P29196
Phosphoenolpyruvate carboxylase (EC 4.1.1.31) (PEPCASE) {Solanum tuberosum}; contains Pfam profile PF00311:
phosphoenolpyruvate carboxylase (68414.m06042)
150(C) Internal Glu RepressionD-NC-NC260601_atAt1g55910metal transporter, putative (ZIP11) similar to putative zinc transporter ZIP2 [Arabidopsis thaliana] gi|3252868|gb|AAC24198;
member of the Zinc (Zn2+)-Iron (Fe2+) permease (ZIP) family, PMID: 11500563 (68414.m06412)
151(C) Internal Glu RepressionD-NC-NC260401_atAt1g69840band 7 family protein strong similarity to hypersensitive-induced response protein [Zea mays] GI: 7716466; contains Pfam profile
PF01145: SPFH domain/Band 7 family (68414.m08035)
152(C) Internal Glu RepressionD-NC-NC260234_atAt1g74460GDSL-motif lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386, EXL1 GI: 15054382, EXL2 GI: 15054384
from [Arabidopsis thaliana]; contains Pfam profile: PF00657 lipase/acylhydrolase with GDSL-like motif (68414.m08826)
153(C) Internal Glu RepressionD-NC-NC260048_atAt1g73800calmodulin-binding protein similar to calmodulin-binding protein TCB60 GI: 1698548 from [Nicotiana tabacum] (68414.m08544)
154(C) Internal Glu RepressionD-NC-NC259882_atAt1g76670transporter-related low similarity to glucose-6-phosphate/phosphate-translocator precursor [Solanum tuberosum] GI: 2997593. GDP-
Mannose transporter [Arabidopsis thaliana] GI: 15487237; contains Pfam profile PF00892: Integral membrane protein
(68414.m08921)
155(C) Internal Glu RepressionD-NC-NC259561_atAt1g21250wall-associated kinase 1 (WAK1) identical to wall-associated kinase 1 [Arabidopsis thaliana] GI: 3549626; expressed in leaves and
stems & induced by pathogen infection (PMID: 10380805) (68414.m02656)
156(C) Internal Glu RepressionD-NC-NC259507_atAt1g43910AAA-type ATPase family protein contains Pfam profile: ATPase family PF00004 (68414.m05086)
157(C) Internal Glu RepressionD-NC-NC259383_atAt3g16470jacalin lectin family protein contains Pfam profile: PF01419 jacalin-like lectin domain; similar to myrosinase-binding protein homolog
[Arabidopsis thaliana] GI: 2997767 (68416.m02101)
158(C) Internal Glu RepressionD-NC-NC259175_atAt3g01560proline-rich family protein contains proline rich extensin domains, INTERPRO: IPR002965 (68416.m00086)
159(C) Internal Glu RepressionD-NC-NC259070_atAt3g11670digalactosyldiacylglycerol synthase 1 (DGD1)/MGDG: MGDG galactosyltransferase/galactolipid galactosyltransferase identical to
digalactosyldiacylglycerol synthase (DGD1) GI: 5354158 [Arabidopsis thaliana] (68416.m01430)
160(C) Internal Glu RepressionD-NC-NC258925_atAt3g10420sporulation protein-related similar to hypothetical proteins: GB: P51281 [Chloroplast Porphyra purpurea], GB: BAA16982
[Synechocystis sp], GB: P49540 [Odontella sinensis], GB: AAB82669 [Chloroplast Cyanidium caldarium]; similar to stage III
sporulation protein AA (GI: 18145497) [Clostridium perfringens str. 13]; similar to stage III sporulation protein AA (mutants block
sporulation after engulfment) (GI: 22777578) [Oceanobacillus iheyensis] (68416.m01249)
161(C) Internal Glu RepressionD-NC-NC258649_atAt3g09840cell division cycle protein 48 (CDC48A) (CDC48) identical to SP|P54809 Cell division cycle protein 48 homolog {Arabidopsis
thaliana} (68416.m01174)
162(C) Internal Glu RepressionD-NC-NC258621_atAt3g02830zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc finger C-x8-C-x5-C-x3-H type (and similar)
(68416.m00275)
163(C) Internal Glu RepressionD-NC-NC258286_atAt3g16060kinesin motor family protein similar to kinesin heavy chain member 2 GB: NP_032468 from [Mus musculus]; contains Pfam profile
PF00225: Kinesin motor domain (68416.m02030)
164(C) Internal Glu RepressionD-NC-NC258160_atAt3g17820glutamine synthetase (GS1) identical to glutamine synthetase, cytosolic isozyme (glutamate-ammonia ligase, GS1) [Arabidopsis
thaliana] SWISS-PROT: Q9LVI8 (68416.m02272)
165(C) Internal Glu RepressionD-NC-NC258037_atAt3g212304-coumarate-CoA ligase, putative/4-coumaroyl-CoA synthase, putative (4CL) similar to 4CL2 [gi: 122291365] and 4CL1
[gi: 12229649] from [Arabidopsis thaliana], 4CL1 [gi: 12229631] from Nicotiana tabacum (68416.m02683)
166(C) Internal Glu RepressionD-NC-NC258047_atAt3g212404-coumarate-CoA ligase 2/4-coumaroyl-CoA synthase 2 (4CL2) identical to SP|Q9S725 4-coumarate-CoA ligase 2 (EC 6.2.1.12)
(4CL 2) (4-coumaroyl-CoA synthase 2) {Arabidopsis thaliana} (68416.m02684)
167(C) Internal Glu RepressionD-NC-NC258007_atAt3g19420expressed protein (68416.m02463)
168(C) Internal Glu RepressionD-NC-NC257952_atAt3g21770peroxidase 30 (PER30) (P30) (PRXR9) identical to SP|Q9LSY7 Peroxidase 30 precursor (EC 1.11.1.7) (Atperox P30) (PRXR9)
(ATP7a) {Arabidopsis thaliana} (68416.m02746)
169(C) Internal Glu RepressionD-NC-NC257849_atAt3g13060expressed protein contains Pfam profile PF04146: YT521-B-like family (68416.m01627)
170(C) Internal Glu RepressionD-NC-NC257104_atAt3g25040ER lumen protein retaining receptor, putative/HDEL receptor, putative similar to SP|P35402 ER lumen protein retaining receptor
(HDEL receptor) {Arabidopsis thaliana}; contains Pfam profile PF00810: ER lumen protein retaining receptor (68416.m03129)
171(C) Internal Glu RepressionD-NC-NC257076_atAt3g19680expressed protein (68416.m02493)
172(C) Internal Glu RepressionD-NC-NC256865_atAt3g23820NAD-dependent epimerase/dehydratase family protein similar to nucleotide sugar epimerase from Vibrio vulnificus GI: 3093975
[PID: g3093975], WbnF [Escherichia coli] GI: 5739472, CAPI protein {Staphylococcus aureus} SP|P39858; contains Pfam profile:
PF01370 NAD dependent epimerase/dehydratase family (68416.m02994)
173(C) Internal Glu RepressionD-NC-NC256328_atAt3g023606-phosphogluconate dehydrogenase family protein contains Pfam profiles: PF00393 6-phosphogluconate dehydrogenase C-
terminal domain, PF03446 NAD binding domain of 6-phosphogluconate; similar to 6-phosphogluconate dehydrogenase
GB: BAA22812 GI: 2529229 [Glycine max] (68416.m00219)
174(C) Internal Glu RepressionD-NC-NC256322_atAt1g54890expressed protein (68414.m06251)
175(C) Internal Glu RepressionD-NC-NC256186_atAt1g516804-coumarate-CoA ligase 1/4-coumaroyl-CoA synthase 1 (4CL1) identical to SP|Q42524 4-coumarate-CoA ligase 1 (EC 6.2.1.12)
(4CL 1) (4-coumaroyl-CoA synthase 1) {Arabidopsis thaliana} (68414.m05822)
176(C) Internal Glu RepressionD-NC-NC255953_atAt1g22070bZIP family transcription factor (TGA3) identical to transcription factor GI: 304113 from [Arabidopsis thaliana] (68414.m02780)
177(C) Internal Glu RepressionD-NC-NC255889_atAt1g17840ABC transporter family protein similar to ABC transporter GI: 10280532 from [Homo sapiens] (68414.m02208)
178(C) Internal Glu RepressionD-NC-NC255690_atAt4g00360cytochrome P450, putative (68417.m00050)
179(C) Internal Glu RepressionD-NC-NC255691_atAt4g00370sugar transporter family protein contains Pfam profile PF00083: major facilitator superfamily protein (68417.m00051)
180(C) Internal Glu RepressionD-NC-NC255671_atAt4g00355expressed protein (68417.m00047)
181(C) Internal Glu RepressionD-NC-NC255364_s_atAt4g04020plastid-lipid associated protein PAP, putative/fibrillin, putative strong similarity to plastid-lipid associated proteins PAP1
GI: 14248554, PAP2 GI: 14248556 from [Brassica rapa], fibrillin [Brassica napus] GI: 4139097; contains Pfam profile PF04755:
PAP_fibrillin (68417.m00572)
182(C) Internal Glu RepressionD-NC-NC255332_atAt4g04340early-responsive to dehydration protein-related/ERD protein-related similar to ERD4 protein (early-responsive to dehydration
stress) [Arabidopsis thaliana] GI: 15375406; contains Pfam profile PF02714: Domain of unknown function DUF221 (68417.m00619)
183(C) Internal Glu RepressionD-NC-NC254874_atAt4g11570haloacid dehalogenase-like hydrolase family protein similar to genetic modifier [Zea mays] GI: 10444400; contains InterPro
accession IPR005834: Haloactd dehalogenase-like hydrolase (68417.m01854)
184(C) Internal Glu RepressionD-NC-NC254833_s_atAt4g12280copper amine oxidase family protein contains Pfam domain, PF01179: Copper amine oxidase, enzyme domain (68417.m01946)
185(C) Internal Glu RepressionD-NC-NC254577_atAt4g19450nodulin-related weak similarity to nodule-specific protein Nlj70 [Lotus japonicus] GI: 3329366 (68417.m02861)
186(C) Internal Glu RepressionD-NC-NC254543_atAt4g19810glycosyl hydrolase family 18 protein similar to chitinase/lysozyme GI: 487689 from [Nicotiana tabacum] (68417.m02905)
187(C) Internal Glu RepressionD-NC-NC254387_atAt4g21850methionine sulfoxide reductase domain-containing protein/SelR domain-containing protein low similarity to pilin-like transcription
factor [Homo sapiens] GI: 5059062, SP|P14930 Peptide methionine sulfoxide reductase msrA/msrB (EC 1.8.4.6) {Neisseria
gonorrhoeae}; contains Pfam profile PF01641: SelR domain (68417.m03159)
188(C) Internal Glu RepressionD-NC-NC254242_atAt4g23200protein kinase family protein contains Pfam PF00069: Protein kinase domain (68417.m03346)
189(C) Internal Glu RepressionD-NC-NC254243_atAt4g23210protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68417.m03347)
190(C) Internal Glu RepressionD-NC-NC254227_atAt4g23630reticulon family protein (RTNLB1) weak similarity to Nogo-C protein [Rattus norvegicus] GI: 6822251; contains Pfam profile
PF02453: Reticulon (68417.m03403)
191(C) Internal Glu RepressionD-NC-NC254159_atAt4g24240WRKY family transcription factor contains Pfam profile: PF03106 WRKY DNA-binding domain (68417.m03479)
192(C) Internal Glu RepressionD-NC-NC254141_atAt4g24620glucose-6-phosphate isomerase, putative similar to glucose-6-phosphate isomerase [Spinacia oleracea] GI: 3413511; contains
Pfam profile PF00342: glucose-6-phosphate isomerase (68417.m03526)
193(C) Internal Glu RepressionD-NC-NC254053_s_atAt4g25300oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to flavonol synthase [Petunia x hybrida][GI: 311658], anthocyanidin
synthase [Torenia fournieri][GI: 12583673]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68417.m03638)
194(C) Internal Glu RepressionD-NC-NC254021_atAt4g25650Rieske [2Fe—2S] domain-containing protein similar to cell death suppressor protein lls1 from Zea mays [gi: 1935909], Rieske iron-
sulfur protein Tic55 from Pisum sativum [gi: 2764524]; contains Pfam PF00355 Rieske [2Fe—2S] domain (68417.m03693)
195(C) Internal Glu RepressionD-NC-NC253856_atAt4g28100expressed protein (68417.m04031)
196(C) Internal Glu RepressionD-NC-NC253815_atAt4g28250beta-expansin, putative (EXPB3) similar to soybean pollen allergen (cim1) protein-soybean, PIR2: S48032; beta-expansin gene
family, PMID: 11641069 (68417.m04047)
197(C) Internal Glu RepressionD-NC-NC253702_atAt4g29900calcium-transporting ATPase, plasma membrane-type, putative/Ca2+-ATPase, putative (ACA10) identical to SP|Q9SZR1
Potential calcium-transporting ATPase 10, plasma membrane-type (EC 3.6.3.8) (Ca(2+)-ATPase isoform 10) {Arabidopsis thaliana};
similar to SP|Q9LF79 Calcium-transporting ATPase 8, plasma membrane-type (EC 3.6.3.8) (Ca(2+)-ATPase isoform 8)
{Arabidopsis thaliana} (68417.m04254)
198(C) Internal Glu RepressionD-NC-NC253628_atAt4g30280xyloglucan:xyloglucosyl transferase, putative/xyloglucan endotransglycosylase, putative/endo-xyloglucan transferase, putative
similar to xyloglucan endotransglycosylase TCH4 GI: 886116 from [Arabidopsis thaliana] (68417.m04304)
199(C) Internal Glu RepressionD-NC-NC253631_atAt4g30440NAD-dependent epimerase/dehydratase family protein similar to nucleotide sugar epimerase from Vibrio vulniticus GI: 3093975
[PID: g3093975], WbnF [Escherichia coli] GI: 5739472, CAPI protein {Staphylococcus aureus} SP|P39858; contains Pfam profile
PF01370 NAD dependent epimerase/dehydratase family (68417.m04323)
200(C) Internal Glu RepressionD-NC-NC253600_atAt4g30810serine carboxypeptidase S10 family protein similar to serine-type carboxypeptidase (SP: P55748) [Hordeum vulgare]
(68417.m04365)
201(C) Internal Glu RepressionD-NC-NC253551_atAt4g30996expressed protein (68417.m04401)
202(C) Internal Glu RepressionD-NC-NC253485_atAt4g31800WRKY family transcription factor (68417.m04517)
203(C) Internal Glu RepressionD-NC-NC253377_atAt4g33300disease resistance protein (CC-NBS-LRR class), putative domain signature CC-NBS-LRR exists, suggestive of a disease
resistance protein. (68417.m04737)
204(C) Internal Glu RepressionD-NC-NC253357_atAt4g33400dem protein-related/defective embryo and meristems protein-related identical to dem GI: 2190419 from [Lycopersicon esculentum]
(68417.m04747)
205(C) Internal Glu RepressionD-NC-NC253351_atAt4g33700CBS domain-containing protein contains Pfam profiles PF00571: CBS domain, PF01595: Domain of unknown function
(68417.m04786)
206(C) Internal Glu RepressionD-NC-NC253300_atAt4g33580carbonic anhydrase family protein/carbonate dehydratase family protein similar to SP|P46512 Carbonic anhydrase 1 (EC 4.2.1.1)
(Carbonate dehydratase 1) {Flaveria linearis}; contains Pfam profile PF00484: Carbonic anhydrase (68417.m04771)
207(C) Internal Glu RepressionD-NC-NC253308_atAt4g33680aminotransferase class I and II family protein low similarity to Aromatic Aminotransferase from Pyrococcus horikoshii GP|14278621;
contains Pfam profile PF00155 aminotransferase, classes I and II (68417.m04784)
208(C) Internal Glu RepressionD-NC-NC253276_atAt4g34050caffeoyl-CoA 3-O-methyltransferase, putative nearly identical to GI: 2960356 [Populus balsamifera subsp. trichocarpa], GI: 684942
[Medicago sativa subsp. sativa] isoform contains a GT-TG intron which removes an internal segment of the protein.
(68417.m04831)
209(C) Internal Glu RepressionD-NC-NC253231_atAt4g34450coatomer gamma-2 subunit, putative/gamma-2 coat protein, putative/gamma-2 COP, putative similar to SP|Q9UBF2 Coatomer
gamma-2 subunit (Gamma-2 coat protein) (Gamma-2 COP) {Homo sapiens}; contains Pfam profile: PF01602 Adaptin N terminal
region (68417.m04896)
210(C) Internal Glu RepressionD-NC-NC253083_atAt4g36250aldehyde dehydrogenase family protein contais aldehyde dehydrogenase (NADP) family protein domain, Pfam: PF00171
(68417.m05156)
211(C) Internal Glu RepressionD-NC-NC253024_atAt4g38080hydroxyproline-rich glycoprotein family protein contains proline-rich extensin domains, INTERPRO: IPR002965; Common family
member; At2g22510 [Arabidopsis thaliana] (68417.m05378)
212(C) Internal Glu RepressionD-NC-NC252921_atAt4g39030enhanced disease susceptibility 5 (EDS5)/salicylic acid induction deficient 1 (SID1) identical to SP|Q945F0; contains Pfam profile
PF01554: Uncharacterized membrane protein family (68417.m05528)
213(C) Internal Glu RepressionD-NC-NC252932_atAt4g39080vacuolar proton ATPase, putative similar to Swiss-Prot: Q93050 vacuolar proton translocating ATPase 116 kDa subunit A isoform 1
(Clathrin-coated vesicle/synaptic vesicle proton pump 116 kDa subunit, Vacuolar proton pump subunit 1, Vacuolar adenosine
triphosphatase subunit Ac116) [Homo sapiens] (68417.m05534)
214(C) Internal Glu RepressionD-NC-NC252943_atAt4g39330mannitol dehydrogenase, putative nearly identical to SP|P42734, probable mannitol dehydrogenase (68417.m05568)
215(C) Internal Glu RepressionD-NC-NC252863_atAt4g39800inositol-3-phosphate synthase isozyme 1/myo-inositol-1-phosphate synthase 1/MI-1-P synthase 1/IPS 1 identical to SP|P42801
Inositol-3-phosphate synthase isozyme 1 (EC 5.5.1.4) (Myo-inositol-1-phosphate synthase 1) (MI-1-P synthase 1) (IPS 1)
{Arabidopsis thaliana} (68417.m05637)
216(C) Internal Glu RepressionD-NC-NC252652_atAt3g44720prephenate dehydratase family protein similar to bacterial PheA gene products (68416.m04813)
217(C) Internal Glu RepressionD-NC-NC252377_atAt3g47960proton-dependent oligopeptide transport (POT) family protein contains Pfam profile; PF00854 POT family (68416.m05229)
218(C) Internal Glu RepressionD-NC-NC252343_atAt3g48610phosphoesterase family protein low similarity to SP|P95246 Phospholipase C 2 precursor (EC 3.1.4.3) {Mycobacterium
tuberculosis}; contains Pfam profile PF04185: Phosphoesterase family (68416.m05307)
219(C) Internal Glu RepressionD-NC-NC252325_atAt3g48560acetolactate synthase, chloroplast/acetohydroxy-acid synthase (ALS) nearly identical to SP|P17597 Acetolactate synthase,
chloroplast precursor (EC 2.2.1.6, formerly EC 4.1.3.18) (Acetohydroxy-acid synthase) (ALS) {Arabidopsis thaliana}
(68416.m05302)
220(C) Internal Glu RepressionD-NC-NC252272_atAt3g49670leucine-rich repeat transmembrane protein kinase, putative CLAVATA1 receptor kinase, Arabidopsis thaliana, EMBL: ATU96879
(68416.m05429)
221(C) Internal Glu RepressionD-NC-NC252126_atAt3g50950disease resistance protein (CC-NBS-LRR class), putative domain signature CC-NBS-LRR exists, suggestive of a disease
resistance protein. (68416.m05578)
222(C) Internal Glu RepressionD-NC-NC252045_atAt3g52450U-box domain-containing protein similar to immediate-early fungal elicitor protein CMPG1 [Petroselinum crispum] GI: 14582200;
contains Pfam profile PF04564: U-box domain (68416.m05768)
223(C) Internal Glu RepressionD-NC-NC252058_atAt3g52470harpin-induced family protein/HIN1 family protein/harpin-responsive family protein similar to harpin-induced protein hin1
(GI: 1619321) [Nicotiana tabacum] (68416.m05770)
224(C) Internal Glu RepressionD-NC-NC251954_atAt3g53670expressed protein (68416.m05927)
225(C) Internal Glu RepressionD-NC-NC251922_atAt3g54030protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68416.m05974)
226(C) Internal Glu RepressionD-NC-NC251855_atAt3g54690sugar isomerase (SIS) domain-containing protein/CBS domain-containing protein similar to SP|Q47334 Polysialic acid capsule
expression protein kpsF {Escherichia coli}; contains Pfam profiles PF01380: sugar isomerase (SIS) domain, PF00571: CBS domain
(68416.m06051)
227(C) Internal Glu RepressionD-NC-NC251828_atAt3g55070expressed protein (68416.m06116)
228(C) Internal Glu RepressionD-NC-NC251449_atAt3g59920Rab GDP dissociation inhibitor (GDI2) identical to Rab GDP dissociation inhibitor AtGDI2 [Arabidopsis thaliana] GI: 2446981
(68416.m06687)
229(C) Internal Glu RepressionD-NC-NC251450_atAt3g60030squamosa promoter-binding protein-like 12 (SPL12) identical to squamosa promoter binding protein-like 12 [Arabidopsis thaliana]
GI: 6006395; contains Pfam profiles PF03110: SBP domain, PF00023: Ankyrin repeat (68416.m06704)
230(C) Internal Glu RepressionD-NC-NC251396_atAt3g60750transketolase, putative strong similarity to transketolase 1 [Capsicum annuum] GI: 3559814; contains Pfam profiles PF02779:
Transketolase, pyridine binding domain, PF02780: Transketolase, C-terminal domain, PF00456: Transketolase, thiamine
diphosphate binding domain (68416.m06796)
231(C) Internal Glu RepressionD-NC-NC251310_atAt3g61150homeobox-leucine zipper family protein/homeodomain GLABRA2 like protein 1 (HD-GL2-1) similar to Anthocyaninless2 (ANL2)
(GP: 5702094) Arabidopsis thaliana. EMBL: AF077335 (68416.m06843)
232(C) Internal Glu RepressionD-NC-NC251200_atAt3g63010expressed protein similar to PrMC3 [Pinus radiata] GI: 5487873 (68416.m07078)
233(C) Internal Glu RepressionD-NC-NC251122_atAt5g01020protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68418.m00004)
234(C) Internal Glu RepressionD-NC-NC251060_atAt5g01820CBL-interacting protein kinase 14 (CIPK14) identical to CBL-interacting protein kinase 14 [Arabidopsis thaliana]
gi|13249127|gb|AAK16689; contains Pfam profiles PF00069: Protein kinase domain and PF03822: NAF domain; identical to cDNA
CBL-interacting protein kinase 14 (CIPK14) GI: 13249126 (68418.m00101)
235(C) Internal Glu RepressionD-NC-NC251074_atAt5g01800saposin B domain-containing protein contains Pfam profiles: PF00026 eukaryotic aspartyl protease, PF03489 surfactant protein B,
PF05184 saposin-like type B, region 1 (68418.m00099)
236(C) Internal Glu RepressionD-NC-NC251020_atAt5g02270ABC transporter family protein NBD-like protein POP, Arabidopsis thaliana, EMBL: AF127664 (68418.m00150)
237(C) Internal Glu RepressionD-NC-NC250926_atAt5g03555permease, cytosine/purines, uracil, thiamine, allantoin family protein contains Pfam PF02133: permease, cytosine/purines, uracil,
thiamine, allantoin family (68418.m00313)
238(C) Internal Glu RepressionD-NC-NC250738_atAt5g05730anthranilate synthase, alpha subunit, component I-1 (ASA1) identical to SP|P32068 (68418.m00630)
239(C) Internal Glu RepressionD-NC-NC250645_atAt5g06700expressed protein strong similarity to unknown protein (emb|CAB82953.1) (68418.m00757)
240(C) Internal Glu RepressionD-NC-NC250193_atAt5g14540proline-rich family protein contains proline rich extensin domains, INTERPRO: IPR002965 (68418.m01704)
241(C) Internal Glu RepressionD-NC-NC250054_atAt5g17860cation exchanger, putative (CAX7) contains similarity to SWISS-PROT: Q9HC58 NKX3_HUMAN Sodium/potassium/calcium
exchanger 3 precursor {Homo sapiens}; Ca2+: Cation Antiporter (CaCA) Family member PMID: 11500563 (68418.m02093)
242(C) Internal Glu RepressionD-NC-NC249627_atAt5g37510NADH-ubiquinone dehydrogenase, mitochondrial, putative similar to NADH-ubiquinone oxidoreductase 75 kDa subunit,
mitochondrial from Solanum tuberosum [SP|Q43644] (68418.m04517)
243(C) Internal Glu RepressionD-NC-NC249599_atAt5g37990S-adenosyl-L-methionine:carboxyl methyltransferase family protein similar to defense-related protein cjs1 [Brassica
carinata][GI: 14009292], caffeine synthase [Camellia sinensis][GI: 9967143], SAM: jasmonic acid carboxyl methyltransferase
[GI: 13676829] (68418.m04575)
244(C) Internal Glu RepressionD-NC-NC249244_atAt5g42270FtsH protease, putative similar to FtsH protease GI: 13183728 from [Medicago sativa] (68418.m05145)
245(C) Internal Glu RepressionD-NC-NC249247_atAt5g42310pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68418.m05149)
246(C) Internal Glu RepressionD-NC-NC249152_s_atAt5g43370inorganic phosphate transporter (PHT2) identical to inorganic phosphate transporter [Arabidopsis thaliana] GI: 2780348
(68418.m05301)
247(C) Internal Glu RepressionD-NC-NC248968_atAt5g45280pectinacetylesterase, putative similar to pectinacetylesterase precursor GI: 1431629 from [Vigna radiata] (68418.m05558)
248(C) Internal Glu RepressionD-NC-NC248697_atAt5g48370thioesterase family protein similar to SP|Q9R0X4 48 kDa acyl-CoA thioester hydrolase, mitochondrial precursor (EC 3.1.2.—) {Mus
musculus}; contains Pfam profile PF03061: thioesterase family protein (68418.m05976)
249(C) Internal Glu RepressionD-NC-NC248619_atAt5g49630amino acid permease 6 (AAP6) identical to amino acid permease 6 (AAP6) [Arabidopsis thaliana] GI: 1769887 (68418.m06141)
250(C) Internal Glu RepressionD-NC-NC248573_atAt5g49720endo-1,4-beta-glucanase KORRIGAN (KOR)/cellulase (OR16pep) identical to endo-1,4-beta-D-glucanase KORRIGAN
[Arabidopsis thaliana] GI: 3978258; similar to endo-1,4-beta-D-glucanase; cellulase GI: 5689613 from [Brassica napus]; identical to
cDNA cellulase (OR16pep) GI: 1022806 (68418.m06157)
251(C) Internal Glu RepressionD-NC-NC248263_atAt5g53370pectinesterase family protein (68418.m06632)
252(C) Internal Glu RepressionD-NC-NC248200_atAt5g54160quercetin 3-O-methyltransferase 1/flavonol 3-O-methyltransferase 1/caffeic acid/5-hydroxyferulic acid O-methyltransferase
(OMT1) identical to O-methyltransferase 1 [Arabidopsis thaliana][GI: 2781394], SP|Q9FK25 Quercatin 3-O-methyltransferase 1 (EC
2.1.1.76) (AtOMT1) (Flavonol 3-O-methyltransferase 1) (Caffeic acid/5-hydroxyferulic acid O-methyltransferase) {Arabidopsis
thaliana} (68418.m06744)
253(C) Internal Glu RepressionD-NC-NC248138_atAt5g54960pyruvate decarboxylase, putative strong similarity to pyruvate decarboxylase 1 [Vitis vinifera] GI: 10732644; contains InterPro entry
IPR000399: Pyruvate decarboxylase (68418.m06845)
254(C) Internal Glu RepressionD-NC-NC248034_atAt5g55910protein kinase, putative contains protein kinase domain, Pfam: PF00069 (68418.m06972)
255(C) Internal Glu RepressionD-NC-NC248009_atAt5g56280COP9 signalosome subunit 6/CSN subunit 6 (CSN6A) identical to CSN complex subunit 6A [Arabidopsis thaliana] GI: 18056665,
COP9 complex subunit 6 [Arabidopsis thaliana] GI: 15809663; contains Pfam profile PF01398: Mov34/MPN/PAD-1 family; identical
to cDNA CSN complex subunit 6A (CSN6A) GI: 18056664 (68418.m07024)
256(C) Internal Glu RepressionD-NC-NC247853_atAt5g58140protein kinase family protein/non phototropic hypocotyl 1-like protein (NPL1) contains Pfam domains, PF00069: Protein kinase
domain and PF00785: PAC motif; similar to SP: O48963 Nonphototropic hypocotyl protein 1 (Phototropin) [Mouse-ear cress]
{Arabidopsis thaliana}; identical to cDNA non phototropic hypocotyl 1-like (NPL1) GI: 5391441 (68418.m07274)
257(C) Internal Glu RepressionD-NC-NC247653_atAt5g59950RNA and export factor-binding protein, putative (68418.m07517)
258(C) Internal Glu RepressionD-NC-NC247601_atAt5g60850Dof-type zinc finger domain-containing protein similar to zinc finger protein OBP4 gi: 5059396 from [Arabidopsis thaliana];
EMBL: AF155817 (68418.m07633)
259(C) Internal Glu RepressionD-NC-NC247304_atAt5g63850amino acid transporter 4, putative (AAP4) identical to amino acid transporter GI: 608671 from [Arabidopsis thaliana];
(68418.m08015)
260(C) Internal Glu RepressionD-NC-NC247262_atAt5g64440amidase family protein low similarity to enantiomerase-selective amidase [Rhodococcus sp.] GI: 152052; contains Pfam profile
PF01425: Amidase (68418.m08095)
261(C) Internal Glu RepressionD-NC-NC247152_atAt5g65620peptidase M3 family protein/thimet oligopeptidase family protein similar to SP|P27237 Oligopeptidase A (EC 3.4.24.70)
{Salmonella typhimurium}; contains Pfam profile PF01432: Peptidase family M3 (68418.m08255)
262(C) Internal Glu RepressionD-NC-NC246990_atAt5g67360cucumisin-like serine protease (ARA12) Asp48; almost identical to cucumisin-like serine protease (ARA12) GI: 3176874 from
[Arabidopsis thaliana] (68418.m08494)
263(C) Internal Glu RepressionD-NC-NC246901_atAt5g25630pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68418.m03050)
264(C) Internal Glu RepressionD-NC-NC246825_atAt5g26260meprin and TRAF homology domain-containing protein/MATH domain-containing protein similar to ubiquitin-specific protease 12
[Arabidopsis thaliana] GI: 11993471; contains Pfam profile PF00917: MATH domain (68418.m03133)
265(C) Internal Glu RepressionD-NC-NC246651_atAt5g35170adenylate kinase family protein contains Pfam profile: PF00406 adenylate kinase (68418.m04168)
266(C) Internal Glu RepressionD-NC-NC246660_atAt5g35180expressed protein (68418.m04169)
267(C) Internal Glu RepressionD-NC-NC246554_atAt5g15450heat shock protein 100, putative/HSP100, putative/heat shock protein clpB, putative/HSP100/ClpB, putative similar to
HSP100/ClpB GI: 9651530 [Phaseolus lunatus] (68418.m01808)
268(C) Internal Glu RepressionD-NC-NC246366_atAt1g51850leucine-rich repeat protein kinase, putative similar to light repressible receptor protein kinase [Arabidopsis thaliana]
gi|1321686|emb|CAA66376 (68414.m05845)
269(C) Internal Glu RepressionD-NC-NC246228_atAt4g36430peroxidase, putative identical to peroxidase [Arabidopsis thaliana] gi|6822093|emb|CAB71009; identical to cDNA class III
peroxidase ATP31, GI: 17530561 (68417.m05175)
270(C) Internal Glu RepressionD-NC-NC246247_atAt4g36640SEC14 cytosolic factor family protein/phosphoglyceride transfer family protein similar to polyphosphoinositide binding protein
Ssh1p (GI: 2739044) {Glycine max, SEC14 cytosolic factor (Phosphatidylinositol/phosphatidylcholine transfer protein) (PI/PCTP)
(SP: P24859) [Kluyveromyces lactis] and to SEC14 cytosolic factor (SP: P53989) [Candida glabrata] (68417.m05200)
271(C) Internal Glu RepressionD-NC-NC246185_atAt5g209805-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase, putative/vitamin-B12-independent methionine synthase,
putative/cobalamin-independent methionine synthase, putative strong similarity to SP|O50008 5-
methyltetrahydropteroyltriglutamate-homocysteine methyltransferase (EC 2.1.1.14) (Vitamin-B12-independent methionine
synthase isozyme) (Cobalamin-independent methionine synthase isozyme) {Arabidopsis thaliana}; contains Pfam profile PF01717:
Methionine synthase, vitamin-B12 independent (68418.m02494)
272(C) Internal Glu RepressionD-NC-NC246126_atAt5g20070MutT/nudix family protein low similarity to SP|Q19427 NADH pyrophosphatase (EC 3.6.1.—) (Caenorhabditis elegans); contains
Pfam profile PF00293: NUDIX domain (68418.m02390)
273(C) Internal Glu RepressionD-NC-NC246050_s_atAt5g28900calcium-binding EF hand family protein contains Pfam profile: PF00036 EF hand (68418.m03562)
274(C) Internal Glu RepressionD-NC-NC245971_atAt5g20730auxin-responsive factor (ARF7) identical to auxin response factor 7 GI: 4104929 from [Arabidopsis thaliana] (68418.m02462)
275(C) Internal Glu RepressionD-NC-NC245885_atAt5g09440phosphate-responsive protein, putative similar to phi-1 (phosphate-induced gene) [Nicotiana tabacum] GI: 3759184; contains Pfam
profile PF04674: Phosphate-induced protein 1 conserved region (68418.m01093)
276(C) Internal Glu RepressionD-NC-NC245875_atAt1g26240proline-rich extensin-like family protein similar to hydroxyproline-rich glycoprotein precursor gi|727264|gb|AAA87902; contains
proline-rich extensin domains, INTERPRO: IPR002965 (68414.m03201)
277(C) Internal Glu RepressionD-NC-NC245803_atAt1g47128cysteine proteinase (RD21A)/thiol protease identical to SP|P43297 Cysteine proteinase RD21A precursor (EC 3.4.22.—)
{Arabidopsis thaliana}, thiol protease RD21A SP: P43297 from [Arabidopsis thaliana] (68414.m05222)
278(C) Internal Glu RepressionD-NC-NC245780_atAt1g45688expressed protein (68414.m05201)
279(C) Internal Glu RepressionD-NC-NC245759_atAt1g66900expressed protein (68414.m07603)
280(C) Internal Glu RepressionD-NC-NC245612_atAt4g14440enoyl-CoA hydratase/isomerase family protein low similarity to PhaB [Pseudomonas putida] GI: 3253198, SP|P31551 Carnitine
racemase {Escherichia coli}; contains Pfam profile PF00378 enoyl-CoA hydratase/isomerase family protein (68417.m02227)
281(C) Internal Glu RepressionD-NC-NC245270_atAt4g14960tubulin alpha-6 chain (TUA6) nearly identical to SP|P29511 Tubulin alpha-6 chain {Arabidopsis thaliana} (68417.m02298)
282(C) Internal Glu RepressionD-NC-NC245218_s_atAt1g58842
283(C) Internal Glu RepressionD-NC-NC245201_atAt1g67840ATP-binding region, ATPase-like domain-containing protein contains Pfam profile PF02518: ATPase, histidine kinase-, DNA gyrase
B-, and HSP90-like domain protein; similar to ESTs gb|AI995396.1, dbj|AV557393.1, and dbj|AV557055.1 (68414.m07743)
284(C) Internal Glu RepressionD-NC-NC245211_atAt5g12370exocyst complex component Sec10-related low similarity to SP|O00471 Exocyst complex component Sec10 (hSec10) {Homo
sapiens} (68418.m01455)
285(C) Internal Glu RepressionD-NC-NC245101_atAt2g40890cytochrome P450 98A3, putative (CYP98A3) identical to Cytochrome P450 98A3 (SP|O22203) [Arabidopsis thaliana]; similar to
gi: 17978651 from Pinus taeda (68415.m05046)
286(C) Internal Glu RepressionNC-I-I267451_atAt2g33710AP2 domain-containing transcription factor family protein similar to RAP2.6 (GI: 17065542) (Arabidopsis thaliana) (68415.m04132)
287(C) Internal Glu RepressionNC-I-I267246_atAt2g30250WRKY family transcription factor (68415.m03682)
288(C) Internal Glu RepressionNC-I-I267261_atAt2g23120expressed protein (68415.m02758)
289(C) Internal Glu RepressionNC-I-I267083_atAt2g41100touch-responsive protein/calmodulin-related protein 3, touch-induced (TCH3) identical to calmodulin-related protein 3, touch-
induced SP: P25071 from [Arabidopsis thaliana] (68415.m05076)
290(C) Internal Glu RepressionNC-I-I266832_atAt2g30040protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68415.m03653)
291(C) Internal Glu RepressionNC-I-I266749_atAt2g47060serine/threonine protein kinase, putative similar to Pto kinase interactor 1 (Pti1)[Lycopersicon esculentum]
gi|3668069|gb|AAC61805 (68415.m05879)
292(C) Internal Glu RepressionNC-I-I266299_atAt2g29450glutathione S-transferase (103-1A) identical to Swiss-Prot: P46421 glutathione S-transferase 103-1A [Arabidopsis thaliana]
(68415.m03578)
293(C) Internal Glu RepressionNC-I-I266172_atAt2g39010aquaporin, putative similar to plasma membrane aquaporin 2b GI: 7209560 from [Raphanus sativus] (68415.m04796)
294(C) Internal Glu RepressionNC-I-I266010_atAt2g37430zinc finger (C2H2 type) family protein (ZAT11) contains Pfam domain, PF00096: Zinc finger, C2H2 type (68415.m04590)
295(C) Internal Glu RepressionNC-I-I265670_s_atAt2g32210expressed protein (68415.m03936)
296(C) Internal Glu RepressionNC-I-I265480_atAt2g15970cold-acclimation protein, putative (FL3-5A3) similar to cold acclimation WCOR413-like protein gamma form [Hordeum vulgare]
gi|18449100|gb|AAL69988; similar to stress-regulated protein SAP1 [Xerophyta viscosa] gi|21360376|gb|AAM47505; identical to
cDNA cold acclimation protein WCOR413-like protein alpha form GI: 10121840, cold acclimation protein homolog [Arabidopsis
thaliana] GI: 11127595 (68415.m01828)
297(C) Internal Glu RepressionNC-I-I265460_atAt2g46600calcium-binding protein, putative similar to EF-hand Ca2+-binding protein CCD1 [Triticum aestivum] GI: 9255753 (68415.m05812)
298(C) Internal Glu RepressionNC-I-I264652_atAt1g08920sugar transporter, putative similar to ERD6 protein {Arabidopsis thaliana} GI: 3123712, sugar-porter family proteins 1 and 2
[Arabidopsis thaliana] GI: 14585699, GI: 14585701; contains Pfam profile PF00083: major facilitator superfamily protein
(68414.m00992)
299(C) Internal Glu RepressionNC-I-I263478_atAt2g31880leucine-rich repeat transmembrane protein kinase, putative (68415.m03895)
300(C) Internal Glu RepressionNC-I-I263379_atAt2g40140zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc finger C-x8-C-x5-C-x3-H type (and similar) and Pfam
domain, PF00023: Ankyrin repeat (68415.m04937)
301(C) Internal Glu RepressionNC-I-I263320_atAt2g47180galactinol synthase, putative similar to galactinol synthase, isoform GoIS-1 GI: 5608497 from [Ajuga reptans] (68415.m05892)
302(C) Internal Glu RepressionNC-I-I262360_atAt1g73080leucine-rich repeat transmembrane protein kinase, putative similar to receptor protein kinase GI: 1389566 from [Arabidopsis
thaliana] (68414.m08450)
303(C) Internal Glu RepressionNC-I-I261979_atAt1g37130nitrate reductase 2 (NR2) identical to SP|P11035 Nitrate reductase 2 (formerly EC 1.6.6.1) (NR2) {Arabidopsis thaliana}
(68414.m04639)
304(C) Internal Glu RepressionNC-I-I259681_atAt1g77760nitrate reductase 1 (NR1) identical to SP|P11832 Nitrate reductase 1 (formerly EC 1.6.6.1) (NR1){Arabidopsis thaliana}
(68414.m09053)
305(C) Internal Glu RepressionNC-I-I259445_atAt1g02400gibberellin 2-oxidase, putative/GA2-oxidase, putative similar to GA2ox2 [GI: 4678368]; similar to dioxygenase GI: 1666096 from
[Marah macrocarpus]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68414.m00186)
306(C) Internal Glu RepressionNC-I-I258436_atAt3g16720zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
(68416.m02135)
307(C) Internal Glu RepressionNC-I-I258362_atAt3g14280expressed protein (68416.m01807)
308(C) Internal Glu RepressionNC-I-I256526_atAt1g66090disease resistance protein (TIR-NBS class), putative domain signature TIR-NBS exists, suggestive of a disease resistance protein.
(68414.m07501)
309(C) Internal Glu RepressionNC-I-I256017_atAt1g19180expressed protein (68414.m02387)
310(C) Internal Glu RepressionNC-I-I255568_atAt4g01250WRKY family transcription factor contains Pfam profile: PF03106 WRKY DNA-binding domain (68417.m00164)
311(C) Internal Glu RepressionNC-I-I253643_atAt4g29780expressed protein (68417.m04241)
312(C) Internal Glu RepressionNC-I-I253638_atAt4g30470cinnamoyl-CoA reductase-related similar to cinnamoyl-CoA reductase from Pinus taeda [GI: 17978649], Saccharum officinarum
[GI: 3341511] (68417.m04326)
313(C) Internal Glu RepressionNC-I-I253414_atAt4g33050calmodulin-binding family protein contains Pfam profile PF00612: IQ calmodulin-binding motif (68417.m04703)
314(C) Internal Glu RepressionNC-I-I253284_atAt4g34150C2 domain-containing protein similar to calcium-dependent protein kinase [Dunaliella tertiolecta] GI: 6644464; contains Pfam profile
PF00168: C2 domain (68417.m04846)
315(C) Internal Glu RepressionNC-I-I252906_atAt4g39640gamma-glutamyltranspeptidase family protein similar to SP|P19440 Gamma-glutamyltranspeptidase 1 precursor (EC 2.3.2.2)
(Gamma-glutamyltransferase 1) (CD224 antigen) {Homo sapiens}; contains Pfam profilePF01019: Gamma-glutamyltranspeptidase
(68417.m05602)
316(C) Internal Glu RepressionNC-I-I252592_atAt3g45640mitogen-activated protein kinase, putative/MAPK, putative (MPK3) identical to mitogen-activated protein kinase homolog
(AtMPK3)[Arabidopsis thaliana] SWISS-PROT: Q39023; PMID: 12119167 (68416.m04929)
317(C) Internal Glu RepressionNC-I-I252474_atAt3g46620zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
(68416.m05061)
318(C) Internal Glu RepressionNC-I-I252483_atAt3g46600scarecrow transcription factor family protein scarecrow-like 11 - Arabidopsis thaliana, EMBL: AF036307 (68416.m05058)
319(C) Internal Glu RepressionNC-I-I252315_atAt3g48690expressed protein similar to PrMC3 [Pinus radiata] GI: 5487873 (68416.m05317)
320(C) Internal Glu RepressionNC-I-I251336_atAt3g61190BON1-associated protein 1 (BAP1) identical to BON1-associated protein 1 [Arabidopsis thaliana] GI: 15487384; contains Pfam
profile PF00168: C2 domain; supporting cDNA gi|15487383|gb|AY045765.1| (68416.m06848)
321(C) Internal Glu RepressionNC-I-I251272_atAt3g61890homeobox-leucine zipper protein 12 (HB-12)/HD-ZIP transcription factor 12 identical to homeobox-leucine zipper protein ATHB-12
(GI: 6899887) [Arabidopsis thaliana] (68416.m06951)
322(C) Internal Glu RepressionNC-I-I251054_atAt5g01540lectin protein kinase, putative similar to receptor lectin kinase 3 [Arabidopsis thaliana] gi|4100060|gb|AAD00733; contains protein
kinase domain, Pfam: PF00069: contains legume lectins alpha and beta domains, Pfam: PF00138 and Pfam: PF00139
(68418.m00069)
323(C) Internal Glu RepressionNC-I-I250676_atAt5g06320harpin-induced family protein/HIN1 family protein/harpin-responsive family protein/NDR1/HIN1-like protein 3 similar to harpin-
induced protein hin1 (GI: 1819321)[Nicotiana tabacum] (68418.m00708)
324(C) Internal Glu RepressionNC-I-I250541_atAt5g09520hydroxyproline-rich glycoprotein family protein contains proline-rich extensin domains. INTERPRO: IPR002965 (68418.m01101)
325(C) Internal Glu RepressionNC-I-I249918_atAt5g19240expressed protein (68418.m02291)
326(C) Internal Glu RepressionNC-I-I249237_atAt5g42050expressed protein similar to gda-1 [Pisum sativum] GI: 2765418 (68418.m05119)
327(C) Internal Glu RepressionNC-I-I247708_atAt5g59550zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
(68418.m07462)
328(C) Internal Glu RepressionNC-I-I247279_atAt5g64310arabinogalactan-protein (AGP1) identical to gi: 3883120 gb: AAC77823 (68418.m08078)
329(C) Internal Glu RepressionNC-I-I246962_s_atAt5g24800bZIP transcription factor family protein contains Pfam profile: PF00170 bZIP transcription factor; identical to cDNA bZIP protein
BZO2H2 GI: 10954096 (68418.m02928)
330(C) Internal Glu RepressionNC-I-I246821_atAt5g26920calmodulin-binding protein similar to calmodulin-binding protein TCB60 GI: 1698548 from [Nicotiana tabacum] (68418.m03210)
331(C) Internal Glu RepressionNC-I-I246289_atAt3g56880VQ motif-containing protein contains PF05678: VQ motif (68416.m06327)
332(C) Internal Glu RepressionNC-I-I245904_atAt5g11110sucrose-phosphate synthase, putative similar to sucrose-phosphate synthase isoform 1, Citrus unshiu, PIR: S72648
(68418.m01297)
333(C) Internal Glu RepressionNC-I-I245051_atAt2g23320WRKY family transcription factor identical to WRKY DNA-binding protein 15 GI: 13506742 from [Arabidopsis thaliana]
(68415.m02784)
334(C) Internal Glu RepressionNC-I-I245041_atAt2g26530expressed protein (68415.m03183)
1(D) External Glu inductionNC-NC-I266371_atAt2g41410calmodulin, putative identical to SP|P30188 Calmodulin-like protein {Arabidopsis thaliana} (68415.m05110)
2(D) External Glu inductionNC-NC-I266116_atAt2g02180tobamovirus multiplication protein 3 (TOM3) identical to tobamovirus multiplication protein (TOM3) GI: 15425641 from [Arabidopsis
thaliana] (68415.m00154)
3(D) External Glu inductionNC-NC-I264415_atAt1g43160AP2 domain-containing protein RAP2.6 (RAP2.6) identical to AP2 domain containing protein RAP2.6 GI: 2281637 from [Arabidopsis
thaliana] (68414.m04973)
4(D) External Glu inductionNC-NC-I263901_atAt2g36320zinc finger (AN1-like) family protein contains Pfam domain, PF01428: AN1-like Zinc finger (68415.m04458)
5(D) External Glu inductionNC-NC-I263228_atAt1g30700FAD-binding domain-containing protein similar to SP|P30986 reticuline oxidase precursor (Berberine-bridge-forming enzyme) (BBE)
(Tetrahydroprotoberberine synthase) [Eschscholzia californica]; contains PF01565 FAD binding domain (68414.m03753)
6(D) External Glu inductionNC-NC-I262901_atAt1g59910formin homology 2 domain-containing protein/FH2 domain-containing protein contains formin homology 2 domain, Pfam: PF02128
(68414.m06749)
7(D) External Glu inductionNC-NC-I262887_atAt1g14780expressed protein (68414.m01767)
8(D) External Glu inductionNC-NC-I262677_atAt1g75860expressed protein (68414.m08811)
9(D) External Glu inductionNC-NC-I262496_atAt1g21790expressed protein (68414.m02727)
10(D) External Glu inductionNC-NC-I262383_atAt1g72940disease resistance protein (TIR-NBS class), putative domain signature TIR-NBS exists, suggestive of a disease resistance protein.
(68414.m08436)
11(D) External Glu inductionNC-NC-I262166_atAt1g74840myb family transcription factor similar to myb-related transcription activator GI: 9279717 from [Arabidopsis thaliana] (68414.m08672)
12(D) External Glu inductionNC-NC-I262133_atAt1g78000sulfate transporter (Sultr1;2) identical to sulfate transporter Sultr1;2 [Arabidopsis thaliana] GI: 7768660: contaisn Pfam profiles
PF00916: Sulfate transporter family and PF01740: STAS domain; contains TIGRfam profile TIGR00815: sulfate permease
(68414.m09089)
13(D) External Glu inductionNC-NC-I261211_atAt1g12780UDP-glucose 4-epimerase/UDP-galactose 4-epimerase/Galactowaldenase identical to SP|Q42605 [GB: CAA90941] from
[Arabidopsis thaliana] (Arch. Biochem. Biophys. 327 (1), 27-34 (1996)) (68414.m01484)
14(D) External Glu inductionNC-NC-I260556_atAt2g43620chitinase, putative similar to basic endochitinase CHB4 precursor SP: Q06209 from [Brassica napus] (68415.m05422)
15(D) External Glu inductionNC-NC-I259977_atAt1g76590zinc-binding family protein similar to zinc-binding protein [Pisum sativum] GI: 16117799; contains Pfam profile PF04640: Protein of
unknown function, DUF597 (68414.m08912)
16(D) External Glu inductionNC-NC-I258805_atAt3g04010glycosyl hydrolase family 17 protein similar to beta-1,3-glucanase GB: S12402 [Nicotiana sp], GB: CAA03908 [Citrus sinensis],
GB: S44364 [Lycopersicon esculentum] (68416.m00422)
17(D) External Glu inductionNC-NC-I258751_atAt3g05890hydrophobic protein (RCI2B)/low temperature and salt responsive protein (LTI6B) identical to SP|Q9ZNS6 Hydrophobic protein
RCI2B (Low temperature and salt responsive protein LTI6B) {Arabidopsis thaliana} (68416.m00662)
18(D) External Glu inductionNC-NC-I257087_atAt3g20500calcineurin-like phosphoesterase family protein contains Pfam profile: PF00149 calcineurin-like phosphoesterase (68416.m02596)
19(D) External Glu inductionNC-NC-I256417_s_atAt3g11170omega-3 fatty acid desaturase, chloroplast (FAD7) (FADD) identical to omega-3 fatty acid desaturase, chloroplast precursor
SP: P46310 [Arabidopsis thaliana (Mouse-ear cress)]; identical to Pfam profile PF00487: Fatty acid desaturase; identical to cDNA
plastid fatty acid desaturase GI: 809491 (68416.m01355)
20(D) External Glu inductionNC-NC-I256185_atAt1g51700Dof-type zinc finger domain-containing protein (ADOF1) identical to cDNA adof1 mRNA for dof zinc finger protein, GI: 3608260;
contains Pfam profile PF02701: Dof domain, zinc finger (68414.m05826)
21(D) External Glu inductionNC-NC-I254850_atAt4g12000expressed protein (68417.m01909)
22(D) External Glu inductionNC-NC-I254667_atAt4g18280glycine-rich cell wall protein-related glycine-rich protein 1.0 precursor, Phaseolus vulgaris, PIR1: S01821 (68417.m02713)
23(D) External Glu inductionNC-NC-I252368_atAt3g48520cytochrome P450 family protein similar to Cytochrome P450 94A1 (P450-dependent fatty acid omega-hydroxylase) (SP: O81117)
{Vicia sativa}; contains Pfam profile: PF00067 cytochrome P450 (68416.m05296)
24(D) External Glu inductionNC-NC-I252291_s_atAt3g49120peroxidase, putative identical to peroxidase [Arabidopsis thaliana] gi|405811|emb|CAA50677 (68416.m05366)
25(D) External Glu inductionNC-NC-I252040_atAt3g52060expressed protein contains Pfam profile PF03267: Arabidopsis protein of unknown function, DUF266 (68416.m05711)
26(D) External Glu inductionNC-NC-I250793_atAt5g05600oxidoreductase, 2OG-Fe(11) oxygenase family protein similar to flavonol synthase [Citrus unshiu][gi: 4126403], leucoanthocyanidin
dioxygenase [Daucus carota][gi: 5924383]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68418.m00609)
27(D) External Glu inductionNC-NC-I250260_atAt5g13810glutaredoxin family protein (68418.m01613)
28(D) External Glu inductionNC-NC-I249889_atAt5g22540expressed protein contains Pfam profile PF03140: Plant protein of unknown function (68418.m02630)
29(D) External Glu inductionNC-NC-I248870_atAt5g46710zinc-binding family protein similar zinc-binding protein [Pisum sativum] GI: 16117799; contains Pfam profile PF04640: Protein of
unknown function, DUF597 (68418.m05755)
30(D) External Glu inductionNC-NC-I248199_atAt5g54170expressed protein weak similarity to SP|Q9UKL6 Phosphatidylcholine transfer protein (PC-TP) {Homo sapiens} (68418.m06745)
31(D) External Glu inductionNC-NC-I247706_atAt5g59480haloacid dehalogenase-like hydrolase family protein low similarity to SP|P53078 SSM1 protein {Saccharomyces cerevisiae};
contains InterPro accession IPR005834: Haloacid dehalogenase-like hydrolase (68418.m07454)
32(D) External Glu inductionNC-NC-I246481_s_atAt5g15960stress-responsive protein (KIN1)/stress-induced protein (KIN1) identical to SP|P18612 Stress-induced KIN1 protein (Arabidopsis
thaliana) (68418.m01866)
33(D) External Glu inductionNC-NC-I246488_atAt5g160103-oxo-5-alpha-steroid 4-dehydrogenase family protein/steroid 5-alpha-reductase family protein similar to steroid 5alpha-Reductase
Rattus norvegicus, PIR: A34239 [SP|24008]; contains Pfam 3-oxo-5-alpha-steroid 4-dehydrogenase domain PF02544
(68418.m01872)
34(D) External Glu inductionNC-NC-I246253_atAt4g37260myb family transcription factor (MYB73) contains Pfam profile: PF00249 myb-like DNA-binding domain (68417.m05274)
35(D) External Glu inductionNC-NC-I246097_atAt5g20270expressed protein contains Pfam domain, PF03006: Uncharacterised protein family (Hly-III/UPF0073) (68418.m02413)
36(D) External Glu inductionNC-NC-I245781_atAt1g45976expressed protein (68414.m05206)
37(D) External Glu inductionNC-NC-I245244_atAt1g44350IAA-amino acid hydrolase 6, putative (ILL6)/IAA-Ala hydrolase, putative virtually identical to gr1-protein from [Arabidopsis thaliana]
GI: 3559811; similar to IAA-amino acid hydrolase GI: 3421384 from [Arabidopsis thaliana]; contains TIGRfam profile TIGR01891:
amidohydrolase; contains Pfam profile PF01546: Peptidase family M20/M25/M40; identical to cDNA IAA-amino acid conjugate
hydrolase-like protein (ILL6), partial cds GI: 17978837 (68414.m05110)
38(D) External Glu repressionNC-NC-D267130_atAt2g23390expressed protein (68415.m02793)
39(D) External Glu repressionNC-NC-D267050_atAt2g41060RNA recognition motif (RRM)-containing protein similar to UBP1 interacting protein 1a [Arabidopsis thaliana] GI: 19574236; contains
InterPro entry IPR000504: RNA-binding region RNP-1 (RNA recognition motif) (RRM) (68415.m05070)
40(D) External Glu repressionNC-NC-D266957_atAt2g34640expressed protein (68415.m04255)
41(D) External Glu repressionNC-NC-D266856_atAt2g26910ABC transporter family protein similar to PDR5-like ABC transporter GI: 1514643 from [Spirodela polyrhiza] (68415.m03228)
42(D) External Glu repressionNC-NC-D266709_atAt2g03120signal peptide peptidase family protein contains Pfam domain PF04258: Membrane protein of unknown function (DUF435)
(68415.m00265)
43(D) External Glu repressionNC-NC-D266395_atAt2g43100aconitase C-terminal domain-containing protein contains Pfam profile PF00694: Aconitase C-terminal domain (68415.m05350)
44(D) External Glu repressionNC-NC-D266215_atAt2g06850xyloglucan:xyloglucosyl transferase/xyloglucan endotransglycosylase/endo-xyloglucan transferase (EXT) (EXGT-A1) identical to
endo-xyloglucan transferase (ext) GI: 469484 and endoxyloglucan transferase (EXGT-A1) GI: 5533309 from [Arabidopsis thaliana]
(68415.m00767)
45(D) External Glu repressionNC-NC-D266093_atAt2g37990ribosome biogenesis regulatory protein (RRS1) family protein contains Pfam profile PF04939: Ribosome biogenesis regulatory
protein (RRS1); similar to Ribosome biogenesis regulatory protein homolog (Swiss-Prot: Q15050) [Homo sapiens] (68415.m04663)
46(D) External Glu repressionNC-NC-D264738_atAt1g62250expressed protein (68414.m07022)
47(D) External Glu repressionNC-NC-D264360_atAt1g03310isoamylase, putative/starch debranching enzyme, putative similar to isoamylase isoform 2 [Solanum tuberosum] GI: 27728147.
isoamylase from [Triticum aestivum] GI: 17932898, [Hordeum vulgare] GI: 21314275, [Oryza sativa] GI: 3252794; contains Pfam
profiles PF00128: Alpha amylase catalytic domain, PF02922: Isoamylase N-terminal domain; ESTs gb|H36690, gb|AA712462,
gb|AA651230 and gb|N95932 come from this gene (68414.m00309)
48(D) External Glu repressionNC-NC-D263957_atAt2g35880expressed protein (68415.m04405)
49(D) External Glu repressionNC-NC-D263924_atAt2g36530enolase identical to SWISS-PROT: P25696 enolase (EC 4.2.1.11) (2-phosphoglycerate dehydratase)(2-phospho-D-glycerate hydrolyase)
[Arabidopsis thaliana] (68415.m04481)
50(D) External Glu repressionNC-NC-D283714_atAt2g20610aminotransferase, putative similar to nicotianamine aminotransferase from Hordeum vulgare [GI: 6498122, GI: 6469087]; contains
Pfam profile PF00155 aminotransferase, classes I and II (68415.m02411)
51(D) External Glu repressionNC-NC-D263477_atAt2g31790UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
transferase (68415.m03881)
52(D) External Glu repressionNC-NC-D262947_atAt1g75750gibberellin-regulated protein 1 (GASA1)/gibberellin-responsive protein 1 identical to SP|P46689 Gibberellin-regulted protein 1
precursor {Arabidopsis thaliana}; supporting cDNA gi|887938|gb|U11766.1|ATU11766 (68414.m08798)
53(D) External Glu repressionNC-NC-D262840_atAt1g14900high-mobility-group protein/HMG-I/Y protein nearly identical to high-mobility-group protein HMG-I/Y protein [Arabidopsis thaliana]
GI: 1429211; contains Pfam profiles PF00538: linker histone H1 and H5 family, PF02178: AT hook motif (68414.m01781)
54(D) External Glu repressionNC-NC-D262433_s_atAt1g47500RNA-binding protein 47 (RBP47), putative similar to DNA binding protein GI: 1899187 from [Nicotiana tabacum] (68414.m05272)
55(D) External Glu repressionNC-NC-D262274_atAt1g68720cytidine/deoxycytidylate deaminase family protein contains Pfam profile PF00383: Cytidine and deoxycytidylte deaminase zinc-
binding region (68414.m07851)
56(D) External Glu repressionNC-NC-D26094_atAt1g56110nucleolar protein Nop56, putative similar to XNop56 protein [Xenopus laevis] GI: 14799394; contains Pfam profile PF01798:
Putative snoRNA binding domain (68414.m06443)
57(D) External Glu repressionNC-NC-D261859_atAt1g50490ubiquitin-conjugating enzyme 20 (UBC20) nearly identical to ubiquitin-conjugating enzyme UBC20 [Arabidopsis thaliana]
GI: 22530867; contains Pfam profile PF00179: Ubiquitin-conjugating enzyme (68414.m05682)
58(D) External Glu repressionNC-NC-D261603_atAt1g9600RNA-binding protein 47 (RBP47), putative similar to DNA binding protein ACBF GB: U90212 GI: 1899187 from [Nicotiana tabacum]
(68414.m05561)
59(D) External Glu repressionNC-NC-D261350_atAt1g79770expressed protein (68414.m09308)
60(D) External Glu repressionNC-NC-D260967_atAt1g12230transaldolase, putative similar to Swiss-Prot: P30148 transaldolase B (EC 2.2.1.2) [Escherichia coli O157: H7] (68414.m01415)
61(D) External Glu repressionNC-NC-D260830_atAt1g06760histone H1, putative similar to histone H1-1 GB: CAA44312 GI: 16314 from [Arabidopsis thaliana]; identical to cDNA H1-1C mRNA
for histone H1-1 (partial) GI: 732560 (68414.m00718)
62(D) External Glu repressionNC-NC-D260637_atAt1g623801-aminocyclopropane-1-carboxylate oxidase, putative/ACC oxidase, putative nearly identical to ACC oxidase (ACC ox1)
GI: 587086 from [Brassica oleracea] (68414.m07038)
63(D) External Glu repressionNC-NC-D260615_atAt1g53240malate dehydrogenase [NAD], mitochondrial identical to mitochondrial NAD-dependent malate dehydrogenase GI: 3929649
SP|Q9ZP06 from [Arabidopsis thaliana]; contains InterPro entry IPR001236: Lactate/malate dehydrogenase (68414.m06033)
64(D) External Glu repressionNC-NC-D260487_atAt1g51510RNA-binding protein, putative similar to RNA-binding protein 8 (Ribonucleoprotein RBM8) SP: Q9Y5S9 from [Homo sapiens], RNA-
binding protein Y14 [Xenopus laevis] GI: 11034807; contains InterPro entry IPR000504: RNA-binding region RNP-1 (RNA
recognition motif) (RRM) (68414.m05797)
65(D) External Glu repressionNC-NC-D260385_atAt1g74090sulfotransferase family protein similar to SP|P52837 Flavonol 4′-sulfotransferase (EC 2.8.2.—) (F4-ST) {Flaveria chloraefolia};
contains Pfam profile PF00685: Sulfotransferase domain (68414.m08581)
66(D) External Glu repressionNC-NC-D260347_atAt1g69420zinc finger (DHHC type) family protein contains Pfam profile: PF01529: DHHC zinc finger domain (68414.m07974)
67(D) External Glu repressionNC-NC-D260285_atAt1g805603-isopropylmalate dehydrogenase, chloroplast, putative strong similarity to 3-ISOPROPYLMALATE DEHYDROGENASE
PRECURSOR GB: P29102 SP|P29102 from [Brassica napus] (68414.m09445)
68(D) External Glu repressionNC-NC-D259375_atAt3g16370GDSL-motif lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386, EXL1 GI: 15054382, EXL2 GI: 15054384
from [Arabidopsis thaliana]; contains Pfam profile: PF00657 Lipase Acylhydrolase with GDSL-like motif (68416.m02071)
69(D) External Glu repressionNC-NC-D259381_s_atAt3g16390jacalin lectin family protein similar to myrosinase-binding protein homolog [Arabidopsis thaliana] GI: 2997767, epithiospecifier
[Arabidopsis thaliana] GI: 16118845; contains Pfam profiles PF01419 jacalin-like lectin family, PF01344 Ketch motif
(68416.m02075)
70(D) External Glu repressionNC-NC-D258920_atAt3g10520non-symbiotic hemoglobin 2 (HB2) (GLB2) identical to SP|O24521 Non-symbiotic hemoglobin 2 (Hb2) (ARAth GLB2) {Arabidopsis
thaliana} (68416.m01262)
71(D) External Glu repressionNC-NC-D258521_atAt3g0668060S ribosomal protein L29 (RPL29B) similar to 60S ribosomal protein L29 GB: P25886 from (Rattus norvegicus) (68416.m00788)
72(D) External Glu repressionNC-NC-D258208_atAt3g13930dihydrolipoamide S-acetyltransferase, putative similar to dihydrolipoamide S-acetytransferase [Zea mays] GI: 5669871; contains
Pfam profiles PF00198: 2-oxo acid dehydrogenases acyltransferase (catalytic domain), PF00364: Biotin-requiring enzyme,
PF02817: e3 binding domain (68416.m01759)
73(D) External Glu repressionNC-NC-D257822_atAt3g25230peptidyl-prolyl cis-trans isomerase/FK506-binding protein (ROF1) identical to rotamase FKBP (ROF1) GB: U49453 [Arabidopsis
thaliana] (Mol. Gen. Genet. 252 (5), 510-517 (1996)) (68416.m03152)
74(D) External Glu repressionNC-NC-D257774_atAt3g29250short-chain dehydrogenase/reductase (SDR) family protein similar to 3-beta-hydroxysteroiddehydrogenase GI: 15983819 from
[Digitalis lanata]; contains Pfam profile: PF00106 short chain dehydrogenase (68416.m03670)
75(D) External Glu repressionNC-NC-D257311_atAt3g26570phosphate transporter family protein contains Pfam profile: PF01384 phosphate transporter family (68416.m03316)
76(D) External Glu repressionNC-NC-D257174_atAt3g27190uracil phosphoribosyltransferase, putative/UMP pyrophosphorylase, putative/UPRTase, putative similar to SP|O65583 Uracil
phosphoribosyltransferase (EC 2.4.2.9) (UMP pyrophosphorylase) (UPRTase) {Arabidopsis thaliana}; contains Pfam profile
PF00485: Phosphoribulokinase/Uridine kinase family (68416.m03400)
77(D) External Glu repressionNC-NC-D257125_atAt3g20050T-complex protein 1 alpha subunit/TCP-1-alpha/chaperonin (CCT1) identical to SWISS-PROT: P28769-T-complex protein 1,
alpha subunit (TCP-1-alpha) [Arabidopsis thaliana] (68416.m02536)
78(D) External Glu repressionNC-NC-D256628_atAt3g20000porin family protein low similarity to haymaker protein [Mus musculus] GI: 17834089, mitochondrial outer membrane protein MOM35
[Mus musculus] GI: 6650562; contains Pfam profile PF01459: Eukaryotic porin (68416.m02530)
79(D) External Glu repressionNC-NC-D256547_atAt3g14840leucine-rich repeat family protein/protein kinase family protein contains Pfam domains PF00560: Leucine Rich Repeat and
PF00069: Protein kinase domain; contains 2 predicted transmembrane domains (68416.m01874)
80(D) External Glu repressionNC-NC-D256341_atAt1g72040deoxynucleoside kinase family contains Pfam profile: PF01712 deoxynucleoside kinase (68414.m08327)
81(D) External Glu repressionNC-NC-D256299_atAt1g89530expansin, putative (EXP1) identical to expansin (At-EXP1) [Arabidopsis thaliana] GI: 1041702; alpha-expansin gene family,
PMID: 11641069 (68414.m07993)
82(D) External Glu repressionNC-NC-D256072_atAt1g18080WD-40 repeat family protein/auxin-dependent protein (ARCA)/guanine nucleotide-binding protein beta subunit, putative identical
to SP|O24456 Guanine nucleotide-binding protein beta subunit-like protein (WD-40 repeat auxin-dependent protein ARCA)
{Arabidopsis thaliana}; contains 7 WD-40 repeats (PF00400) (68414.m02238)
83(D) External Glu repressionNC-NC-D255783_atAt1g19870calmodulin-binding family protein contains Pfam profile: PF00612 IQ calmodulin-binding motif (68414.m02492)
84(D) External Glu repressionNC-NC-D255482_atAt4g02510chloroplast outer membrane protein, putative similar to chloroplast protein import component Toc159 [Pisum sativum] GI: 8489806,
chloroplast outer envelope protein 86 [Pisum sativum] GI: 599958, GTP-binding protein [Pisum sativum] GI: 576509 (68417.m00343)
85(D) External Glu repressionNC-NC-D255052_atAt4g09720Ras-related GTP-binding protein, putative similar to GTP-binding protein RAB7A from [Lotus japonicus] (68417.m01596)
86(D) External Glu repressionNC-NC-D255020_atAt4g10320isoleucyl-tRNA synthetase, putative/isoleucine-tRNA ligase, putative similar to SP|P41252 Isoleucyl-tRNA synthetase,
cytoplasmic (EC 6.1.1.5) (Isoleucine-tRNA ligase) (IleRS) (IRS) {Homo sapiens}; contains Pfam profile PF00133: tRNA
synthetases class I (I, L, M and V) (68417.m01697)
87(D) External Glu repressionNC-NC-D254981_atAt4g10480nascent polypeptide associated complex alpha chain protein, putative/alpha-NAC, putative similar to alpha-NAC, non-muscle form
[Mus musculus] GI: 1666690; contains Pfam profiles PF01849: NAC domain, PF00627: UBA/TS-N domain (68417.m01720)
88(D) External Glu repressionNC-NC-D254811_atAt4g12230esterase/lipase/thioesterase family protein low similarity to 2-hydroxy-6-ketonona-2,4-dienedoic acid hydrolase; OhpC
[Rhodococcus sp.] GI: 8926386; contains Interpro entry IPR000379 (68417.m01940)
89(D) External Glu repressionNC-NC-D254887_atAt4g13770cytochrome P450 family protein (68417.m02136)
90(D) External Glu repressionNC-NC-D254609_atAt4g18970GDSL-motif lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386, EXL1 GI: 15054382, EXL2 GI: 15054384
from [Arabidopsis thaliana]; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrolase (68417.m02794)
91(D) External Glu repressionNC-NC-D254372_atAt4g21620glycine-rich protein (68417.m03134)
92(D) External Glu repressionNC-NC-D254080_atAt4g25630fibrillarin 2 (FIB2) identical to fibrillarin 2 GI: 9965655 from [Arabidopsis thaliana] (68417.m03691)
93(D) External Glu repressionNC-NC-D253777_atAt4g28450transducin family protein/WD-40 repeat family protein SOF1 (involved in rRNA processing) protein-yeast (68417.m04071)
94(D) External Glu repressionNC-NC-D253666_atAt4g30270MERI-5 protein (MERI-5) (MERI58)/endo-xyloglucan transferase/xyloglucan endo-1,4-beta-D-glucanase (SEN4) identical to endo
xyloglucan transferase gi: 944810, SP|P24806 MERI-5 protein precursor (Endo-xyloglucan transferase) (Xyloglucan endo-1,4-beta-
D-glucanase) {Arabidopsis thaliana} (68417.m04303)
95(D) External Glu repressionNC-NC-D253562_atAt4g31130expressed protein (68417.m04419)
96(D) External Glu repressionNC-NC-D253233_atAt4g34290SWIB complex BAF60b domain-containing protein contains Pfam profile PF02201: BAF60b domain of the SWIB complex
(68417.m04874)
97(D) External Glu repressionNC-NC-D253013_atAt4g37910heat shock protein 70, mitochondrial, putative/HSP70, mitochondrial, putative strong similarity to SP|Q01899 Heat shock 70 kDa
protein, mitochondrial precursor {Phaseotus vulgaris} (68417.m05361)
98(D) External Glu repressionNC-NC-D252712_atAt3g43800glutathione S-transferase, putative glutathione transferase, papaya, PIR: T09781 (68416.m04681)
99(D) External Glu repressionNC-NC-D252661_atAt3g44450expressed protein (68416.m04777)
100(D) External Glu repressionNC-NC-D252492_atAt3g46740chloroplast outer envelope protein, putative similar to chloroplastic outer envelope membrane protein (OEP75) [Pisum sativum]
GI: 633607; contains Pfam profile PF01103: outer membrane protein, OMP85 family (68416.m05074)
101(D) External Glu repressionNC-NC-D252327_atAt3g48740nodulin MtN3 family protein similar to MtN3 GI: 1619602 (root nodule development) from [Medicago truncatula] (68416.m05322)
102(D) External Glu repressionNC-NC-D252239_atAt3g49990expressed protein (68416.m05466)
103(D) External Glu repressionNC-NC-D252182_atAt3g50670U1 small nuclear ribonucleoprotein 70 (U1-70k) (68416.m05542)
104(D) External Glu repressionNC-NC-D252115_atAt3g51600nonspecific lipid transfer protein 5 (LTP5) identical to SP|Q9XFS7 Nonspecific lipid-transfer protein 5 (LTP 5) {Arabidopsis thaliana}
(68416.m05654)
105(D) External Glu repressionNC-NC-D251963_atAt3g53570protein kinase (AFC1) (AME2) identical to protein kinase AFC1 (EC 2.7.1.—) [Arabidopsis thaliana] (68416.m05915)
106(D) External Glu repressionNC-NC-D251638_atAt3g5749040S ribosomal protein S2 (RPS2D) 40S ribosomal protein S2 - Arabidopsis thaliana, SWISSPROT: RS2_ARATH (68416.m06400)
107(D) External Glu repressionNC-NC-D251322_atAt3g61440cysteine synthase, putative/O-acetylserine (thiol)-lyase, putative/O-acetylserine sulfhydrylase, putative identical to cysteine
synthase (EC 4.2.99.8) [Arabidopsis thaliana] GI: 5824334; contains Pfam profile PF00291: Pyridoxal-phosphate dependent
enzyme (68416.m06881)
108(D) External Glu repressionNC-NC-D251264_atAt3g62120tRNA synthetase class II (G, H, P and S) family protein similar to SP|P07814 Bifunctional aminoacyl-tRNA synthetase [Includes:
Glutamyl-tRNA synthetase (EC 6.1.1.17) (Glutamate-tRNA ligase); Prolyl-tRNA synthetase (EC 6.1.1.15) (Proline-tRNA ligase)]
{Homo sapiens}; contains Pfam profiles PF00587: tRNA synthetase class II core domain (G, H, P, S and T), PF03129: Anticodon
binding domain (68416.m06979)
109(D) External Glu repressionNC-NC-D250973_atAt5g0287060S ribosomal protein L4/L1 (RPL4D) 60S roibosomal protein L4, Arabidopsis thaliana, EMBL: CAA79104 (68418.m00230)
110(D) External Glu repressionNC-NC-D250936_atAt5g03120expressed protein (68418.m00260)
111(D) External Glu repressionNC-NC-D250918_atAt5g03610GDSL-motif lipase/hydrolase family protein low similarity to SP|P40602 Anther-specific proline-rich protein APG precursor
{Arabidopsis thaliana}; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrolase (68418.m00320)
112(D) External Glu repressionNC-NC-D250832_atAt5g04950nicotianamine synthase, putative similar to nicotianamine synthase [Lycopersicon esculentum][GI: 4753801], nicotianamine
synthase 2 [Hordeum vulgare][GI: 4894912] (68418.m00524)
113(D) External Glu repressionNC-NC-D248797_atAt5g47210nuclear RNA-binding protein, putative similar to nuclear RNA binding protein GI: 6492264 from [Arabidopsis thaliana]
(68418.m05821)
114(D) External Glu repressionNC-NC-D248582_atAt5g49910heat shock protein 70/HSP70 (HSC70-7) identical to heat shock protein 70 [Arabidopsis thaliana] GI: 6746592 (68418.m06180)
115(D) External Glu repressionNC-NC-D247965_atAt5g56540arabinogalactan-protein (AGP14) identical to gi|10880505|gb|AAG24262 (68418.m07056)
116(D) External Glu repressionNC-NC-D247900_atAt5g5729060S acidic ribosomal protein P3 (RPP3B) (68418.m07157)
117(D) External Glu repressionNC-NC-D247569_atAt5g61240leucine-rich repeat family protein contains leucine rich-repeat (LRR) domains Pfam: PF00560, INTERPRO: IPR001611; contains
similarity to Hcr2-0B [Lycopersicon esculentum] gi|3894387|gb|AAC78593 (68418.m07681)
118(D) External Glu repressionNC-NC-D247157_atAt5g65770nuclear matrix constituent protein-related low similarity to nuclear matrix constituent protein 1 (NMCP1) [Daucus carota] GI: 2190187
(68418.m08276)
119(D) External Glu repressionNC-NC-D247076_atAt5g66510bacterial transferase hexapeptide repeat-containing protein contains Pfam profile PF00132: Bacterial transferase hexapeptide (four
repeats) (68418.m08386)
120(D) External Glu repressionNC-NC-D246860_atAt5g25840expressed protein (68418.m03066)
121(D) External Glu repressionNC-NC-D246845_atAt5g26707
122(D) External Glu repressionNC-NC-D246809_s_atAt5g27140SAR DNA-binding protein, putative strong similarity to SAR DNA-binding protein-1 [Pisum sativum] GI: 3132696; contains Pfam
profile PF01798: Putative snoRNA binding domain (68418.m03239)
123(D) External Glu repressionNC-NC-D245714_atAt5g04280glycine-rich RNA-binding protein (68418.m00421)
124(D) External Glu repressionNC-NC-D245350_atAt4g16830nuclear RNA-binding protein (RGGA) identical to nuclear RNA binding protein GI: 6492264 from [Arabidopsis thaliana]
(68417.m02540)
125(D) External Glu repressionNC-NC-D245277_atAt4g15550UDP-glucose:indole-3-acetate beta-D-glucosyltransferase (IAGLU) identical to UDP-glucose:indole-3-acetate beta-D-
glucosyltransferase (iaglu) GI: 2149126 from [Arabidopsis thaliana] (68417.m02376)
126(D) External Glu repressionNC-NC-D244980_atrpl36ribosomal protein L36
1(E) Internal/External GluI-D-I249923_atAt5g19120expressed protein low similarity to extracellular dermal glycoprotein EDGP precursor [Daucus carota] GI: 285741, SP|P13917 Basic
induction7S globulin precursor {Glycine max} (68418.m02275)
2(E) Internal/External GluI-D-I249862_atAt5g22920zinc finger (C3HC4-type RING finger) family protein contains Pfam profiles: PF05495 CHY zinc finger, PF00097 zinc finger, C3HC4
inductiontype (RING finger) (68418.m02680)
3(E) Internal/External GluI-D-I246114_atAt5g20250raffinose synthase family protein/seed imbibition protein, putative (din10) similar to seed imbibition protein GB: AAA32975
inductionGI: 167100 from [Hordeum vulgare]; contains nonconsensus AT donor splice site at intron 1; contains Pfam profile PF05691:
Raffinose synthase or seed imbibition protein Sip1; identical to cDNA seed imbibition protein (din10) partial cds GI: 10834551
(68418.m02410)
4(E) Internal/External GluI-NC-I267461_atAt2g33830dormancy/auxin associated family protein contains Pfam profile: PF05564 dormancy/auxin associated protein (68415.m04150)
induction
5(E) Internal/External GluI-NC-I266995_atAt2g34500cytochrome P450 family protein similar to Cytochrome P450 61 (C-22 sterol desaturase) (SP: P54781) {Saccharomyces cerevisiae}
induction(68415.m04237)
6(E) Internal/External GluI-NC-I266984_atAt2g39570ACT domain-containing protein contains Pfam ACT domain PF01842 (68415.m04854)
induction
7(E) Internal/External GluI-NC-I266259_atAt2g27830expressed protein (68415.m03374)
induction
8(E) Internal/External GluI-NC-I265111_atAt1g62510protease inhibitor/seed storage/lipid transfer protein (LTP) family protein contains Pfam protease inhibitor/seed storage/LTP family
inductiondomain PF00234 (68414.m07053)
9(E) Internal/External GluI-NC-I264524_atAt1g10070branched-chain amino acid aminotransferase 2/branched-chain amino acid transaminase 2 (BCAT2) identical to SP|Q9M439
inductionBranched-chain amino acid aminotransferase 2, chloroplast precursor (EC 2.6.1.42) (Atbcat-2) {Arabidopsis thaliana}; contains
Pfam profile: PF01063 aminotransferase class IV (68414.m01136)
10(E) Internal/External GluI-NC-I263157_atAt1g54100aldehyde dehydrogenase, putative/antiquitin, putative strong similarity to SP|Q41247 Aldehyde dehydrogenase family 7 member
inductionA1 (EC 1.2.1.3) (Antiquitin 1) (Brassica turgor-responsive/drought-induced gene 26 protein) (Btg-26) {Brassica napus}; similar to
turgor-responsive protein 28G (aldehyde dehydrogenase family 7 member A1) [Pisum sativum] SWISS-PROT: P25795
(68414.m06166)
11(E) Internal/External GluI-NC-I262399_atAt1g49500expressed protein (68414.m05548)
induction
12(E) Internal/External GluI-NC-I261135_atAt1g19610plant defensin-fusion protein, putative (PDF1.4) plant defensin protein family member, personal communication, Bart Thomma
induction(Bart.Thomma@agr.kuleuven.ac.be); similar to SWISS-PROT: P30224, Cysteine-rich antifungal protein 1 precursor
(AFP1)[Arabidopsis thaliana] (68414.m02443)
13(E) Internal/External GluI-NC-I259431_atAt1g01620plasma membrane intrinsic protein 1C (PIP1C)/aquaporin PIP1.3 (PIP1.3)/transmembrane protein B (TMPB) identical to plasma
inductionmembrane intrinsic protein 1c SP: Q08733 from [Arabidopsis thaliana] (68414.m00079)
14(E) Internal/External GluI-NC-I258939_atAt3g10020expressed protein (68416.m01202)
induction
15(E) Internal/External GluI-NC-I258527_atAt3g06850branched chain alpha-keto acid dehydrogenase E2 subunit (din3) identical to branched chain alpha-keto acid dehydrogenase E2
inductionsubunit (din3) [Arabidopsis thaliana] GI: 7021284 (68416.m00812)
16(E) Internal/External GluI-NC-I258402_atAt3g15450expressed protein similar to auxin down-regulated protein ARG10 [Vigna radiata] GI: 2970051, wali7 (aluminum-induced protein)
induction[Triticum aestivum] GI: 451193 (68416.m01960)
17(E) Internal/External GluI-NC-I258225_atAt3g15630expressed protein (68416.m01982)
induction
16(E) Internal/External GluI-NC-I258005_atAt3g19390cysteine proteinase, putative/thiol protease, putative contains similarity to cysteine proteinase RD21A (thiol protease) GI: 435619,
inductionSP: P43297 from [Arabidopsis thaliana] (68416.m02459)
19(E) Internal/External GluI-NC-I256894_atAt3g21870cyclin family protein similar to cyclin 2 [Trypanosoma brucei] GI: 7339572, cyclin 6 [Trypanosoma cruzi] GI: 12005317; contains
inductionPfam profile PF00134: Cyclin, N-terminal domain (68416.m02758)
20(E) Internal/External GluI-NC-I253279_atAt4g34030methylcrotonyl-CoA carboxylase beta chain, mitochondrial/3-methylcrotonyl-CoA carboxylase 2 (MCCB) identical to SP|Q9LDD8
inductionMethylcrotonyl-CoA carboxylase beta chain, mitochondrial precursor (EC 6.4.1.4) (3-Methylcrotonyl-CoA carboxylase 2) (MCCase
beta subunit) (3-methylcrotonyl-CoA:carbon dioxide ligase beta subunit) {Arabidopsis thaliana}; contains Pfam profile: PF01039
carboxyl transferase domain (68417.m04829)
21(E) Internal/External GluI-NC-I253061_atAt4g37610TAZ zinc finger family protein/BTB/POZ domain-containing protein contains Pfam PF00851: BTB/POZ domain; contains Pfam
inductionPF02135: TAZ zinc finger; similar to Speckle-type POZ protein (SP: O43791) [Homo sapiens] (68417.m05321)
22(E) Internal/External GluI-NC-I252415_atAt3g47340asparagine synthetase 1 [glutamine-hydrolyzing]/glutamine-dependent asparagine synthetase 1 (ASN1) identical to SP|P49078
inductionAsparagine synthetase [glutamine-hydrolyzing] (EC 6.3.5.4) (Glutamine-dependent asparagine synthetase) {Arabidopsis thaliana}
(68416.m05145)
23(E) Internal/External GluI-NC-I251642_atAt3g57520alkaline alpha galactosidase, putative similar to alkaline alpha galactosidase II [Cucumis melo] GI: 29838631; contains Pfam profile
inductionPF05691: Raffinose synthase or seed imbibition protein Sip1 (68416.m06403)
24(E) Internal/External GluI-NC-I248606-atAt5g49450bZIP family transcription factor similar to bZIP transcription factor GI: 1769891 from [Arabidopsis thaliana] (68418.m06118)
induction
25(E) Internal/External GluI-NC-I247585_atAt5g60680expressed protein contains Pfam profile PF04520: Protein of unknown function, DUF584 (68418.m07615)
induction
26(E) Internal/External GluNC-D-I255742_atAt1g25560AP2 domain-containing transcription factor, putative similar to DNA-binding protein RAV2 GI: 3868859 from [Arabidopsis thaliana]
induction(68414.m03173)
27(E) Internal/External GluNC-D-NC267523_atAt2g30610
induction
28(E) Internal/External GluNC-D-NC267337_atAt2g39980transferase family protein contains Pfam profile PF02458 transferase family (68415.m04913)
induction
29(E) Internal/External GluNC-D-NC267230_atAt2g44080expressed protein (68415.m05482)
inductionexpansin, putative (EXP3) identical to Alpha-expansin 3 precursor (AI-EXP3)[Arabidopsis thaliana] SWISS-PROT: O80932; alpha-
30(E) Internal/External GluNC-D-NC267158_atAt2g37640expansin gene family, PMID: 11641069 (68415.m04617)
induction
31(E) Internal/External GluNC-D-NC266463_atAt2g47840tic20 protein-related similar to Tic20 (GI: 3769673) [Pisum sativum] (68415.m05971)
induction
32(E) Internal/External GluNC-D-NC265384_atAt2g20760expressed protein (68415.m02440)
induction
33(E) Internal/External GluNC-D-NC264508_atAt1g09570phytochrome A (PHYA) identical to SP|P14712 Phytochrome A {Arabidopsis thaliana} (68414.m01073)
induction
34(E) Internal/External GluNC-D-NC264188_atAt1g54690histone H2A, putative strong similarity to histone H2A GI: 3204129 SP|O65759 from Cicer arietinum, Picea abies SP|P35063;
inductioncontains Pfam profile PF00125 Core histone H2A/H2B/H3/H4 (68414.m06235)
35(E) Internal/External GluNC-D-NC263710_atAt1g09330expressed protein contains 3 transmembrane domains; contains Pfam profile PF05832: Eukaryotic protein of unknown function
induction(68414.m01044)
36(E) Internal/External GluNC-D-NC263597_atAt2g01870expressed protein (68415.m00120)
induction
37(E) Internal/External GluNC-D-NC262215_atAt1g74790expressed protein contains similarity to hedgehog-interacting protein GI: 4868122 from [Mus musculus] (68414.m08685)
induction
38(E) Internal/External GluNC-D-NC262024_atAt1g35620thioredoxin family protein similar to SP|Q43116 Protein disulfide isomerase precursor (PDI) (EC 5.3.4.1) {Ricinus communis};
inductioncontains Pfam profile PF00085: Thioredoxin (68414.m04425)
39(E) Internal/External GluNC-D-NC261937_atAt1g22570proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m02818)
induction
40(E) Internal/External GluNC-D-NC260410_atAt1g69870proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m08041)
induction
41(E) Internal/External GluNC-D-NC260266_atAt1g68520zinc finger (B-box type) family protein contains Pfam profile: PF00643 B-box zinc finger (68414.rn07827)
induction
42(E) Internal/External GluNC-D-NC260037_atAt1g68840DNA-binding protein RAV2 (RAV2)/AP2 domain-containing protein RAP2.8 identical to RAV2 GI: 3868859 from [Arabidopsis
inductionthaliana], AP2 domain containing protein RAP2.8 [Arabidopsis thaliana] GI: 2281641; contains Pfam profile: PF00847 AP2-domain
(68414.m07873)
43(E) Internal/External GluNC-D-NC259504_atAt1g15690pyrophosphate-energized vacuolar membrane proton pump/pyrophosphate-energized inorganic pyrophosphatase (AVP-3)
inductionidentical to pyrophosphate-energized vacuolar membrane proton pump (pyrophosphate-energized inorganic pyrophosphatase)
SP: P31414 from [Arabidopsis thaliana] (68414.m01883)
44(E) Internal/External GluNC-D-NC258809_atAt3g04070no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) domain; similar to NAM
inductionGB: CAA63101 [Petunia x hybrida] (68416.m00430)
45(E) Internal/External GluNC-D-NC258299_atAt3g23410alcohol oxidase-related similar to long chain fatty alcohol oxidase from Candida cloacae [GI: 698351], Candida tropicalis
induction[GI: 6983594] (68416.m02951)
46(E) Internal/External GluNC-D-NC257044_atAt3g19720dynamin family protein identical to cDNA dynamin-like protein (ARC5) GI: 30349145; contains Pfam profile PF00350: Dynamin
inductionfamily (68416.m02497)
47(E) Internal/External GluNC-D-NC255540_atAt4g01800preprotein translocase secA subunit, putative similar to preprotein translocase secA subunit, chloroplast [precursor] SP: Q9STI0
inductionfrom [Arabidopsis thaliana]; non-consensus GA donor splice site at exon 4 (68417.m00237)
48(E) Internal/External GluNC-D-NC254456_atAt4g21150ribophorin II (RPN2) family protein contains Pfam domain PF05817: Ribophorin II (RPN2) (68417.m03057)
induction
49(E) Internal/External GluNC-D-NC254250_atAt4g23290protein kinase family protein contains Pfam domain PF00069: Protein kinase domain (68417.m03356)
induction
50(E) Internal/External GluNC-D-NC254089_atAt4g24800MA3 domain-containing protein similar to programmed cell death 4 protein [Gallus gallus] GI: 12958564; contains Pfam profile
inductionPF02847: MA3 domain (68417.m03552)
51(E) Internal/External GluNC-D-NC253871_atAt4g27440protochlorophyllide reductase B, chloroplast/PCR B/NADPH-protochlorophyllide oxidoreductase B (PORB) identical to
inductionSP: P21218 protochlorophyllide reductase B, chloroplast precursor (EC 1.3.1.33) (PCR B) (NADPH-protochlorophyllide
oxidoreductase B) (POR B) [Arabidopsis thaliana] (68417.m03944)
52(E) Internal/External GluNC-D-NC253135_atAt4g35830aconitate hydratase, cytoplasmic/citrate hydro-lyase/aconitase (ACO) identical to SP|Q42560 Aconitate hydratase, cytoplasmic
induction(EC 4.2.1.3) (Citrate hydro-lyase) (Aconitase) {Arabidopsis thaliana}; contains Pfam profiles PF00330: Aconitase family (aconitate
hydratase), PF00694: Aconitase C-terminal domain (68417.m05090)
53(E) Internal/External GluNC-D-NC252425_atAt3g47620TCP family transcription factor, putative auxin-induced basic helix-loop-helix transcription factor - Gossypium hirsutum,
inductionEMBL: AF165924 (68416.m05184)
54(E) Internal/External GluNC-D-NC252171_atAt3g50600
induction
55(E) Internal/External GluNC-D-NC251373_atAt3g60530zinc finger (GATA type) family protein identical to cDNA for GATA transcription factor 4 GI: 2959735 (68416.m06770)
induction
56(E) Internal/External GluNC-D-NC249266_atAt5g416706-phosphogluconate dehydrogenase family protein contains Pfam profiles: PF00393 6-phosphogluconate dehydrogenase C-
inductionterminal domain, PF03446 NAD binding domain of 6-phosphogluconate (68418.m05062)
57(E) Internal/External GluNC-D-NC248932_atAt5g46050proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68418.m05663)
induction
58(E) Internal/External GluNC-D-NC247874_01At5g57710heat shock protein-related contains similarity to 101 kDa heat shock protein; HSP101 [Triticum aestivum]
inductiongi|11561808|gb|AAC83689 (68418.m07214)
59(E) Internal/External GluNC-D-NC247791_atAt5g58710peptidyl-protyl cis-trans isomerase, putative/cyclophilin, putative/rotamase, putative (ROC7) similar to cyclophilin [Arabidopsis
inductionthaliana] gi|2443755|gb|AA871401 (68418.m07355)
60(E) Internal/External GluNC-D-NC247611_atAt5g60710zinc finger (C3HC4-type RING finger) family protein low similarity to SP|P97280 Inter-alpha-trypsin inhibitor heavy chain H3
inductionprecursor {Mesocricetus auratus}; contains Pfam profiles PF00097: Zinc finger, C3HC4 type (RING finger), PF00092: von
Willebrand factor type A domain (68418.m07618)
61(E) Internal/External GluNC-D-NC246580_atAt1g31770ABC transporter family protein contains Pfam profile: PF00005: ABC transporter (68414.m03899)
induction
62(E) Internal/External GluNC-D-NC246238_atAt4g36670mannitol transporter, putative similar to mannitol transporter [Apium graveolens var. dulce] GI: 12004316; contains Nam profile
inductionPF00083: major facilitator superfamily protein (68417.m05203)
63(E) Internal/External GluD-NC-D266892_atAt2g26080glycine dehydrogenase [decarboxylating], putative/glycine decarboxylase, putative/glycine cleavage system P-protein, putative
repressionstrong similarity to SP|P26969 Glycine dehydrogenase (decarboxylating), mitochondrial precursor (EC 1.4.4.2) {Pisum sativum};
contains Pfam profile PF02347: Glycine cleavage system P-protein (68415.m03131)
64(E) Internal/External GluD-NC-D266805_atAt2g30010expressed protein (68415.m03651)
repression
65(E) Internal/External GluD-NC-D264956_atAt1g76990ACT domain containing protein low similarity to uridylyltransferase SP|P56884 from Rhizobium meliloti; contains Pfam ACT domain
repressionPF01842 (68414.m08964)
66(E) Internal/External GluD-NC-D264901_atAt1g23090sulfate transporter, putative similar to sulfate transporter [Arabidopsis thaliana] GI: 2285885; contains Pfam profiles PF00916:
repressionSulfate transporter family, PF01740: STAS domain (68414.m02887)
67(E) Internal/External GluD-NC-D264903_atAt1g23190phosphoglucomutase, cytoplasmic, putative/glucose phosphomutase, putative strong similarity to SP|P93805
repressionPhosphoglucomutase, cytoplasmic 2 (EC 5.4.2.2) (Glucose phosphomutase 2) (PGM 2) (Zea mays); contains InterPro accession
IPR006352: Phosphoglucosamine mutase (68414.m02897)
68(E) Internal/External GluD-NC-D263865_atAt2g36910multidrug resistance P-glycoprotein (PGP1) identical to P-glycoprotein GI: 3849833 from [Arabidopsis thaliana]; homologous to
repressionmammalian mdr gene, contains ATP-binding cassette; related to multi drug resistance proteins (68415.m04527)
69(E) Internal/External GluD-NC-D263777_atAt2g46450cyclic nucleotide-regulated ion channel, putative (CNGC12) similar to cyclic nucleotide and calmodulin-regulated ion channel
repression(cngc3) GI: 4581201 from [Arabidopsis thaliana] (68415.m05780)
70(E) Internal/External GluD-NC-D263348_atAt2g05710aconitate hydratase, cytoplasmic, putative/citrate hydro-lyase/aconitase, putative nearly identical to SP|P49608 Aconitate
repressionhydratase, cytoplasmic (EC 4.2.1.3) (Citrate hydro-lyase) (Aconitase) {Cucurbita maxima}; contains Plant profiles PF00330:
Aconitase family (aconitate hydratase), PF00694: Aconitase C-terminal domain (68415.m00611)
71(E) Internal/External GluD-NC-D262793_atAt1g13110cytochrome P450 71B7 (CYP71B7) identical to (SP: Q96514) cytochrome P450 71B7 [Arabidopsis thaliana]; PF|00067 Cytochrome
repressionP450 family. ESTs gb|T44875, gb|T04814, gb|R65111, gb|T44310 and gb|T04541 come from this gene; identical to cDNA
cytochrome P450 GI: 1523795, ATCYP71B7 (68414.m01520)
72(E) Internal/External GluD-NC-D262374_s_atAt1g72930Toll-Interleukin-Resistance (TIR) domain-containing protein domain signature TIR exists, suggestive of a disease resistance
repressionprotein. (68414.m08435)
73(E) Internal/External GluD-NC-D261569_atAt1g01060myb family transcription factor contains Pfam profile: PF00249 myb-like DNA-binding domain; identical to cDNA LATE
repressionELONGATED HYPOCOTYL MYB transcription factor GI: 3281645 (68414.m00006)
74(E) Internal/External GluD-NC-D260955_atAt1g06000UDP-glucoronosyl/UDP-glucosyl transferase family protein contains similarity to UDPG glucosyltransferase GB: AAB62270
repressionGI: 2232354 from [Solanum berthaultii] (68414.m00628)
75(E) Internal/External GluD-NC-D260913_atAt1g02500S-adenosylmethionine synthetase 1 (SAM1) identical to S-adenosylmethionine synthetase 1 (Methionine adenosyltransferase 1,
repressionAdoMet synthetase 1) [Arabidopsis thaliana] SWISS-PROT: P23686 (68414.m00200)
76(E) Internal/External GluD-NC-D260896_atAt1g29310protein transport protein sec61, putative similar to PfSec61 [Plasmodium falciparum] GI: 3057044; contains Pfam profile PF00344:
repressioneubacterial secY protein (68414.m03583)
77(E) Internal/External GluD-NC-D260162_atAt1g79830expressed protein weak similarity to TATA element modulatory factor (TMF) (Swiss-Prot: P82094) [Homo sapiens] (68414.m09326)
repression
78(E) Internal/External GluD-NC-D259958_atAt1g53730leucine-rich repeat transmembrane protein kinase, putative similar to GI: 3360289 from [Zea mays] (Plant Mol. Biol. 37 (5), 749-761
repression(1998)) (68414.m06114)
79(E) Internal/External GluD-NC-D259788_atAt1g29670GDSL-motif lipase/hydrolase family protein similar to family II lipase EXL1 GI: 15054382 from [Arabidopsis thaliana]; contains Pfam
repressionprofile: PF00657 Lipase/Acylhydrolase with GDSL-like motif (68414.m03626)
80(E) Internal/External GluD-NC-D259228_atAt3g07720kelch repeat-containing protein similar to epithiospecifier (GI: 16118838) [Arabidopsis thaliana]; contains Pfam PF01344: Kelch
repressionmotif (5 repeats) (88416.m00931)
81(E) Internal/External GluD-NC-D258609_atAt3g02910expressed protein contains Pfam domain PF03674: Uncharacterised protein family (UPF0131) (68416.m00286)
repression
82(E) Internal/External GluD-NC-D258338_atAt3g16150L-asparaginase, putative/L-asparagine amidohydrolase, putative similar to Swiss-Prot: P30384 L-asparaginase (EC 3.5.1.1) (L-
repressionasparagine amidohydrolase) [Lupinus angustifolius] (88416.m02039)
83(E) Internal/External GluD-NC-D257217_atAt3g14940phosphoenolpyruvate carboxylase, putative/PEP carboxylase, putative strong similarity to SP|P29198 Phosphoenolpyruvate
repressioncarboxylase (EC 4.1.1.31) (PEPCASE) (Solanum tuberosum); contains Pfam profile PF00311: phosphoenolpyruvate carboxylase
(68416.m01890)
84(E) Internal/External GluD-NC-D257008_atAt3g14210myrosinase-associated protein, putative similar to GB: CAA71238 from [Brassica napus]; contains Pfam profile: PF00857
repressionLipase/Acylhydrolase with GDSL-like motif (68416.m01796)
85(E) Internal/External GluD-NC-D256228_atAt1g56190phosphoglycerate kinase, putative similar to SP|P41758 Phosphoglycerate kinase, chloroplast precursor (EC 2.7.2.3)
repression
86(E) Internal/External GluD-NC-D255957_atAt1g22160{Chlamydomonas reinhardtii}; contains Pfam profile PF00162: phosphoglycerate kinase (68414.m06458)
repressionsenescence-associated protein-related similar to senescence-associated protein SAG102 (GI: 22331931) [Arabidopsis thaliana]
(68414.m02770)
87(E) Internal/External GluD-NC-D255615_atAt4g01290expressed protein (68417.m00170)
repression
88(E) Internal/External GluD-NC-D255421_atAt4g03260leucine-rich repeat family protein contains leucine rich repeat (LRR) domains. Pfam: PF00560 (68417.m00445)
repression
89(E) Internal/External GluD-NC-D254723_atAt4g13510ammonium transporter 1, member 1 (AMT1.1) identical to SP|P54144 High affinity ammonium transporter (AtAMT1; 1) {Arabidopsis
repressionthaliana} (68417.m02107)
90(E) Internal/External GluD-NC-D254705_atAt4g17870expressed protein (68417.m02664)
repression
91(E) Internal/External GluD-NC-D254275_atAt4g22670tetratricopeptide repeat (TPR)-containing protein similar to Hsc70-interacting protein (Hip) from (Homo sapiens) SP|P50502, {Rattus
repressionnorvegicus) SP|P50503; contains Pfam profile PF00515: tetratricopeptide repeat (TPR) domain (68417.m03272)
92(E) Internal/External GluD-NC-D254174_atAt4g24120transporter, putative similar to iron-phytosiderophore transporter protein yellow stripe 1 [Zea mays] GI: 10770865; contains Pfam
repressionprofile PF03169: OPT oligopeptide transporter protein (68417.m03462)
93(E) Internal/External GluD-NC-D253521_atAt4g3130020S proteasome beta subunit A (PBA1)(PRCD) identical to cDNA proteasome subunit prod GI: 2511593 (68417.m04441)
repression
94(E) Internal/External GluD-NC-D253387_atAt4g33010glycine dehydrogenase [decarboxylating], putative/glycine decarboxylase, putative/glycine cleavage system P-protein, putative
repressionstrong similarity to SP|P49361 Glycine dehydrogenase [decarboxylating] A, mitochondrial precursor (EC 1.4.4.2) {Flaveria pringlei};
contains Pfam profile PF02347: Glycine cleavage system P-protein (68417.m04695)
95(E) Internal/External GluD-NC-D253205_atAt4g34490cyclase-associated protein (cap1) identical to cyclase-associated protein (cap1) GI: 3169136 from [Arabidopsis thaliana]
repression(68417.m04903)
96(E) Internal/External GluD-NC-D252827_atAt4g39950cytochrome P450 79B2, putative (CYP79B2) identical to cytochrome P450 (79B2) SP: O81346 from [Arabidopsis thaliana]
repression(68417.m05657)
97(E) Internal/External GluD-NC-D251562_atAt3g57890tubulin-specific chaperone C-related contains weak similarity to Tubulin-specific chaperone C (Tubulin-folding cofactor C) (CFC)
repression(Swiss-Prot: Q15814) [Homo sapiens] (68416.m06453)
98(E) Internal/External GluD-NC-D251581_atAt3g58560endonuclease/exonuclease/phosphatase family protein similar to SP|P31384 Glucose-repressible alcohol dehydrogenase
repressiontranscriptional effector (Carbon catabolite repressor protein 4) {Saccharomyces cerevisiae}; contains Pfam profile PF03372:
Endonuclease/Exonuclease/phosphatase family (68416.m06527)
99(E) Internal/External GluD-NC-D251524_atAt3g58990aconitase C-terminal domain-containing protein contains Pfam profile PF00694: Aconitase C-terminal domain (68416.m06575)
repression
100(E) Internal/External GluD-NC-D251197_atAt3g62960glutaredoxin family protein contains INTERPRO Domain IPR002109, Glutaredoxin (thioltransferase) (68416.m07073)
repression
101(E) Internal/External GluD-NC-D250337_atAt5g11790Ndr family protein similar to SP|O23969 Pollen specific protein SF21 (Halianthus annuus); contains Pfam profile PF03096: Ndr
repressionfamily (68418.m01376)
102(E) Internal/External GluD-NC-D250339_atAt5g11670matate oxidoreductase, putative similar to NADP-dependent malic enzyme (EC 1.1.1.40) (NADP-ME) (SP|P12628) {Phaseolus
repressionvulgaris) (68418.m01364)
103(E) Internal/External GluD-NC-D250253_atAt5g13840lecithin:cholesterol acyltransferase family protein/LACT family protein similar to SP|P40345 Phospholipid:diacylglycerol
repressionacyltransferase (EC 2.3.1.158) (PDAT) (Saccharomyces cerevisiae); contains Pfam profile PF02450: Lecithin:cholesterol
acyltransferase (phosphatidylcholine-sterol acyltransferase) (68418.m01582)
104(E) Internal/External GluD-NC-D249035_atAt5g44190myb family transcription factor (GLK2) contains Pfam profile: PF00249 myb-like DNA-binding domain (68418.m05407)
repression
105(E) Internal/External GluD-NC-D248727_atAt5g47990cytochrome P450 family protein similar to Cytochrome P450 93A3 (P450 CP5) (SP: O81973) [Glycine max]; (68418.m05929)
repression
106(E) Internal/External GluD-NC-D248729_atAt5g48010pentacyclic triterpene synthase, putative similar to pentacyclic triterpene synthase [gi: 6650207] [PMID: 11247608] Contains Pfam
repressiondomain PF00432: Prenyltransferase and squalene oxidase repeat (68418.m05933)
107(E) Internal/External GluD-NC-D245736_atAt1g73330protease inhibitor, putative (DR4) identical to Dr4 GI: 489114 from [Arabidopsis thaliana]; contains Pfam profile PF00197: Trypsin
repressionand protease inhibitor (68414.m08488)
108(E) Internal/External GluD-NC-D245555_atAt4g15390transferase family protein similar to alcohol acyltransferase [Fragaria x ananassa][GI: 10121328][PMID: 10810141].
repressiondeacetylvindoline 4-O-acetyltransferase [Catharanthus roseus][GI: 4091808][PMID: 9681034] (68417.m02351)
109(E) Internal/External GluD-NC-D245021_atpsbJPSII component
repression
110(E) Internal/External GluNC-I-NC267381_atAt2g26190calmodulin-binding family protein contains Pfam profile PF00612: IQ calmodulin-binding motif (68415.m03145)
Repression
111(E) Internal/External GluNC-I-NC267005_atAt2g34460flavin reductase-related low similarity to SP|P30043 Flavin reductase {Homo sapiens} (68415.m04229)
Repression
112(E) Internal/External GluNC-I-NC265472_atAt2g15580zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
Repression(68415.m01784)
113(E) Internal/External GluNC-I-NC265194_atAt1g050101-aminocyclopropane-1-carboxylate oxidase/ACC oxidase/ethylene-forming enzyme (ACO) (EAT1) Identical to 1-
Repressionaminocyclopropane-1-carboxylate oxidase (ACC oxidase) gb|X66719 (EAT1). ESTs gb|T43073, gb|T5714, gb|R90435, gb|R44023,
gb|AA597926, gb|AI099676, gb|AA650810 and gb|29725 come from this gene (68414.m00502)
114(E) Internal/External GluNC-I-NC264435_atAt1g10360glutathione S-transferase, putative similar to glutathione S-transferase (sp|Q03666|GTX4_TOBAC); similar to EST gb|H36275
Repressiongb: AB039930. (68414.m01167)
115(E) Internal/External GluNC-I-NC264107_s_atAt2g13790leucine-rich repeat family protein/protein kinase family protein (68415.m01522)
Repression
116(E) Internal/External GluNC-I-NC263582_atAt2g17120peptidoglycan-binding LysM domain-containing protein contains Pfam profile P101478: LysM domain; supporting cDNA
Repressiongi|16226688|gb|AF428464.1|AF428484 (68415.m01976)
117(E) Internal/External GluNC-I-NC263534_atAt2g24940cytochrome b5 domain-containing protein similar to SP|P70580 Membrane associated progesterone receptor component 1 (Rattus
Repressionnorvegicus) : contains Pfam profile PF00173: Heme/Steroid binding domain (68415.m02982)
118(E) Internal/External GluNC-I-NC263150_atAt1g5405017.4 kDa class III heat shock protein (HSP17.4-CIII) contains Pfam profile: PF00011 Hsp20/alpha crystallin family; identified as
Repressionclass CIII in Scharf, K. D., et al, Cell Stress & Chaperones (2001) 6: 225-237. (68414.m06159)
119(E) Internal/External GluNC-I-NC262831_atAt1g14730cytochrome B561 family similar to cytochrome GB: AAD11424 GI: 4206110 [Mesembryanthemum crystallinum]; contains Pfam
Repressiondomain, PF03188: Cytochrome b561 (68414.m01761)
120(E) Internal/External GluNC-I-NC262341_atAt1g64230ubiquitin-conjugating enzyme, putative identical or nearly so to Ubiquitin-conjugating enzymes SP|P35132, SP|P35131, SP|P35133
Repressionfrom {Arabidopsis thaliana}; contains Pfam profile PF00179: Ubiquitin-conjugating enzyme (68414.m07276)
121(E) Internal/External GluNC-I-NC262235_atAt1g48350ribosomal protein L18 family protein similar to ribosomal protein L18 GI: 3980238 from [Thermotoga maritima] (68414.m05401)
Repression
122(E) Internal/External GluNC-I-NC262092_atAt1g56150auxin-responsive family protein similar to SP: P33082 Auxin-induced protein X15. [Soybean] (Glycine max) (68414.m06450)
Repression
123(E) Internal/External GluNC-I-NC261564_atAt1g01720no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) domain; similar to NAC domain
Repressionprotein NAM GB: AAD17313 GI: 4325282 from [Arabidopsis thaliana] (68414.m00090)
124(E) Internal/External GluNC-I-NC261484_atAt1g14400ubiquitin-conjugating enzyme 1 (UBC1) E2; identical to gi: 431259, SP: P25865 (68414.m01707)
Repression
125(E) Internal/External GluNC-I-NC261445_atAt1g28380expressed protein (68414.m03487)
Repression
126(E) Internal/External GluNC-I-NC261143_atAt1g19770purine permease-related low similarity to purine permease [Arabidopsis thaliana] GI: 7620007; contains Pfam profile PF03151:
RepressionDomain of unknown function, DUF250 (68414.m02471)
127(E) Internal/External GluNC-I-NC261081_atAt1g07350transformer serine/arginine-rich ribonucleoprotein, putative similar to GB: Y09506 from [Nicotiana tabacum] (Plant Mol. Biol. 35 (3),
Repression261-269 (1997)) (68414.m00783)
128(E) Internal/External GluNC-I-NC260831_atAt1g06830glutaredoxin family protein contains INTERPRO Domain IPR002109, Glutaredoxin (thioltransferase) (68414.m00728)
Repression
129(E) Internal/External GluNC-I-NC260481_atAt1g10960ferredoxin, chloroplast, putative strong similarity to FERREDOXIN PRECURSOR GB: P16972 [SP|P16972] from [Arabidopsis
Repressionthaliana] (68414.m01258)
130(E) Internal/External GluNC-I-NC260180_atAt1g70660ubiquitin-conjugating enzyme family protein similar to TRAF6-regulated IKK activator 1 beta Uev1A [Homo sapiens] GI: 10880969;
Repressioncontains Pfam profile PF00179: Ubiquitin-conjugating enzyme (68414.m08146)
131(E) Internal/External GluNC-I-NC259518_atAt1g205104-coumarate-CoA ligase family protein/4-coumaroyl-CoA synthase family protein similar to SP|P14912 and SP|P14913 from
RepressionPetroselinum crispum: contains Pfam AMP-binding enzyme domain PF00501 (68414.m02555)
132(E) Internal/External GluNC-I-NC259312_atAt3g05200zinc finger (C3HC4-type RING finger) family protein (ATL6) contains Pfam profile: PF00097: Zinc finger, C3HC4 type (RING finger)
Repression(68416.m00567)
133(E) Internal/External GluNC-I-NC259249_atAt3g07790DGCR14-related similar to DGCR14 protein (DiGeorge syndrome critical region 14) (ES2 protein) (Swiss-Prot: Q96DF8) [Homo
Repressionsapiens] (68416.m00951)
134(E) Internal/External GluNC-I-NC258897_atAt3g05730expressed protein (68416.m00642)
Repression
135(E) Internal/External GluNC-I-NC258787_alAt3g11840U-box domain-containing protein low similarity to immediate-early fungal elicitor protein CMPG1 [Petroselinum crispum]
RepressionGI: 14582200; contains Pfam profile PF04564: U-box domain (68416.m01451)
136(E) Internal/External GluNC-I-NC258452_atAt3g22370alternative oxidase 1a, mitochondrial (AOX1A) identical to GB: Q39219 [SP|Q39219] from [Arabidopsis thaliana] (68416.m02824)
Repression
137(E) Internal/External GluNC-I-NC257700_atAt3g12740LEM3 (ligand-effect modulator 3) family protein/CDC50 family protein Similar to GI: 4585976; GI: 4966357; GI: 4835763;
RepressionGI: 9757735 from [Arabidopsis thaliana] (68416.m01591)
138(E) Internal/External GluNC-I-NC256663_atAt3g12050Aha1 domain-containing protein contains Pfam PF05146: Aha1 domain; similar to Protein C14orf3 (HSPC322) (Swiss-
RepressionProt: O95433) [Homo sapiens] (68416.m01496)
139(E) Internal/External GluNC-I-NC256178_s_atAt1g51780IAA-amino acid hydrolase 5/auxin conjugate hydrolase (ILL5) identical to auxin conjugate hydrolase ILL5 [Arabidopsis thaliana]
Repressiongi|5725649|gb|AAD48152; contains nonconsensus AT acceptor splice site at exon3 (68414.m05835)
140(E) Internal/External GluNC-I-NC256046_atAt1g07135glycine-rich protein (68414.m00759)
Repression
141(E) Internal/External GluNC-I-NC254861_atAt4g12040zinc finger (AN1-like) family protein contains Pfam domains, PF01428: AN1-like Zinc finger and PF01754: A20-like zinc finger
Repression(68417.m01915)
142(E) Internal/External GluNC-I-NC254331_s_atAt4g22710cytochrome P450 family protein contains Pfam profile: PF00067 cytochrome p450 (68417.m03276)
Repression
143(E) Internal/External GluNC-I-NC254231_atAt4g23810WRKY family transcription factor AR411 - Arabidopsis thaliana (thale cress), PID: g1669603 (68417.m03423)
Repression
144(E) Internal/External GluNC-I-NC254120_atAt4g24570mitochondrial substrate carrier family protein contains Pfam profile: PF00153 mitochondrial carrier protein (68417.m03521)
Repression
145(E) Internal/External GluNC-I-NC253664_atAt4g30210NADPH-cytochrome p450 reductase, putative/NADPH-ferrihemoprotein reductase, putative similar to NADPH-cytochrome P450
Repressionoxydoreductase from (Populus balsamifera subsp. trichocarpa x Populus deltoides] GI: 13183564, GI: 13183566 (68417.m04296)
146(E) Internal/External GluNC-I-NC253482_atAt4g3198560S ribosomal protein L39 (RPL39C) (68417.m04549)
Repression
147(E) Internal/External GluNC-I-NC253273_atAt4g34180cyclase family protein contains Pfam profile: PF04199 putative cyclase (68417.m04850)
Repression
148(E) Internal/External GluNC-I-NC252422_atAt3g47550zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
Repression(68416.m05171)
149(E) Internal/External GluNC-I-NC252053_atAt3g52400syntaxin, putative (SYP122) similar to SP|Q9ZSD4 Syntaxin 121 (AtSYP121) (Syntaxin-related protein At-Syr1) {Arabidopsis
Repressionthaliana} (68416.m05763)
150(E) Internal/External GluNC-I-NC251727_atAt3g56290expressed protein (68416.m06257)
Repression
151(E) Internal/External GluNC-I-NC249983_atAt5g18470curculin-like (mannose-binding) lectin family protein contains Pfam profile: PF01453 lectin (probable mannose binding)
Repression(68418.m02175)
152(E) Internal/External GluNC-I-NC249325_atAt5g40850urophorphyrin III methylase (UPM1) identical to urophorphyrin III methylase (GI: 1146165) [Arabidopsis thaliana]; similar to s-
Repressionadenosyl-L-methionine-dependent uroporphyrinogen III methyltransferase (GI: 1490606) [Arabidopsis thaliana]; similar to Diphthine
synthase (Diphtamide biosynthesis methyltransferase) (DPH5) (SP: P32469) [Saccharomyces cerevisiae]; contains Pfam PF00590:
Tetrapyrrole (Corrin/Porphyrin) Methylases domain; contains TIGRFAM PF00590: Tetrapyrrole (Corrin/Porphyrin) Methylases
(68418.m04960)
153(E) Internal/External GluNC-I-NC249122_atAt5g43850acireductone dioxygenase (ARD/ARD′) family protein similar to iron-deficiency induced gene [Hordeum vulgare] GI: 14522834, SIPL
Repression[Homo sapiens] GI: 16551383: contains Pfam profile PF03079: ARD/ARD′ family (68418.m05361)
154(E) Internal/External GluNC-I-NC249078_atAt5g44070phytochelatin synthase 1 (PCS1) identical to phytochelatin synthase [Arabidopsis thaliana] gi|18254401|gb|AAL66747; identical to
RepressioncDNA phytochelatin synthase, GI: 18254400 (68418.m05392)
155(E) Internal/External GluNC-I-NC248964_atAt5g45340cytochrome P450 family protein similar to SP|Q42569|C901_ARATH Cytochrome P450 90A1 (SP: Q42569) [Arabidopsis thaliana];
Repressioncontains Pfam profile: PF00067: Cytochrome P450 (68418.m05585)
156(E) Internal/External GluNC-I-NC248799_atAt5g47230ethylene-responsive element-binding factor 5 (ERF5) identical to SP|O80341 Ethylene responsive element binding factor 5
Repression(AtERF5) [Arabidopsis thaliana] (68418.m05824)
157(E) Internal/External GluNC-I-NC248665_atAt5g48855zinc finger (C3HC4-type RING finger) family protein contains Pram profile: PF00097 zinc finger, C3HC4 type (RING finger)
Repression(68418.m06017)
158(E) Internal/External GluNC-I-NC248327_atAt5g52750heavy-metal-associated domain-containing protein Pfam profile PF00403: Heavy-metal-associated domain (68418.m06547)
Repression
159(E) Internal/External GluNC-I-NC247693_atAt5g59730exocyst subunit EXO70 family protein leucine zipper-containing protein, Lycopersicon esculentum, PIR: S21495 contains Pfam
Repressiondomain PF03081: Exo70 exocyst complex subunit; (68418.m07487)
160(E) Internal/External GluNC-I-NC247320_atAt5g64040photosystem I reaction center subunit PSI-N, chloroplast, putative/PSI-N, putative (PSAN) SP: P49107; Plant Physicol. 109 (3),
Repression1126 (1995); similar to SP|P31093 Photosystem I reaction centre subunit N, chloroplast precursor (PSI-N) {Hordeum vulgare}
(68418.m08040)
161(E) Internal/External GluNC-I-NC246870_atAt5g26030ferrochelatase I identical to Swiss-Prot: P42043 ferrochelatase I, chloroplast/mitochondrial precursor (EC 4.99.1.1) (Protoheme ferro
Repressionlyase) (Heme synthetase) [Arabidopsis thaliana] (68418.m03097)
162(E) Internal/External GluNC-I-NC245768_atAt1g33590disease resistance protein-related/LRR protein-related contains leucine rich-repeat domains Pfam: PF00580.
RepressionINTERPRO: IPR001611; similar to Hcr2-5D [Lycopersicon esculentum] gi|3894393|gb|AAC78596 (68414.m04158)
163(E) Internal/External GluNC-I-NC245247_atAt4g17230scarecrow-like transcription factor 13 (SCLL-13) (68417.m02591)
Repression
164(E) Internal/External GluNC-I-NC245114_atAt2g41630transcription initiation factor IIB-1/general transcription factor TFIIB-1 (TFIIB1) identical to transcription initiation factor IIB-1
Repression
(TFIIB1) SP: P48512 from [Arabidopsis thaliana] (68415.m05144)
1(F) Internal Glu induction/I-NC-D254549_atAt4g19880glutathione S-transferase-related contains weak hit to Pfam profile PF00043: Glutathione S-transferase, C-terminal domain
External Glu repretext missing or illegible when filed (68417.m02914)
2(F) Internal Glu repression/D-NC-I266992_atAt2g39200seven transmembrane MLO family protein/MLO-like protein 12 (MLO12) identical to SP|O80961 MLO-like protein 12 (AtMlo12)
External Glu indtext missing or illegible when filed {Arabidopsis thaliana}, membrane protein Mlo12 [Arabidopsis thaliana] gi|14091594|gb|AAK53805; similar to MLO protein SWISS-
PROT: P93766, NCBI_gi: 1877221 [Hordeum vulgare][Barley] {68415.m04815}
3(F) Internal Glu repression/D-NC-I253277_atAt4g34230cinnamyl-alcohol dehydrogenase, putative similar to cinnamyl alcohol dehydrogenase, Nicotiana tabacum [SP|P30359], Populus
External Glu indtext missing or illegible when filed deltoides, PATCHX: G288753 (68417.m04864)
1Not regulatedNC-NC-NC267630_atAt2g42130expressed protein contains weak hit to Pfam PF04755: PAP_fibrillin (68415.m05211)
2Not regulatedNC-NC-NC267638_atAt2g42210mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family protein weak similarity to SP|P25710 NADH-
ubiquinone oxidoreductase 21.3 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) (Neurospora crassa), SP|Q12328 Mitochondrial import
inner membrane translocase subunit TIM22 {Saccharomyces cerevisiae}; contains Pfam profile PF02466: Mitochondrial import
inner membrane translocase subunit Tim17 (68415.m05224)
3Not regulatedNC-NC-NC267640_atAt2g32950COP1 regulatory protein photomorphogenesis repressor, identical to COP1 regulatory protein/FUSCA protein FUS1 GI: 402685
SP: P43254 (68415.m04039)
4Not regulatedNC-NC-NC267596_s_atAt2g33050leucine-rich repeat family protein contains leucine rich-repeat domains Pfam: PF00560, INTERPR: IPR001611; similar to Hcr2-0B
[Lycopersicon esculentum] gi|3894387|gb|AAC78593 (68415.m04053)
5Not regulatedNC-NC-NC267601_atAt2g32980expressed protein (68415.m04042)
6Not regulatedNC-NC-NC267607_s_atAt2g26740epoxide hydrolase, soluble (sEH) identical to ATsEH [Arabidopsis thaliana] GI: 1109600 (68415.m03207)
7Not regulatedNC-NC-NC287608_atAt2g26770plectin-related contains weak similarity to Swiss-Prot: Q9JI55 plectin 1 (PLTN, PCN, 300-kDa intermediate filament-associated
protein, IFAP300)[Cricetulus griseus] (68415.m03210)
8Not regulatedNC-NC-NC267609_atAt2g26780expressed protein contains Pfam profile TBP (TATA-binding protein) -interacting protein 120 (TIP120); contains TIGRFAM profile
TIGR01612: reticulocyte binding protein (68415.m03212)
9Not regulatedNC-NC-NC267610_atAt2g26650potassium channel protein 1 (AKT1) identical to AKT1 [Arabidopsis thaliana] gi|563112|gb|AAA96810; member of the 1 pore, 6
transmembrane (1P/6TM-Shaker-type) K+ channel family, PMID: 11500563 (68415.m03197)
10Not regulatedNC-NC-NC267617_atAt2g26670heme oxygenase 1 (HO1) (HY1) identical to plastid heme oxygenase (HY1) [Arabidopsis thaliana] GI: 4877362, heme oxygenase 1
[Arabidopsis thaliana] GI: 4530591 GB: AF132475; annotation updated per Seth J. Davis at University of Wisconsin-Madison
(68415.m03199)
11Not regulatedNC-NC-NC267619_atAt2g26730leucine-rich repeat transmembrane protein kinase, putative (68415.m03206)
12Not regulatedNC-NC-NC267624_atAt2g39660protein kinase, putative similar to protein kinase gi|166809|gb|AAA18853 (68415.m04864)
13Not regulatedNC-NC-NC267591_atAt2g39705expressed protein (68415.m04871)
14Not regulatedNC-NC-NC267562_atAt2g39670radical SAM domain-containing protein similar to hypothetical protein PIR/S76698/S76698 contains Pfam profile PF04055: radical
SAM domain protein (68415.m04866)
15Not regulatedNC-NC-NC267577_atAt2g30710RabGAP/TBC domain-containing protein similar to SP|Q08484 GTPase-activating protein GYP1 {Saccharomyces cerevisiae};
contains Pfam profile PF00566: TBC domain (68415.m03746)
16Not regulatedNC-NC-NC267580_atAt2g41990expressed protein (68415.m05194)
17Not regulatedNC-NC-NC267583_atAt2g41960expressed protein (68415.m05191)
18Not regulatedNC-NC-NC267586_atAt2g41950expressed protein (68415.m05190)
19Not regulatedNC-NC-NC267533_atAt2g42070MutT/nudix family protein similar to SP|Q58549 ADP-ribose pyrophosphatase (EC 3.6.1.13) {Methanococcus jannaschi}; contains
Pfam profile PF00293: NUDIX domain (68415.m05202)
20Not regulatedNC-NC-NC267535_atAt2g41940zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger, C2H2 type (68415.m05188)
21Not regulatedNC-NC-NC267539_atAt2g42030zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68415.m05198)
22Not regulatedNC-NC-NC267544_atAt2g32720cytochrome b5, putative similar to Cytochrome B5 SP: P49098 from [Nicotiana tabacum] (68415.m04004)
23Not regulatedNC-NC-NC267553_s_atAt2g32650expressed protein contains Pfam PF05899: Protein of unknown function (DUF861) (68415.m03988)
24Not regulatedNC-NC-NC267561_atAt2g45590protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68415.m05669)
25Not regulatedNC-NC-NC267498_atAt2g45720armadillo/beta-catenin repeat family protein contains Pfam profile PF00514: Armadillo/beta-catenin-like repeat (68415.m05686)
26Not regulatedNC-NC-NC267504_atAt2g45530zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68415.m05662)
27Not regulatedNC-NC-NC267506_atAt2g45520expressed protein (68415.m05661)
28Not regulatedNC-NC-NC267507_atAt2g4571040S ribosomal protein S27 (RPS27A) (68415.m05685)
29Not regulatedNC-NC-NC267510_atAt2g45640sin3 associated polypeptide p18 family protein similar to Sin3 associated polypeptide p18 (2HOR0202) (Swiss-Prot: O00422) [Homo
sapiens] (68415.m05675)
30Not regulatedNC-NC-NC267511_atAt2g45670calcineurin B subunit-related contains Pfam PF00036: EF hand domain and Prosite PS00018: EF-hand calcium-binding domain:
contains Pfam profile PF01553: Acyltransferase; weak similarity to Calcineurin B subunit isoform 2 (Protein phosphatase 2B
regulatory subunit 2) (Protein phosphatase 3 regulatory subunit B alpha isoform 2) (Swiss-Prot: Q63811) [Mus musculus]
(68415.m05678)
31Not regulatedNC-NC-NC267513_atAt2g45620nucleotidyltransferase family protein low similarity to SP|O13833| Caffeine-induced death protein 1 {Schizosaccharomyces pombe};
contains Pfam profiles PF03828: PAP/25A associated domain, PF01909: Nudeotidyltransferase domain (68415.m05672)
32Not regulatedNC-NC-NC267515_atAt2g45680TCP family transcription factor, putative similar to PCF2 (GI: 2580440) [Oryza sativa] (68415.m05680)
33Not regulatedNC-NC-NC267517_atAt2g30510
34Not regulatedNC-NC-NC267520_atAt2g30460expressed protein contains 4 predicted transmembrane domains; similar to c_pp004044298r (GI: 14597790) [Physcornitrella
patens] (68415.m03710)
35Not regulatedNC-NC-NC267526_atAt2g30570photosystem II reaction center W (PsbW) protein-related similar to photosystem II reaction center W protein SP: Q41387 from
[Spinacia oleracea] (68415.m03723)
36Not regulatedNC-NC-NC267472_atAt2g02850plastocyanin-like domain-containing protein/plantacyanin, putative similar to plantacyanin GI: 3395754 from [Spinacia oleracea]
(68415.m00234)
37Not regulatedNC-NC-NC267486_atAt2g02800protein kinase (APK2b) identical to protein kinase APK2b [Arabidopsis thaliana] gi|2852449|dbj|BAA24695 (68415.m00224)
38Not regulatedNC-NC-NC267490_atAt2g19130S-locus lectin protein kinase family protein contains Pfam domains PF00954: S-locus glycoprotein family, PF00069: Protein kinase
domain and PF01453: Lectin (probable mannose binding) (68415.m02233)
39Not regulatedNC-NC-NC267442_atAt2g19080metaxin-related contains 1 transmembrane domain: similar to Metaxin 1 (component of a preprotein import complex) (Swiss-
Prot: P47802) [Mus musculus]; (68415.m02228)
40Not regulatedNC-NC-NC267448_s_atAt2g33840tRNA synthetase class I (W and Y) family protein similar to SP|P54577 Tyrosyl-tRNA synthetase (EC 6.1.1.1) (Tyrosyl-tRNA ligase)
(TyrRS) {Homo sapiens}; contains Pfam profile PF00579: tRNA synthetases class I (W and Y) (68415.m04153)
41Not regulatedNC-NC-NC267448_atAt2g33700protein phosphatase 2C, putative/PP2C, putative contains PF00481: Protein phosphatase 2C domain: similar to protein
phosphatase-2C (PP2C) (GI: 3643085) [Mesembryanthemum crystallinum] (68415.m04130)
42Not regulatedNC-NC-NC267459_atAt2g33850expressed protein contains 1 transmembrane domain; similar to Protein E6 (Swiss-Prot: Q01197) [Gossypium hirsutum]
(68415.m04155)
43Not regulatedNC-NC-NC267463_atAt2g33845DNA-binding protein-related contains weak similarity to G-quartet DNA binding protein 3 [tetrahymena thermophila]
gi|4583503|gb|AAD25098 (68415.m04154)
44Not regulatedNC-NC-NC267435_atAt2g33800ribosomal protein S5 family protein contains Pfam profiles PF03719: Ribosomal protein S5, C-terminal domain, PF00333:
Ribosomal protein S5, N-terminal domain (68415.m04147)
45Not regulatedNC-NC-NC267405_atAt2g33740copper-binding protein (CUTA) identical to copper-binding protein CUTA GI: 12963361 from [Arabidopsis thaliana], contains Pfam
profile: PF03091 CutA1 divalent ion tolerance protein (68415.m04136)
46Not regulatedNC-NC-NC287413_atAt2g34960amino acid permease family protein similar to cationic amino acid transporter 3 [Rattus norvegicus] GI: 2116552; contains Pfam
profile PF00324: Amino acid permease (68415.m04290)
47Not regulatedNC-NC-NC267419_atAt2g35010thioredoxin family protein similar to SP|Q42443 Thioredoxin H-type (TRX-H) {Oryza sativa}; contains Pfam profile: PF00085
Thioredoxin (68415.m04295)
48Not regulatedNC-NC-NC287421_atAt2g35040AICARFT/IMPCHase bienzyme family protein similar to SP|P12048 Bifunctional purine biosynthesis protein purH [Includes:
Phosphoribosylaminoimidazolecarboxamide formyltransferase (EC 2.1.2.3) (AICAR transformylase); IMP cyclohydrolase (EC
3.5.4.10) (Inosinicase) (IMP synthetase) (ATIC)] {Bacillus subtilis}; contains Pfam profiles PF01808: AICARFT/IMPCHase
bienzyme, PF02142: MGS-like domain (68415.m04299)
49Not regulatedNC-NC-NC267423_atAt2g35060potassium transporter family protein similar to HAK2 [Hordeum vulgare] GI: 7108599, potassium transporter HAK2p
[Mesemdyanthemum crystallinum] gi|14091471|gb|AAK53759; KUP/HAK/KT Transporter family member, PMID: 11500563;
contains Pfam profile PF02705: K+ potassium transporter (68415.m04301)
50Not regulatedNC-NC-NC267430_atAt2g34860chaperone protein dnaJ-related contains Pfam PF00684: DnaJ central domain (4 repeats); similar to Chaperone protein dnaJ
(Heat shock(protein 40) (SP: Q9UXR9) {Methanosarcina thermophila} (68415.m04280)
51Not regulatedNC-NC-NC287432_atAt2g35020UTP-glucose-1-phosphate uridylyltransferase family protein similar to SP|Q16222 UDP-N-acetylhexosamine pyrophosphorytase
(Antigen X) {Homo sapiens}; contains Pfam profile PF01704: UTP-glucose-1-phosphate uridylyttransferase (68415.m04296)
52Not regulatedNC-NC-NC267401_atAt2g26210ankyrin repeat family protein contains ankyrin repeats, Pfam: PF00023 (68415.m03147)
53Not regulatedNC-NC-NC267374_atAt2g26230uricase/urate oxidase/nodulin 35, putative identical to uricase SP: O04420 from [Arabidopsis thaliana] (68415.m03149)
54Not regulatedNC-NC-NC267375_atAt2g28300guanine nucleotide binding protein (G-protein) alpha-1 subunit/GP-alpha-1 (GPA1) identical to SP|P18064 Guanine nucleotide-
binding protein alpha-1 subunit (GP-alpha-1) {Arabidopsis thaliana} (68415.m03156)
55Not regulatedNC-NC-NC267377_atAt2g26250beta-katoacyl-CoA synthase family (FIDDLEHEAD) (FDH) identical to GB: AJ010713 (fiddlehead protein) (68415.m03151)
56Not regulatedNC-NC-NC287385_atAt2g44380DC1 domain-containing protein highly similar to GP|2435515|AF024504; contains Pfam profile PF03107: DC1 domain
(68415.m05520)
57Not regulatedNC-NC-NC267393_atAt2g44500expressed protein contains Pfam PF03138: Plant protein family. The function of this family of plant proteins is unknown; previously
annotated as ‘axi 1 protein from Nicotiana tabacum-related’ based on similarity to axi 1 protein (GB: X80301) (GI: 559920) from
[Nicotiana tabacum], which, due to scienitific fraud was retracted. Retraction in: Schell J. EMBO J 1999 May 17; 18(10): 2908.
PMID: 10400497. (68415.m05532)
58Not regulatedNC-NC-NC267385_atAt2g44530ribose-phosphate pyrophosphokinase, putative/phosphoribosyl diphosphate synthetase, putative very strong similarity to
phosphoribosyl pyrophosphate synthase [Spinacia oleracea] GI: 4902849; contains Pfam profile PF00156: Phosphoribosyl
transferase domain (88415.m05539)
59Not regulatedNC-NC-NC267342_atAt2g44520UbiA prenyltransferase family protein similar to SP|Q12887 Protoheme IX farnesyltransferase, mitochondrial precursor (EC 2.5.1.—)
(Heme O synthase) {Homo sapiens}, SP|P21592 COX10 {Saccharomyces cerevisiae} (68415.m05535)
60Not regulatedNC-NC-NC267346_atAt2g39940coronatine-insensitive 1/COI1 (FBL2) E3 ubiquitin ligase SCF complex F-box subunit; identical to LRR-containing F-box protein
GI: 3158394 from [Arabidopsis thaliana] (68415.m04908)
61Not regulatedNC-NC-NC267348_atAt2g39960microsomal signal peptidase 25 kDa subunit, putative (SPC25) identical to Probable microsomal signal peptidase 25 kDa subunit
(EC 3.4.—.—) (SPase 25 kDa subunit) (SPC25) (Swiss-Prot: P58684) [Arabidopsis thaliana]; contains non-consensus AT-AC splice
sites; contains 1 transmembrane domain; (68415.m04910)
62Not regulatedNC-NC-NC267358_atAt2g39890proline transporter 1 (ProT1) identical to protine transporter 1 GI: 1769901 from [Arabidopsis thaliana] (68415.m04903)
63Not regulatedNC-NC-NC287360_atAt2g40060expressed protein (68415.m04922)
64Not regulatedNC-NC-NC267363_atAt2g39970peroxisomal membrane protein (PMP36) identical to 36 kDa-peroxisornal membrane protein (PMP36) GI: 15146342 from
[Arabidopsis thaliana] (68415.m04911)
65Not regulatedNC-NC-NC267338_atAt2g39990eukaryotic translation initiation factor 3 subunit 5/eIF-3 epsilon/eIF3f (TIF3F1) identical to SP|O04202 Eukaryotic translation
initiation factor 3 subunit 5 (eIF-3 epsilon) (eIF3 p32 subunit) (eIF3f) {Arabidopsis thaliana}: contains Pfam profile PF01398:
Mov34/MPN/PAD-1 family (68415.m04914)
66Not regulatedNC-NC-NC267312_atAt2g34750RNA polymerase I specific transcription initiation factor RRN3 family protein contains Pfam PF05327: RNA polymerase I specific
transcription initiation factor RRN3; similar to RRN3 (GI: 7670100) [Homo sapiens] similar to RNA polymerase I specific transcription
initiation factor RRN3 (Swiss-Prot: P36070) [Saccharomyces cerevisiae] (68415.m04267)
67Not regulatedNC-NC-NC267315_atAt2g34720CCAAT-binding transcription factor (CBF-B/NF-YA) family protein contains Pfam profile: PF02045 CCAAT-binding transcription
factor (CBF-B/NF-YA) subunit B (68415.m04284)
68Not regulatedNC-NC-NC267323_atAt2g19340membrane protein, putative contains 3 transmembrane domains; (68415.m06034)
69Not regulatedNC-NC-NC267330_atAt2g19270expressed protein (68415.m02249)
70Not regulatedNC-NC-NC287309_atAt2g19385expressed protein weak similarity to Cell growth regulating nucleolar protein (Swiss-Prot: Q08288) [Mus musculus] (68415.m02261)
71Not regulatedNC-NC-NC267278_atAt2g19350expressed protein (68415.m02258)
72Not regulatedNC-NC-NC287280_atAt2g19450diacylglycerol O-acyltransferase/acyl CoA: diacylglycerol acyltransferase (DGAT) identical to gi: 5050913, gi: 6625553
(68415.m02272)
73Not regulatedNC-NC-NC267290_atAt2g23750SET domain-containing protein similar to SP|O60018 Cryptic loci regulator 4 (Histone-lysine N-methyltransferase)
{Schizosaccharomyces pombe}; contains Pfam profile PF00856: SET domain (68415.m02835)
74Not regulatedNC-NC-NC267297_atAt2g23780zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (68415.m02840)
75Not regulatedNC-NC-NC287302_atAt2g30100ubiquitin family protein low similarity to SP|Q9UQ13 Leucine-rich repeat protein SHOC-2 (Ras-binding protein Sur-8) {Homo
sapiens}; contains Pfam profiles PF00240: Ubiquitin family, PF01535: PPR repeat, PF00560: Leucine Rich Repeat
(68415.m03863)
76Not regulatedNC-NC-NC267306_atAt2g30060Ran-binding protein 1b (RanBP1b) nearly identical to atranbp 1b [Arabidopsis thaliana] GI: 2058284 (68415.m03856)
77Not regulatedNC-NC-NC267307_atAt2g30210laccase, putative/diphenol oxidase, putative similar to laccase [Populus balsamifera subsp. trichocarpa][GI: 3805960]
(68415.m03674)
78Not regulatedNC-NC-NC267277_atAt2g30050transducin family protein/WD-40 repeat family protein similar to SEC13-related protein (SP: P55735) [Homo sapiens]
(68415.m03664)
79Not regulatedNC-NC-NC287247_atAt2g30170expressed protein (68415.m03671)
80Not regulatedNC-NC-NC267251_atAt2g23070casein kinase II alpha chain, putative similar to casein kinase II, alpha chain (CK II) [Zea mays] SWISS-PROT: P28523; contains
protein kinase domain, Pfam: PF00069 (68415.m02750)
81Not regulatedNC-NC-NC267257_atAt2g23080casein kinase II alpha chain, putative identical to probable casein kinase II, alpha chain [Arabidopsis thaliana] SWISS-
PROT: O64817; similar to casein kinase II, alpha chain 1 [Arabidopsis thaliana] SWISS-PROT: Q08467 (68415.m02751)
82Not regulatedNC-NC-NC267258_atAt2g23140armadillo/beta-catenin repeat family protein/U-box domain-containing protein contains Pfam domain, PF00514: Armadillo/beta-
catenin-like repeats and Pfam, PF04564: U-box domain (68415.m02763)
83Not regulatedNC-NC-NC267260_atAt2g23130arabinogalactan-protein (AGP17) identical to gi_11935088_gb_AAG41983 (68415.m02759)
84Not regulatedNC-NC-NC267262_atAt2g22990sinapoylglucose:malate sinapoyltransferase (SNG1) similar to serine carboxypeptidase I precursor (SP: P37890) [Oryza sativa];
contains Pfam profile PF00450: Serine carboxypeptidase; identical to cDNA sinapoylglucose:malate sinapoyltansferase (SNG1)
GI: 8699618 (68415.m02733)
85Not regulatedNC-NC-NC267265_atAt2g22980serine carboxypeptidase S10 family protein similar to serine carboxypeptidase I precursor (SP: P37890) from [Oryza sativa]
(68415.m02731)
86Not regulatedNC-NC-NC267266_atAt2g23150NRAMP metal ion transporter 3 (NRAMP3) identical to metal transporter Nramp3 [Arabidopsis thaliana] gi|6468012|gb|AAF13278:
member of the natural resistance-associated macrophage protein (NRAMP) metal transporter family, PMID: 11500563
(88415.m02765)
87Not regulatedNC-NC-NC287226_atAt2g44010expressed protein (68415.m05472)
88Not regulatedNC-NC-NC267233_s_atAt2g43920thiol methyltransferase, putative similar to thiol methyltransferase 1 GI: 14583119 from [Brassica oleracea] (68415.m05459)
89Not regulatedNC-NC-NC267238_atAt2g44100Rab GDP dissociation inhibitor (GDI1) identical to GDP dissociation inhibitor [Arabidopsis thaliana] GI: 1655424 (68415.m05484)
90Not regulatedNC-NC-NC267211_atAt2g44065ribosomal protein L2 family protein similar to ribosomal protein L2 [Gossypium arboreum] GI: 17644114; contains Pfam profile
PF03947: Ribosomal Proteins L2. C-terminal domain (68415.m05479)
91Not regulatedNC-NC-NC267212_atAt2g44060late embryogenesis abundant family protein/LEA family protein similar to ethylene-responsive late embryogenesis-like protein
[Lycopersicon esculentum] GI: 1684830; contains Pfam profile PF03168: Late embryogenesis abundant protein (68415.m05477)
92Not regulatedNC-NC-NC267185_atAt2g43950expressed protein (68415.m05463)
93Not regulatedNC-NC-NC267188_atAt2g440506,7-dimethyl-8-ribityllumazine synthase/DMRL synthase/lumazine synthase/riboflavin synthase identical to 6,7-dimethyl-8-
ribityllumazine synthase, chloroplast [precursor] SP: O80575 from [Arabidopsis thaliana] (68415.m05476)
94Not regulatedNC-NC-NC267189_atAt2g44180methionyl aminopeptidase, putative/methionine aminopeptidase, putative/peptidase M, putative similar to SP|P50579 Methionine
aminopeptidase 2 (EC 3.4.11.18) (MetAP 2) {Homo sapiens}; contains Pfam profile PF00557: metallopeptidase family M24
(68415.m05496)
95Not regulatedNC-NC-NC267196_atAt2g30950FtsH protease (VAR2) identical to zinc dependent protease VAR2 GI: 7650138 from [Arabidopsis thaliana] (68415.m03775)
96Not regulatedNC-NC-NC267208_atAt2g30980shaggy-related protein kinase delta/ASK-delta/ASK-dzeta (ASK4) identical to shaggy-related protein kinase delta (ASK-delta)
(ASK-dzeta) [Arabidopsis thaliana] SWISS-PROT: Q39010 (68415.m03778)
97Not regulatedNC-NC-NC267151_atAt2g30970aspartate aminotransferase, mitochondrial/transaminase A (ASP1) identical to SP|P46643 Aspartate aminotransferase,
mitochondrial precursor (EC 2.6.1.1) (Transaminase A) {Arabidopsis thaliana} (68415.m03777)
98Not regulatedNC-NC-NC267152_atAt2g31040ATP synthase protein I-related contains weaks similarity to Swiss-Prot: P08443 ATP synthase protein I [Synechococcus sp.]
(68415.m03786)
99Not regulatedNC-NC-NC267153_atAt2g30860glutathione S-transferase, putative identical to GB: Y12295 (68415.m03761)
100Not regulatedNC-NC-NC267161_atAt2g37680phytochrome A specific signal transduction component (PAT3)/far-red elongated hypocotyl protein 1 (FHY1) identical to
phytochrome A specific signal transduction component PAT3 [Arabidopsis thaliana] gi|19421998|gb|AAL87850; identical to far-red
elongated hypocotyl protein 1 [Arabidopsis thaliana] gi|17148773|gb|AAL35819 (68415.m04621)
101Not regulatedNC-NC-NC267171_atAt2g37590Dof-type zinc finger domain-containing protein (68415.m04612)
102Not regulatedNC-NC-NC267175_s_atAt2g37620actin 1 (ACT1) identical to SP|P10671 Actin 1 (Actin 3) {Arabidopsis thaliana} (68415.m04615)
103Not regulatedNC-NC-NC267179_atAt2g37550arabidopsis pde1 suppressor 1 protein (ASP1) identical to arabidopsis pde1 suppressor 1 (Asp1) from GI: 4519792 [Arabidopsis
thaliana]; contains InterPro accession IPR001164: Human Rev interacting-like protein (hRIP) (68415.m04605)
104Not regulatedNC-NC-NC267180_atAt2g37570expressed protein (68415.m04608)
105Not regulatedNC-NC-NC267181_atAt2g37760aldo/keto reductase family protein similar to chalcone reductase [Sesbania rostrata][GI: 2792155], and aldose reductase ALDRXV4
[Xerophyte viscosa][GI: 4539944], [Hordeum vulgare][GI: 728592] (68415.m04633)
106Not regulatedNC-NC-NC267121_atAt2g23540GDSL-motif lipase/hydrolase family protein similar to family II lipase EXL1 GI: 15054382 from [Arabidopsis thaliana]; contains Pfam
profile PF00657: GDSL-like Lipase/Acylhydrolase (68415.m02809)
107Not regulatedNC-NC-NC267127_atAt2g23610esterase, putative similar to ethylene-induced esterase [Citrus sinensis] GI: 14279437, polyneuridine aldehyde esterase [Rauvolfia
serpentina] GI: 6651393; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68415.m02817)
108Not regulatedNC-NC-NC267128_atAt2g23620esterase, putative similar to ethylene-induced esterase [Citrus sinensis] GI: 14279437, polyneuridine aldehyde esterase [Rauvolfia
serpentina] GI: 6651393; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68415.m02818)
109Not regulatedNC-NC-NC267132_atAt2g23420nicotinate phosphoribosyltransferase family protein/NAPRTase family protein contains Pfam domain PF04095: Nicotinate
phosphoribosyltransferase (NAPRTase) (68415.m02796)
110Not regulatedNC-NC-NC267134_atAt2g23450protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68415.m02799)
111Not regulatedNC-NC-NC267142_atAt2g38290ammonium transporter 2 (AMT2) identical to SP|Q9M6N7 Ammonium transporter 2 (AtAMT2) {Arabidopsis thaliana}
(68415.m04703)
112Not regulatedNC-NC-NC267145_atAt2g38130GCN5-related N-acetyltransferase, putative similar to SP|Q03503 L-A virus GAG protein N-acetyltransferase (EC 2.3.1.—)
{Saccharomyces cerevisiae}; contains Pfam profile PF00583: acetyltransferase, GNAT family (68415.m04680)
113Not regulatedNC-NC-NC267088_atAt2g38140chloroplast 30S ribosomal protein S31 (PSRP4) (68415.m04682)
114Not regulatedNC-NC-NC267090_atAt2g38270CAX-interacting protein, putative identical to cDNA CAXIP1-like protein GI: 27752306; contains Pfam profile PF00462: Glutaredoxin;
contains TIGRfam profile TIGR00365: glutaredoxin-related protein (68415.m04700)
115Not regulatedNC-NC-NC267092_atAt2g38120amino acid permease, putative (AUX1) identical to AUX1 GI: 1531758 from [Arabidopsis thaliana] (68415.m04679)
116Not regulatedNC-NC-NC267093_atAt2g38170calcium exchanger (CAX1) identical to high affinity calcium antiporter CAX1 [Arabidopsis thaliana] gi|9256741|gb|AAB05913,
except a possible frameshift at base 58008. Sequence has been confirmed with 5 sequencing reads.; Ca2+: Cation Antiporter
(CaCA) Family member PMID: 11500563 (68415.m04685)
117Not regulatedNC-NC-NC267094_atAt2g38080laccase, putative/diphenol oxidase, putative similar to diphenol oxidase [Nicotiana tabacum][GI: 1685087] (68415.m04674)
118Not regulatedNC-NC-NC267095_atAt2g38280AMP deaminase, putative/myoadenylate deaminase, putative similar to SP|P15274 AMP deaminase (EC 3.5.4.6) (Myoadenylate
deaminase) {Saccharomyces cerevisiae}; contains Pfam profile PF00962: Adenosine/AMP deaminase (68415.m04701)
119Not regulatedNC-NC-NC267096_atAt2g38180GDSL-motif lipase/hydrolase family protein similar to SP|P41734 Isoamyl acetate-hydrolyzing esterase (EC 3.1.—.—) {Saccharomyces
cerevisiae}; contains Pfam profile PF00657: Lipase/Acylhydrolase with GDSL-like motif (68415.m04688)
120Not regulatedNC-NC-NC267102_atAt2g41500WD-40 repeat family protein/small nuclear ribonucleoprotein Prp4p-related similar to U4/U6 small nuclear ribonucleoprotein hPrp4
(GP: 2708305) {Homo sapiens}; contains Pfam PF00400: WD domain, G-beta repeat (7
copies)|19877698|gb|AU238529.1|AU238529 (68415.m05127)
121Not regulatedNC-NC-NC267106_s_atAt2g14740vacuolar sorting receptor, putative nearly identical to vacuolar sorting receptor homolog [Arabidopsis thaliana] GI: 1737220; contains
a calcium-binding EGF-like domain signature (68415.m01662)
122Not regulatedNC-NC-NC267057_atAt2g32500expressed protein (68415.m03971)
123Not regulatedNC-NC-NC267059_atAt2g32520dienelactone hydrolase family protein low similarity to dienelactone hydrolase [Pseudomonas resinovorans] GI: 13094163; contains
Pfam profile PF01738: Dienelactone hydrolase family (68415.m03973)
124Not regulatedNC-NC-NC267062_atAt2g32600hydroxyproline-rich glycoprotein family protein similar to SWISS-PROT: Q15428 (68415.m03980)
125Not regulatedNC-NC-NC267063_atAt2g41120expressed protein (68415.m05079)
126Not regulatedNC-NC-NC267064_atAt2g41110calmodulin-2/3/5 (CAM2) (CAL1) almost identical to Calmodulin-2/3/5 SP: P25069 from [Arabidopsis thaliana] (68415.m05078)
127Not regulatedNC-NC-NC267069_atAt2g41010VQ motif-containing protein contains PF05678: VQ motif (68415.m05065)
128Not regulatedNC-NC-NC267073_atAt2g41160ubiquitin-associated (UBA)/TS-N domain-containing protein contains Pfam profile PF00627: UBA/TS-N domain (68415.m05084)
129Not regulatedNC-NC-NC267077_atAt2g40970myb family transcription factor contains Pfam profile: PF00249 myb-like DNA-binding domain (68415.m05060)
130Not regulatedNC-NC-NC267080_atAt2g41190amino acid transporter family protein low similarity to vesicular GABA transporter [Rattus norvegicus] GI: 2587061; belongs to
INTERPRO: IPR002422 amino acid/polyamine transporter, family II (68415.m05087)
131Not regulatedNC-NC-NC267084_atAt2g41180sigA-binding protein-related low similarity to SigA binding protein [Arabidopsis thaliana] GI: 6980074; contains Pfam domain
PF05678: VQ motif (68415.m05086)
132Not regulatedNC-NC-NC267052_atAt2g38410VHS domain-containing protein/GAT domain-containing protein weak similarity to hepatocyte growth factor-regulated tyrosine
kinase substrate HRS isoform 2 [Homo sapiens] GI: 9022389; contains Pfam profiles PF00790: VHS domain, PF03127: GAT
domain (68415.m04718)
133Not regulatedNC-NC-NC267027_atAt2g38330MATE efflux family protein low similarity to enhanced disease susceptibility 5 [Arabidopsis thaliana] GI: 16589070; contains Pfam
profile PF01554: Uncharacterized membrane protein family (68415.m04709)
134Not regulatedNC-NC-NC267033_atAt2g38450expressed protein (68415.m04722)
135Not regulatedNC-NC-NC266996_atAt2g34490cytochrome P450 family protein similar to Cytochrome P450 61 (C-22 sterol desaturase) (SP: P54781) {Saccharomyces cerevisiae};
contains Pfam profile: PF00067 cytochrome P450; supported by full-length cDNA: Ceres: 158108, (68415.m04235)
136Not regulatedNC-NC-NC267000_atAt2g34310expressed protein (68415.m04197)
137Not regulatedNC-NC-NC267002_s_atAt2g34430chlorophyll A-B binding protein/LHCII type I (LHB1B1) identical to photosystem II type I chlorophyll a/b binding protein [Arabidopsis
thaliana] GI: 16366 (68415.m04223)
138Not regulatedNC-NC-NC267004_atAt2g34260transducin family protein/WD-40 repeat family protein similar to Vegetatible incompatibility protein HET-E-1 (SP: Q00808)
{Podospora anserina} (68415.m04191)
139Not regulatedNC-NC-NC266988_atAt2g39310jacalin lectin family protein similar to myrosinase-binding protein homolog [Arabidopsis thaliana] GI: 2997767; contains Pfam profile
PF01419 jacalin-like lectin domain (68415.m04826)
140Not regulatedNC-NC-NC266991_atAt2g39290phosphatidylglycerolphosphate synthase (PGS1) identical to phosphatidylglycerolphosphate synthase GI: 13365519 from
[Arabidopsis thaliana] (68415.m04824)
141Not regulatedNC-NC-NC266963_atAt2g39450cation efflux family protein contains cation efflux family protein domain, Pfam: PF01545 (68415.m04842)
142Not regulatedNC-NC-NC266975_atAt2g39380exocyst subunit EXO70 family protein contains Pfam domain PF03081: Exo70 exocyst complex subunit; (68415.m04833)
143Not regulatedNC-NC-NC266977_atAt2g39420esterase/lipase/thioesterase family protein similar to monoglyceride lipase from [Homo sapiens] GI: 14594904, [Mus musculus]
GI: 2632162; contains Interpro entry IPR000379 (68415.m04839)
144Not regulatedNC-NC-NC266978_atAt2g39430disease resistance-responsive protein-related/dirigent protein-related contains similarity to disease resistance response protein
206-d [Pisum sativum] gi|508844|gb|AAB18669; contains similarity to dirigent protein [Thuja plicata] gi|6694709|gb|AAF25365
(68415.m04840)
145Not regulatedNC-NC-NC266979_atAt2g39470photosystem II reaction center PsbP family protein (68415.m04844)
146Not regulatedNC-NC-NC266938_atAt2g18950homogentisate phytylprenyltransferase family protein (HPT1)/tocopherol phytyltransferase family protein (TPT1) identical to
gi: 17104828; contains Pfam profile PF01040: UbiA prenyltransferase family; identical to cDNA tocopherol polyprenyltransferase
(TPT1) GI: 17104827 (68415.m02212)
147Not regulatedNC-NC-NC266948_atAt2g18850SET domain-containing protein low similarity to ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit N-
methyltransferase I [Spinacia oleracea] GI: 3403236; contains Pfam profile PF00856: SET domain (68415.m02196)
148Not regulatedNC-NC-NC266950_atAt2g16910hydroxyproline-rich glycoprotein family protein (68415.m02206)
149Not regulatedNC-NC-NC266955_atAt2g34520ribosomal protein S14 mitochondrial family protein identical to ribosomal protein S14 {Arabidopsis thaliana} NCBI_gi: 4583554
(68415.m04240)
150Not regulatedNC-NC-NC266956_atAt2g34510expressed protein contains Pfam profile PF04862: Protein of unknown function, DUF642 (68415.m04239)
151Not regulatedNC-NC-NC266958_atAt2g34630geranyl diphosphate synthase, putative/GPPS, putative/dimethylallyltransferase, putative/prenyl transferase, putative identical
to GI: 11322965 A. thaliana geranyl diphosphate synthase (68415.m04254)
152Not regulatedNC-NC-NC266899_atAt2g34620mitochondrial transcription termination factor-related/mTERF-related contains Pfam profile PF02536: mTERF (68415.m04253)
153Not regulatedNC-NC-NC266904_atAt2g34590transketolase family protein similar to SP|O66113 Pyruvate dehydrogenase E1 component, beta subunit (EC 1.2.4.1). {Zymomonas
mobilis}; contains Pfam profiles PF02779: Transketolase, pyridine binding domain, PF02780: Transketolase, C-terminal domain
(68415.m04250)
154Not regulatedNC-NC-NC266911_atAt2g45910protein kinase family protein/U-box domain-containing protein contains Pfam profiles PF00069 Eukaryotic protein kinase domain,
PF04564: U-box domain; supported by tandem duplication of (GI: 3386604) (TIGR_Ath1: At2g45920) [Arabidopsis thaliana]
(68415.m05709)
155Not regulatedNC-NC-NC266924_atAt2g45730eukaryotic initiation factor 3 gamma subunit family protein contains Pfam profile PF04189: Eukaryotic initiation factor 3, gamma
subunit (68415.m05688)
156Not regulatedNC-NC-NC266896_atAt2g45810DEAD/DEAH box helicase, putative (68415.m05697)
157Not regulatedNC-NC-NC266898_atAt2g45990expressed protein (68415.m05718)
158Not regulatedNC-NC-NC266876_atAt2g44820expressed protein (68415.m05578)
159Not regulatedNC-NC-NC266885_atAt2g44610Ras-related GTP-binding protein, putative similar to GTP-binding protein GI: 623586 from [Nicotiana tabacum]; contains an ADP-
ribosylation factors family signature for proteins involved in protein trafficking (68415.m05553)
160Not regulatedNC-NC-NC266887_atAt2g44650chloroplast chaperonin 10 (cpn10) identical to chloroplast chaperonin 10 GI: 14041813 from [Arabidopsis thaliana] (68415.m05557)
161Not regulatedNC-NC-NC266889_atAt2g44640expressed protein (68415.m05556)
162Not regulatedNC-NC-NC266890_atAt2g44620acyl carrier protein, mitochondrial/ACP/NADH-ubiquinone oxidoreductase 9.6 kDa subunit identical to SP|P53665 Acyl carrier
protein, mitochondrial precursor (ACP) (NADH-ubiquinone oxidoreductase 9.6 kDa subunit) (MtACP-1) {Arabidopsis thaliana};
identical to cDNA acyl carrier protein precursor GI: 468285 (68415.m05554)
163Not regulatedNC-NC-NC266838_atAt2g25980jacalin lectin family protein similar to myrosinase-binding protein homolog [Arabidopsis thaliana] GI: 2997767; contains Pfam profile
PF01419 jacalin-like lectin domain (68415.m03120)
164Not regulatedNC-NC-NC266845_atAt2g26110expressed protein (68415.m03133)
165Not regulatedNC-NC-NC266846_atAt2g25970KH domain-containing protein (68415.m03117)
166Not regulatedNC-NC-NC266847_atAt2g26060transducin family protein/WD-40 repeat family protein contains 7 WD-40 repeats (PF00400); similar to WD40-repeat containing
protein Ciao 1 (SP: O76071) [Homo sapiens] (68415.m03129)
167Not regulatedNC-NC-NC266848_atAt2g25950expressed protein (68415.m03115)
168Not regulatedNC-NC-NC266855_atAt2g26920ubiquitin-associated (UBA)/TS-N domain-containing protein contains Pfam profile PF00627; UBA/TS-N domain (68415.m03229)
169Not regulatedNC-NC-NC266861_atAt2g26830choline/ethanolamine kinase family protein similar to SP|Q9HBU6 Ethanolamine kinase (EC 2.7.1.82) (EKI){Homo sapiens},
GmCK3p [Glycine max] GI: 1438883; contains Pfam profile PF01633: Choline/ethanolamine kinase (68415.m03219)
170Not regulatedNC-NC-NC266863_atAt2g269304-diphosphocytidyl-2-C-methyl-D-erythritol kinase (CMK) (CDPMEK) identical to 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase,
chloroplast precursor (CMK) (4-(cytidine-5′-diphospho)-2-C-methyl-D-erythritol kinase)(CDPMEK) [Arabidopsis thaliana] SWISS-
PROT: O81014 (68415.m03230)
171Not regulatedNC-NC-NC266865_atAt2g29980omega-3 fatty acid desaturase, endoplasmic reticulum (FAD3) identical to SP: 48623 (68415.m03646)
172Not regulatedNC-NC-NC266835_atAt2g29990pyridine nucleotide-disulphide oxidoreductase family protein similar to SP|P32340 Rotenone-insensitive NADH-ubiquinone
oxidoreductase, mitochondrial precursor (EC 1.6.5.3) (Internal NADH dehydrogenase) {Saccharomyces cerevisiae}; contains Pfam
profile PF00070: Pyridine nucleotide-disulphide oxidoreductase (68415.m03648)
173Not regulatedNC-NC-NC266806_atAt2g30000expressed protein contains Pfam domain PF03660: Uncharacterised protein family (UPF0123) (68415.m03650)
174Not regulatedNC-NC-NC266813_atAt2g44920thylakoid lumenal 15 kDa protein, chloroplast identical to SP|O22160 Thylakoid lumenal 15 kDa protein, chloroplast precursor (p15)
{Arabidopsis thaliana}; contains 8 pentapeptide repeats (68415.m05591)
175Not regulatedNC-NC-NC266815_atAt2g44900armadillo/beta-catenin repeat family protein/F-box family protein contains similarity to F-box protein FBL2 GI: 6010699 from [Rattus
norvegicus]; contains Pfam profiles PF00514: Armadillo/beta-catenin-like repeat, PF00646: F-box domain (68415.m05589)
176Not regulatedNC-NC-NC266819_atAt2g44870expressed protein (68415.m05586)
177Not regulatedNC-NC-NC266799_atAt2g22860phytosulfokines 2 (PSK2) identical to phytosulfokines 2 (PSK2) from [Arabidopsis thaliana] (68415.m02714)
178Not regulatedNC-NC-NC266790_atAt2g28950expansin, putative (EXP6) similar to expansin GI: 2828241 from [Brassica napus]; contains Pfam profile PF01357: Pollen allergen
(68415.m03521)
179Not regulatedNC-NC-NC266791_atAt2g02960zinc finger (C3HC4-type RING finger) family protein contains Pfam profile PF00097: Zinc finger, C3HC4 type (RING finger);
contains PROSITE PS00190: Cytochrome c family heme-binding site signature (68415.m00244)
180Not regulatedNC-NC-NC266792_atAt2g02860sucrose transporter/sucrose-proton symporter (SUC3) identical to sucrose transporter [Arabidopsis thaliana] GI: 8052190; similar
to sucrose transporters from [Oryza sativa (japonica cultivar-group)] GI: 2723471, [Zea mays] GI: 5771354, [Triticum aestivum]
GI: 19548165; contains Pfam profile PF00083: major facilitator superfamily protein (68415.m00235)
181Not regulatedNC-NC-NC266796_atAt2g02880mucin-related similar to putative mucin GI: 18071389 [Oryza sativa] (68415.m00238)
182Not regulatedNC-NC-NC266770_atAt2g03090expansin, putative (EXP15) identical to SWISS-PROT: O80622 alpha-expansin 15 precursor (At-EXP15)[Arabidopsis thaliana];
alpha-expansin gene family, PMID: 11641069 (68415.m00262)
183Not regulatedNC-NC-NC266744_atAt2g02970nucleoside phosphatase family protein/GDA1/CD39 family protein low similarity to SP|P55772 Ectonucleoside triphosphate
diphosphohydrolase 1 (EC 3.6.1.5) (Ecto-apyrase) {Mus musculus}; contains Pfam profile PF01150: GDA1/CD39 (nucleoside
phosphatase) family (68415.m00249)
184Not regulatedNC-NC-NC266745_atAt2g02950phytochrome kinase substrate 1 (PKS1) identical to Swiss-Prot: Q9SWI1 phytochrome kinase substrate 1 [Arabidopsis thaliana]
(68415.m00242)
185Not regulatedNC-NC-NC266747_atAt2g02870kelch repeat-containing F-box family protein weak similarity to Kelch-like protein 5 (Swiss-Prot: Q96PQ7) [Homo sapiens]; contains
Pfam profiles PF01344: Kelch motif, PF00646: F-box domain (68415.m00237)
186Not regulatedNC-NC-NC266758_atAt2g46920protein phosphatase 2C family protein/PP2C family protein similar to protein phosphatase-2c (GI: 3608412) [Mesembryanthemum
crystallinum]; contains Pfam PF00481: Protein phosphatase 2C domain (68415.m05860)
187Not regulatedNC-NC-NC266761_atAt2g47130short-chain dehydrogenase/reductase (SDR) family protein similar to 3-beta-hydroxysteroiddehydrogenase GI: 15983819 from
[Digitalis lanata] (68415.m05886)
188Not regulatedNC-NC-NC266767_atAt2g46910plastid-lipid associated protein PAP/fibrillin family protein contains Pfam profile PF04755: PAP_fibrillin (68415.m05858)
189Not regulatedNC-NC-NC266768_s_atAt2g47110ubiquitin extension protein 6 (UBQ6)/40S ribosomal protein S27A (RPS27aB) identical to GI: 166936 (68415.m05883)
190Not regulatedNC-NC-NC266735_atAt2g46930pectinacetylesterase, putative similar to pectinacetylesterase precursor GI: 1431629 from [Vigna radiata] (68415.m05862)
191Not regulatedNC-NC-NC266712_atAt2g46750FAD-binding domain-containing protein low similarity to SP|P58710 L-gulonolactone oxidase (EC 1.1.3.8) {Mus musculus}; contains
Pfam profile PF01565: FAD binding domain (68415.m05833)
192Not regulatedNC-NC-NC266716_atAt2g46820expressed protein (68415.m05842)
193Not regulatedNC-NC-NC266720_s_atAt2g46790pseudo-response regulator 9 (APRR9)/timing of CAB expression 1-like protein (TL1) identical to pseudo-response regulator 9
GI: 10281000 from [Arabidopsis thaliana], timing of CAB expression 1-like protein [Arabidopsis thaliana] GI: 9247022; contains Pfam
profile PF00072: Response regulator receiver domain; identical to cDNA timing of CAB expression 1-like protein GI: 9247021
(68415.m05837)
194Not regulatedNC-NC-NC266679_atAt2g03270DNA-binding protein, putative similar to Swiss-Prot: Q60560 DNA-binding protein SMUBP-2 (Immunoglobulin MU binding protein 2)
(SMUBP-2) (Insulin II gene enhancer-binding protein)(RIPE3B-binding complex 3B2 P110 subunit) (RIP-1)[Mesocricetus auratus];
identical to putative helicase (atpc-2 gene) cDNA NCBI_gi: 11191230 (68415.m00280)
195Not regulatedNC-NC-NC266683_atAt2g19950expressed protein contains 2 transmembrane domains; weak similarity to HPSR2-heavy chain potential motor protein (GI: 871048)
[Giardia intestinalis] (68415.m02332)
196Not regulatedNC-NC-NC266685_atAt2g19710expressed protein contains Pfam profile: PF03398 eukaryotic protein of unknown function, DUF292 (68415.m02303)
197Not regulatedNC-NC-NC266687_atAt2g19670protein arginine N-methyltransferase, putative similar to protein arginine N-methyltransferase 1-variant 1 [Homo sapiens]
GI: 7453577 (68415.m02299)
198Not regulatedNC-NC-NC266694_atAt2g19790clathrin adaptor complex small chain family protein contains Pfam profile: PF01217 clathrin adaptor complex small chain
(68415.m02312)
199Not regulatedNC-NC-NC266695_atAt2g19810zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc finger C-x8-C-x5-C-x3-H type (and similar)
(68415.m02316)
200Not regulatedNC-NC-NC266696_atAt2g19680mitochondrial ATP synthase g subunit family protein contains Pfam profile: PF04718 mitochondrial ATP synthase g subunit
(68415.m02300)
201Not regulatedNC-NC-NC266698_atAt2g19830SNF7 family protein contains Pfam domain, PF03357: SNF7 family (68415.m02319)
202Not regulatedNC-NC-NC266699_atAt2g1973060S ribosomal protein L28 (RPL28A) (68415.m02305)
203Not regulatedNC-NC-NC266700_atAt2g1974060S ribosomal protein L31 (RPL31A) (68415.m02306)
204Not regulatedNC-NC-NC266701_atAt2g19760profilin 1 (PRO1) (PFN1) (PRF1)/allergen Ara t 8 identical to profilin 1 (Allergen Ara t 8) SP: Q42449 GI: 1353770 from [Arabidopsis
thaliana] (68415.m02309)
205Not regulatedNC-NC-NC266702_atAt2g19860hexokinase 2 (HXK2) identical to hexokinase 2 [Arabidopsis thaliana] Swiss-Prot: P93834 (68415.m02322)
206Not regulatedNC-NC-NC266704_atAt2g19940semialdehyde dehydrogenase family protein similar to N-acetyl-glutamyl-phosphate reductase [Campylobacter jejuni] GI: 6650362;
contains Pfam profiles PF02774: Semialdehyde dehydrogenase dimerisation domain, PF01118: Semialdehyde dehydrogenase
NAD binding domain (68415.m02330)
207Not regulatedNC-NC-NC266705_atAt2g1975040S ribosomal protein S30 (RPS30A) (68415.m02307)
208Not regulatedNC-NC-NC266678_atAt2g25870haloacid dehalogenase-like hydrolase family protein contains Pfam profiles PF00702: haloacid dehalogenase-like hydrolase,
PF02130: Uncharacterized protein family UPF0054 (68415.m03105)
209Not regulatedNC-NC-NC266648_atAt2g25840tRNA synthetase class I (W and Y) family protein contains Pfam profile: PF00579 tRNA synthetases class I (W and Y)
(68415.m03100)
210Not regulatedNC-NC-NC266649_atAt2g25810tonoplast intrinsic protein, putative similar to tonoplast intrinsic protein GI: 4584429 from [Nicotiana tabacum] (68415.m03097)
211Not regulatedNC-NC-NC266652_atAt2g25750
212Not regulatedNC-NC-NC266657_atAt2g259103′-5′ exonuclease domain-containing protein/K homology domain-containing protein/KH domain-containing protein contains Pfam
profiles PF01612: 3′-5′ exonuclease, PF00013: KH domain (68415.m03109)
213Not regulatedNC-NC-NC266660_atAt2g25920expressed protein (68415.m03110)
214Not regulatedNC-NC-NC266672_atAt2g29650inorganic phosphate transporter, putative similar to brain specific Na+-dependent inorganic phosphate cotransporter [Rattus
norvegicus] GI: 507415; contains Pfam profile PF00083: major facilitator superfamily protein (68415.m03602)
215Not regulatedNC-NC-NC266673_atAt2g29630thiamine biosynthesis family protein/thiC family protein contains Pfam profile: PF01964 ThiC family (68415.m03599)
216Not regulatedNC-NC-NC266646_atAt2g29700pleckstrin homology (PH) domain-containing protein (PH1) identical to AtPH1 [Arabidopsis thaliana] GI: 5926716; contains Pfam
profile PF00169: PH domain (68415.m03610)
217Not regulatedNC-NC-NC266624_s_atAt2g35390ribose-phosphate pyrophosphokinase 1/phosphoribosyl diphosphate synthetase 1 (PRSI) identical to phosphoribosyl diphosphate
synthetase 1 (ribose-phosphate pyrophosphokinase 1 (PRS I) [Arabidopsis thaliana] GI: 633140, SP|Q42581 (68415.m04338)
218Not regulatedNC-NC-NC266635_atAt2g35470expressed protein (68415.m04345)
219Not regulatedNC-NC-NC266639_atAt2g35520defender against cell death 2 (DAD2) identical to defender against cell death 2 (DAD-2, AtDAD2) [Arabidopsis thaliana] SWISS-
PROT: O22622 (68415.m04350)
220Not regulatedNC-NC-NC266641_atAt2g35605SWIB complex BAF60b domain-containing protein contains Pfam profile PF02201: BAF60b domain of the SWIB complex
(68415.m04363)
221Not regulatedNC-NC-NC266642_atAt2g3541033 kDa ribonucleoprotein, chloroplast, putative/RNA-binding protein cp33, putative similar to SP|P19684 33 kDa
ribonucleoprotein, chloroplast precursor {Nicotiana sylvestris}; contains InterPro entry IPR000504: RNA-binding region RNP-1 (RNA
recognition motif) (RRM) (68415.m04340)
222Not regulatedNC-NC-NC266608_atAt2g35500shikimate kinase-related low similarity to shikimate kinase precursor from Lycopersicon esculentum [SP|Q00497] (68415.m04348)
223Not regulatedNC-NC-NC266613_atAt2g14900gibberellin-regulated family protein similar to SP|P46690 Gibberellin-regulated protein 4 precursor {Arabidopsis thaliana} GASA4;
contains Pfam profile PF02704: Gibberellin regulated protein (68415.m01694)
224Not regulatedNC-NC-NC266587_atAt2g14880SWIB complex BAF60b domain-containing protein contains Pfam profile PF02201: BAF60b domain of the SWIB complex
(68415.m01691)
225Not regulatedNC-NC-NC266605_atAt2g46020transcription regulatory protein SNF2, putative similar to SP|P22082 Transcription regulatory protein SNF2 (SWI/SNF complex
component SNF2) {Saccharomyces cerevisiae}; contains Pfam profiles PF00271: Helicase conserved C-terminal domain,
PF00176: SNF2 family N-terminal domain (68415.m05724)
226Not regulatedNC-NC-NC266581_atAt2g46140late embryogenesis abundant protein, putative/LEA protein, putative similar to SP|P46518 Late embryogenesis abundant protein
Lea14-A {Gossypium hirsutum}; contains Pfam profile PF03168: Late embryogenesis abundant protein (68415.m05738)
227Not regulatedNC-NC-NC266582_atAt2g46090diacylglycerol kinase family protein contains INTERPRO domain, IPR001206, DAG-kinase catalytic domain (68415.m05733)
228Not regulatedNC-NC-NC266553_atAt2g46170reticulon family protein (RTNLB5) weak similarity to Nogo-C protein [Rattus norvegicus] GI: 6822251; contains Pfam profile
PF02453: Reticulon (68415.m05741)
229Not regulatedNC-NC-NC266554_s_atAt2g46280eukaryotic translation initiation factor 3 subunit 2/TGF-beta receptor interacting protein 1/eIF-3 beta/eIF3i/TRIP-1 (TIF3I1)
identical to eukaryotic translation initiation factor 3 subunit 2 (SP: Q38684) {Arabidopsis thaliana}; contains Pfam PF00400: WD
domain, G-beta repeat (5 copies) (68415.m05755)
230Not regulatedNC-NC-NC266557_atAt2g46080expressed protein (68415.m05732)
231Not regulatedNC-NC-NC266566_atAt2g24040hydrophobic protein, putative/low temperature and salt responsive protein, putative similar to SP|Q9ZNQ7 Hydrophobic protein
RCI2A (Low temperature and salt responsive protein LTI6A) {Arabidopsis thaliana}; contains Pfam profile PF01679:
Uncharacterized protein family (68415.m02872)
232Not regulatedNC-NC-NC266572_atAt2g23840HNH endonuclease domain-containing protein contains Pfam profile PF01844: HNH endonuclease (68415.m02848)
233Not regulatedNC-NC-NC266575_atAt2g24060translation initiation factor 3 (IF-3) family protein similar to SP|P33319 Translation initiation factor IF-3 {Proteus vulgaris}; contains
Pfam profiles PF00707: Translation initiation factor IF-3, C-terminal domain, PF05198: Translation initiation factor IF-3, N-terminal
domain (68415.m02874)
234Not regulatedNC-NC-NC266576_atAt2g23940expressed protein contains 2 transmembrane domains; contains Pfam profile PF05620: Protein of unknown function (DUF788)
(68415.m02858)
235Not regulatedNC-NC-NC266520_atAt2g23980cyclic nucleotide-regulated ion channel/cyclic nucleotide-gated channel (CNGC6) identical to cyclic nucleotide and calmodulin-
regulated ion channel (cngc6) GI: 4581207 from [Arabidopsis thaliana] (68415.m02863)
236Not regulatedNC-NC-NC266521_atAt2g24020expressed protein contains Pfam domain PF02575: Uncharacterized BCR, YbaB family COG0718 (68415.m02869)
237Not regulatedNC-NC-NC266534_atAt2g16940RNA recognition motif (RRM)-containing protein (68415.m01952)
238Not regulatedNC-NC-NC266536_atAt2g16900expressed protein (68415.m01946)
239Not regulatedNC-NC-NC266537_atAt2g16860GCIP-interacting family protein similar to GCIP-interacting protein mp29 (GI: 27372623) [Mus musculus]; similar to GCIP-interacting
protein P29 (GI: 11967379) [Homo sapiens] (68415.m01939)
240Not regulatedNC-NC-NC266541_atAt2g35110HEM protein-related weak similarity to Membrane-associated protein Hem (Dhem-2) (Swiss-Prot: P55162) [Drosophila
melanogaster]; weak similarity to Nck-associated protein 1 (NAP 1) (p125Nap1) (Membrane-associated protein HEM-2) (Swiss-
Prot: P55161)[Rattus norvegicus] (68415.m04307)
241Not regulatedNC-NC-NC266546_atAt2g35270DNA-binding protein-related contains Pfam domain PF03479: Domain of unknown function (DUF296), found in AT-hook motifs
Pfam: PF02178 (68415.m04326)
242Not regulatedNC-NC-NC266547_atAt2g35320expressed protein (68415.m04331)
243Not regulatedNC-NC-NC266551_atAt2g35260expressed protein (68415.m04325)
244Not regulatedNC-NC-NC266517_atAt2g35120glycine cleavage system H protein, mitochondrial, putative similar to SP|Q39732 Glycine cleavage system H protein, mitochondrial
precursor {Flaveria anomala}; contains Pfam profile PF01597: Glycine cleavage H-protein (68415.m04308)
245Not regulatedNC-NC-NC266519_atAt2g35155expressed protein (68415.m04312)
246Not regulatedNC-NC-NC266509_atAt2g47940DegP2 protease (DEGP2) identical to DegP2 protease GI: 13172275 from [Arabidopsis thaliana]; identical to cDNA DegP2 protease
(DEGP2) nuclear gene for chloroplast product GI: 13172274 (68415.m05995)
247Not regulatedNC-NC-NC266510_atAt2g47990transducin family protein/WD-40 repeat family protein similar to Vegetatible incompatibility protein HET-E-1 (SP: Q00808)
{Podospora anserina}; contains 5 WD-40 repeats (PF00400); similar to beta transducin-like protein HET-E2C*4
(GP: 17225206)[Podospora anserina] (68415.m06006)
248Not regulatedNC-NC-NC266512_atAt2g47690NADH-ubiquinone oxidoreductase-related contains weak similarity to NADH-ubiquinone oxidoreductase 15 kDa subunit (EC
1.6.5.3) (EC 1.6.99.3) (Complex I-15 kDa) (CI-15 kDa) (Swiss-Prot: O43920) [Homo sapiens (68415.m05956)
249Not regulatedNC-NC-NC266513_atAt2g47700zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type(RING finger)
(68415.m05957)
250Not regulatedNC-NC-NC266514_atAt2g47890zinc finger (B-box type) family protein (68415.m05981)
251Not regulatedNC-NC-NC266482_atAt2g47640small nuclear ribonucleoprotein D2, putative/snRNP core protein D2, putative/Sm protein D2, putative similar to small nuclear
ribonucleoprotein Sm D2 (snRNP core protein D2) (Sm-D2) [Mus musculus] SWISS-PROT: P43330 (68415.m05944)
252Not regulatedNC-NC-NC266483_atAt2g47910expressed protein (68415.m05987)
253Not regulatedNC-NC-NC266485_atAt2g47630esterase/lipase/thioesterase family protein similar to monoglyceride lipase from [Homo sapiens] GI: 14594904, [Mus musculus]
GI: 2632162; contains Interpro entry IPR000379 (68415.m05942)
254Not regulatedNC-NC-NC266459_atAt2g47970NPL4 family protein contains Pfam domain, PF05021: NPL4 family (68415.m06001)
255Not regulatedNC-NC-NC266460_atAt2g47930hydroxyproline-rich glycoprotein family protein contains proline-rich extensin domains, INTERPRO: IPR002965 (68415.m05993)
256Not regulatedNC-NC-NC266468_atAt2g47960expressed protein (68415.m05999)
257Not regulatedNC-NC-NC266474_atAt2g31110expressed protein (68415.m03799)
258Not regulatedNC-NC-NC266476_atAt2g31090expressed protein (68415.m03797)
259Not regulatedNC-NC-NC266478_atAt2g31170tRNA synthetase class I (C) family protein similar to cysteine-tRNA ligase [Escherichia coli] GI: 41203: contains Pfam profile
PF01406: tRNA synthetases class I (C) (68415.m03805)
260Not regulatedNC-NC-NC266481_atAt2g31070TCP family transcription factor, putative similar to TCP1 protein (GI: 20269127) {Lupinus albus} and cycloidea (GI: 12002867)
[Lycopersicon esculentum] (68415.m03791)
261Not regulatedNC-NC-NC266445_atAt2g43105
262Not regulatedNC-NC-NC266449_atAt2g43080oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to prolyl 4-hydroxylase, alpha subunit, from Homo sapiens
[GI: 18073925]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain (68415.m05346)
263Not regulatedNC-NC-NC266451_atAt2g43090aconitase C-terminal domain-containing protein contains Pfam profile PF00694: Aconitase C-terminal domain (68415.m05348)
264Not regulatedNC-NC-NC266394_atAt2g43130Ras-related protein (ARA-4)/small GTP-binding protein, putative identical to SP: P28187 Ras-related protein ARA-4 {Arabidopsis
thaliana} (68415.m05356)
265Not regulatedNC-NC-NC266407_atAt2g38560transcription factor S-II (TFIIS) domain-containing protein similar to SP|P49373 Transcription elongation factor S-II (TFIIS)
{Schizosaccharomyces pombe}; contains Pfam profile PF01096: Transcription factor S-II (TFIIS) (68415.m04737)
266Not regulatedNC-NC-NC266410_atAt2g38770expressed protein (68415.m04760)
267Not regulatedNC-NC-NC266413_atAt2g38740haloacid dehalogenase-like hydrolase family protein similar to SP|P71447 Beta-phosphoglucomutase (EC 5.4.2.6) {Lactococcus
lactis}; contains InterPro accession IPR005834: Haloacid dehalogenase-like hydrolase (68415.m04757)
268Not regulatedNC-NC-NC266417_atAt2g38550expressed protein contains Pfam profile PF03647: Uncharacterised protein family (UPF0136) (68415.m04736)
269Not regulatedNC-NC-NC266418_atAt2g38750annexin 4 (ANN4) nearly identical to annexin (AnnAt4) [Arabidopsis thaliana] GI: 6503084; contains Pfam profile PF00191: Annexin
(68415.m04758)
270Not regulatedNC-NC-NC266421_atAt2g38540nonspecific lipid transfer protein 1 (LTP1) identical to SP|Q42589 (68415.m04735)
271Not regulatedNC-NC-NC266363_atAt2g41250haloacid dehalogenase-like hydrolase family protein low similarity to SP|Q94915 Rhythmically expressed gene 2 protein (DREG-2)
[Drosophila melanogaster); contains InterPro accession IPR005834: Haloacid dehalogenase-like hydrolase (68415.m05094)
272Not regulatedNC-NC-NC266370_atAt2g41350expressed protein (68415.m05104)
273Not regulatedNC-NC-NC266356_atAt2g32300uclacyanin I identical to uclacyanin I GI: 3399767 from [Arabidopsis thaliana]; contains Pfam profile PF02298: Plastocyanin-like
domain; identical to cDNA uclacyanin I GI: 3399766 (68415.m03949)
274Not regulatedNC-NC-NC266359_atAt2g32260cholinephosphate cytidylyltransferase, putative/phosphorylcholine transferase, putative/CTP: phosphocholine cytidylyltransferase,
putative strong similarity to CTP: phosphocholine cytidylyltransferase [Brassica napus] GI: 1418125; contains Pfam profile PF01467:
Cytidylyltransferase (68415.m03943)
275Not regulatedNC-NC-NC266334_atAt2g32380expressed protein (68415.m03957)
276Not regulatedNC-NC-NC266342_atAt2g01540C2 domain-containing protein similar to zinc finger and C2 domain protein GI: 9957238 from [Arabidopsis thaliana] (68415.m00078)
277Not regulatedNC-NC-NC266345_atAt2g01410hypothetical protein (68415.m00060)
278Not regulatedNC-NC-NC266328_atAt2g01600epsin N-terminal homology (ENTH) domain-containing protein contains Pfam PF01417: ENTH domain. ENTH (Epsin N-terminal
homology) domain; similar to clathrin assembly protein AP180 (GI: 6492344) [Xenopus laevis] (68415.m00084)
279Not regulatedNC-NC-NC266329_atAt2g01590expressed protein (68415.m00083)
280Not regulatedNC-NC-NC266331_atAt2g01570gibberellin response modulator (RGA1)/gibberellin-responsive modulator identical to GB: Y11338, member of SCARECROW
family (68415.m00081)
281Not regulatedNC-NC-NC266300_atAt2g01420auxin transport protein, putative similar to auxin transport protein PIN7[Arabidopsis thaliana] gi|5817305|gb|AAD52697
(68415.m00062)
282Not regulatedNC-NC-NC266303_atAt2g27060leucine-rich repeat transmembrane protein kinase, putative (68415.m03251)
283Not regulatedNC-NC-NC266306_atAt2g26970exonuclease family protein contains exonuclease domain, Pfam: PF00929 (68415.m03235)
284Not regulatedNC-NC-NC266310_atAt2g26990COP9 signalosome complex subunit 2/CSN complex subunit 2 (CSN2) proteasome, COP9-complex and elF3-domain protein:
identical to CSN complex subunit 2 [Arabidopsis thaliana] GI: 18056655; identical to cDNA CSN complex subunit 2 (CSN2)
GI: 18056654 (68415.m03241)
285Not regulatedNC-NC-NC266314_atAt2g27040PAZ domain-containing protein/piwi domain-containing protein similar to SP|Q9QZ81 Eukaryotic translation initiation factor 2C 2
{Rattus norvegicus}; contains Pfam profiles PF02171: Piwi domain, PF02170: PAZ domain (68415.m03249)
286Not regulatedNC-NC-NC266315_atAt2g27100C2H2 zinc-finger protein SERRATE (SE) identical to C2H2 zinc-finger protein SERRATE GI: 14488602 from [Arabidopsis thaliana]
(68415.m03256)
287Not regulatedNC-NC-NC266317_atAt2g27030calmodulin-2/3/5 (CAM5) (TCH1) identical to calmodulin GI: 474183 from [Arabidopsis thaliana]. SP|P25069 Calmodulin-2/3/5
{Arabidopsis thaliana} (68415.m03245)
288Not regulatedNC-NC-NC266319_s_atAt2g46720fatty acid elongase 3-ketoacyl-CoA synthase, putative similar to GI: 4091810; contains Pfam profile PF02797: Chalcone and
stilbene synthases, C-terminal domain (68415.m05829)
289Not regulatedNC-NC-NC266322_atAt2g46690auxin-responsive family protein similar to indole-3-acetic acid induced protein ARG7 (SP: P32295) [Phaseolus aureus]
(68415.m05826)
290Not regulatedNC-NC-NC266271_atAt2g29440glutathione S-transferase, putative (68415.m03577)
291Not regulatedNC-NC-NC266275_atAt2g29370tropinone reductase, putative/tropine dehydrogenase, putative similar to SP|P50162 Tropinone reductase-I (EC 1.1.1.206) (TR-I)
(Tropine dehydrogenase) {Datura stramonium} (68415.m03568)
292Not regulatedNC-NC-NC266277_atAt2g29310tropinone reductase, putative/tropine dehydrogenase, putative similar to tropinone reductase SP: P50165 from [Datura
stramonium] (68415.m03560)
293Not regulatedNC-NC-NC266279_atAt2g29290tropinone reductase, putative/tropine dehydrogenase, putative similar to tropinone reductase SP: P50165 from [Datura
stramonium] (68415.m03558)
294Not regulatedNC-NC-NC266285_atAt2g29180expressed protein (68415.m03547)
295Not regulatedNC-NC-NC266289_atAt2g29390sterol 4-alpha-methyl-oxidase 1 (SMO1) nearly identical to sterol 4-alpha-methyl-oxidase GI: 18973469 from [Arabidopsis thaliana];
identical to cDNA sterol 4-alpha-methyl-oxidase (SMO) partial cds, GI: 16973431 (68415.m03570)
296Not regulatedNC-NC-NC266291_atAt2g29320tropinone reductase, putative/tropine dehydrogenase, putative similar to tropinone reductase SP: P50165 from [Datura
stramonium] (68415.m03561)
297Not regulatedNC-NC-NC266293_atAt2g29360tropinone reductase, putative/tropine dehydrogenase, putative similar to tropinone reductase SP: P50165 from [Datura
stramonium] (68415.m03567)
298Not regulatedNC-NC-NC266237_atAt2g29540DNA-directed RNA polymerase I(A) and III(C) 14 kDa subunit (RPAC14) identical to RNA polymerase I(A) and III(C) 14 kDa subunit
(AtRPAC14) [Arabidopsis thaliana] GI: 1184686 (68415.m03588)
299Not regulatedNC-NC-NC266238_atAt2g29400serine/threonine protein phosphatase PP1 isozyme 1 (TOPP1)/phosphoprotein phosphatase 1 identical to SP|P30366|
Serine/threonine protein phosphatase PP1 isozyme 1 (EC 3.1.3.16) {Arabidopsis thaliana}, phosphoprotein phosphatase 1
GI: 166572 [Arabidopsis thaliana] (68415.m03573)
300Not regulatedNC-NC-NC266239_atAt2g29530mitochondrial import inner membrane translocase (TIM10) identical to mitochondrial import inner membrane translocase subunit
Tim10 [Arabidopsis thaliana] Swiss-Prot: Q9ZW33; contains Pfam domain, PF02953: Tim10/DDP family zinc finger (68415.m03587)
301Not regulatedNC-NC-NC266247_atAt2g27660DC1 domain-containing protein contains Pfam profile PF03107: DC1 domain (68415.m03352)
302Not regulatedNC-NC-NC266253_atAt2g27840histone deacetylase-related/HD-related similar to nucleolar histone deacetylase HD2-p39 [Zea mays] GI: 2257756; contains non-
consensus donor splice site AT at exon2 and acceptor splice site AC at exon3. (68415.m03375)
303Not regulatedNC-NC-NC266257_atAt2g27820prephenate dehydratase family protein (68415.m03373)
304Not regulatedNC-NC-NC266260_atAt2g27600AAA-type ATPase family protein/vacuolar sorting protein-related similar to SP|P46467 SKD1 protein (Vacuolar sorting protein 4b)
{Mus musculus}; contains Pfam profiles PF00004: ATPase AAA family, PF04212: MIT domain (68415.m03346)
305Not regulatedNC-NC-NC266261_atAt2g27580zinc finger (AN1-like) family protein contains Pfam domains, PF01428: AN1-like Zinc finger and PF01754: A20-like zinc finger
(68415.m03342)
306Not regulatedNC-NC-NC266206_atAt2g27730expressed protein contains 1 transmembrane domain; similar to Unknown mitochondrial protein At2g27730 (Swiss-Prot: Q9ZUX4)
[Arabidopsis thaliana] similar to F1F0-ATPase inhibitor protein (GI: 5821432) [Oryza sativa) (68415.m03361)
307Not regulatedNC-NC-NC266216_atAt2g28810Dof-type zinc finger domain-containing protein similar to zinc finger protein OBP2 GI: 5059394 from [Arabidopsis thaliana]
(68415.m03503)
308Not regulatedNC-NC-NC266221_atAt2g28780NAD-dependent epimerase/dehydratase family protein similar to UDP-glucuronic acid decarboxylase Uxs1p from Filobasidiella
neoformans GI: 14318327: contains Pfam profile PF01370 NAD dependent epimerase/dehydratase family (68415.m03497)
309Not regulatedNC-NC-NC266223_atAt2g28790osmotin-like protein, putative similar to SP|Q41350 Osmotin-like protein precursor {Lycopersicon esculentum}; contains Pfam profile
PF00314: Thaumatin family (68415.m03500)
310Not regulatedNC-NC-NC266224_atAt2g28800chloroplast membrane protein (ALBINO3) Oxa1p homolog {PMID: 11148275}; identical to chloroplast membrane protein ALBINO3
[Arabidopsis thaliana] GI: 2209332 (68415.m03501)
311Not regulatedNC-NC-NC266228_atAt2g28910CAX-interacting protein 4 (CAXIP4) contains Pfam domain PF00098: Zinc knuckle; identical to cDNA CAX-interacting protein 4
GI: 27651998 (68415.m03513)
312Not regulatedNC-NC-NC266229_atAt2g28840ankyrin repeat family protein contains ankyrin repeats, Pfam: PF00023 (68415.m03506)
313Not regulatedNC-NC-NC266202_atAt2g02400cinnamoyl-CoA reductase family similar to cinnamoyl-CoA reductase from Pinus taeda [GI: 17978649], Eucalyptus gunnii
[GI: 2058311] (68415.m00180)
314Not regulatedNC-NC-NC266180_atAt2g02470PHD finger family protein contains Pfam domain, PF00628: PHD-finger (68415.m00186)
315Not regulatedNC-NC-NC266181_atAt2g02390glutathione S-transferase zeta 1 (GSTZ1) (GST18) identical to SP|Q9ZVQ3|GTZ1_ARATH Glutathione S-transferase zeta-class 1
(EC 2.5.1.18) (AIGSTZ1) (Maleylacetone isomerase) (EC 5.2.1.—) (MAI) {Arabidopsis thallium}; contains Pfam profiles PF02798:
Glutathione S-transferase, N-terminal domain and PF00043: Glutathione S-transferase, C-terminal domain (68415.m00177)
316Not regulatedNC-NC-NC266188_atAt2g39000GCN5-related N-acetyltransferase (GNAT) family protein contains Pfam profile PF00583: acetyltransferase, GNAT family
(68415.m04793)
317Not regulatedNC-NC-NC266189_atAt2g39020GCN5-related N-acetyltransferase (GNAT) family protein similar to SP|Q9SMB8 Tyramine N-feruloyltransferase 4/11 (EC 2.3.1.110)
(Hydroxycinnamoyl-CoA: tyramine N-hydroxycinnamoyltransferase) {Nicotiana tabacum}; contains Pfam profile PF00583:
acetyltransferase, GNAT family (68415.m04797)
318Not regulatedNC-NC-NC266192_atAt2g39070
319Not regulatedNC-NC-NC266193_atAt2g39080expressed protein (68415.m04802)
320Not regulatedNC-NC-NC266168_atAt2g38870protease inhibitor, putative similar to SP|P24076 Glu S. griseus protease inhibitor (BGIA) {Momordica charantia}; contains Pfam
profile PF00280: Potato inhibitor I family (68415.m04776)
321Not regulatedNC-NC-NC266158_atAt2g28070ABC transporter family protein (68415.m03408)
322Not regulatedNC-NC-NC266165_atAt2g28190superoxide dismutase [Cu—Zn], chloroplast (SODCP)/copper/zinc superoxide dismutase (CSD2) identical to
GP: 3273753: AF061519 (68415.m03423)
323Not regulatedNC-NC-NC266138_atAt2g28060protein kinase-related similar to GAL83 protein [Solanum tuberosum] GI: 5702015; contains Pfam profile PF04739: 5′-AMP-
activated protein kinase, beta subunit, complex-interacting region; supporting cDNA gi|22652783|gb|AF491295.1| (68415.m03406)
324Not regulatedNC-NC-NC266117_atAt2g02170remorin family protein contains Pfam domain, PF03763: Remorin, C-terminal region (68415.m00153)
325Not regulatedNC-NC-NC266118_atAt2g02130plant defensin-fusion protein, putative (PDF2.3) plant defensin protein family member, personal communication, Bart Thomma
(Bart. Thomma@agr.kuleuven.ac.be) (68415.m00149)
326Not regulatedNC-NC-NC266119_atAt2g02100plant defensin-fusion protein, putative (PDF2.2) plant defensin protein family member, personal communication, Bart Thomma
(Bart.Thomma@agr.kuleuven.ac.be); similar to SWISS-PROT: O65740 (68415.m00146)
327Not regulatedNC-NC-NC266120_atAt2g02070zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger, C2H2 type (68415.m00143)
328Not regulatedNC-NC-NC266121_atAt2g02160zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc forger C-x8-C-x5-C-x3-H type (and similar)
(68415.m00152)
329Not regulatedNC-NC-NC266123_atAt2g45180protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to 14 kDa polypeptide [Catharanthus roseus]
GI: 407410; contains Pfam protease inhibitor/seed storage/LTP family domain PF00234 (68415.m05625)
330Not regulatedNC-NC-NC266137_atAt2g45010expressed protein weak similarity to PGPS/D12 [Petunia x hybrida] GI: 4105794; contains Pfam profile PF04749: Protein of
unknown function, DUF614 (68415.m05604)
331Not regulatedNC-NC-NC266103_atAt2g45140vesicle-associated membrane protein, putative/VAMP, putative similar to VAP27 GI: 6688926 [Nicotiana plumbaginifolia]
(68415.m05616)
332Not regulatedNC-NC-NC266079_atAt2g37860expressed protein (68415.m04647)
333Not regulatedNC-NC-NC266090_atAt2g38000chaperone protein dnaJ-related weak similarity to Chaperone protein dnaJ (Swiss-Prot: Q9ZFC5) [Methylovorus sp.]
(68415.m04664)
334Not regulatedNC-NC-NC266094_atAt2g37975expressed protein (68415.m04661)
335Not regulatedNC-NC-NC266095_atAt2g380503-oxo-5-alpha-steroid 4-dehydrogenase, putative/steroid 5-alpha-reductase, putative identical to gi: 1280611; contains a steroid 5-
alpha reductase, C-terminal domain (68415.m04671)
336Not regulatedNC-NC-NC266096_atAt2g38020vacuoleless1 (VCL1) contains Pfam profiles: PF04841 Vps16, N-terminal region, PF04840: Vps16, C-terminal region; identical to
cDNA VCL1 (VCL1) GI: 13877132 (68415.m04667)
337Not regulatedNC-NC-NC266101_atAt2g37940expressed protein (68415.m04657)
338Not regulatedNC-NC-NC266057_atAt2g40660tRNA-binding region domain-containing protein similar to SP|Q12904 Multisynthetase complex auxiliary component p43 [Contains;
Endothelial-monocyte activating polypeptide li (EMAP-II) (Small inducible cytokine subfamily E member 1)] {Homo sapiens};
contains Pfam profile PF01588: Putative tRNA binding domain (68415.m05017)
339Not regulatedNC-NC-NC266059_atAt2g40765expressed protein (68415.m05029)
340Not regulatedNC-NC-NC266062_atAt2g18730diacylglycerol kinase, putative contains INTERPRO domain, IPR001206, DAG-kinase catalytic domain (68415.m02181)
341Not regulatedNC-NC-NC266073_atAt2g18770expressed protein (68415.m02185)
342Not regulatedNC-NC-NC266074_atAt2g18740small nuclear ribonucleoprotein E, putative/snRNP-E, putative/Sm protein E, putative similar to SWISS-PROT: P08578 small
nuclear ribonucleoprotein E (snRNP-E) (Sm protein E, Sm-E, SmE) [Chicken] (68415.m02182)
343Not regulatedNC-NC-NC266017_atAt2g18690expressed protein (68415.m02177)
344Not regulatedNC-NC-NC266018_atAt2g18710preprotein translocase secY subunit, chloroplast (CpSecY) Identical to SP|Q38885 Preprotein translocase secY subunit, chloroplast
precursor (CpSecY) {Arabidopsis thaliana} (68415.m02179)
345Not regulatedNC-NC-NC266035_atAt2g05990enoyl-[acyl-carrier protein] reductase [NADH], chloroplast, putative/NADH-dependent enoyl-ACP reductase, putative strong
similarity to enoyl-[acyl-carrier protein] reductase [NADH] SP: P80030 from [Brassica napus] (68415.m00651)
346Not regulatedNC-NC-NC266038_s_atAt2g0584020S proteasome alpha subunit A2 (PAA2) identical to GB: AF043519 (68415.m00632)
347Not regulatedNC-NC-NC266037_atAt2g05940protein kinase, putative similar to auxin-regulated dual specificity cytosolic kinase [Lycopersicon esculentum]
gi|14484938|gb|AAK62821 (68415.m00645)
348Not regulatedNC-NC-NC266015_atAt2g24190short-chain dehydrogenase/reductase (SDR) family protein contains INTERPRO family IPR002198 short-chain
dehydrogenase/reductase (SDR) superfamily (68415.m02890)
349Not regulatedNC-NC-NC265990_atAt2g24280serine carboxypeptidase S2B family protein contains Pfam profile: PF05577 Serine carboxypeptidase S2B (68415.m02901)
350Not regulatedNC-NC-NC265998_atAt2g24270NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative similar to NADP-dependent glyceraldehyde-3-phosphate
dehydrogenase (NON-phosphorylating glyceraldehyde 3-phosphate; glyceraldehyde-3-phosphate dehydrogenase [NADP+])
[Nicotiana plumbaginifolia] SWISS-PROT: P93338 (68415.m02899)
351Not regulatedNC-NC-NC265999_atAt2g24100expressed protein (68415.m02879)
352Not regulatedNC-NC-NC266000_atAt2g24180cytochrome P450 family protein (68415.m02889)
353Not regulatedNC-NC-NC266001_atAt2g24150expressed protein contains Pfam profile PF03006: Uncharacterised protein family (Hly-III/UPF0073) (68415.m02885)
354Not regulatedNC-NC-NC265953_atAt2g37490
355Not regulatedNC-NC-NC265958_atAt2g37250adenylate kinase family protein contains Pfam profile: PF00406 adenylate kinase (68415.m04570)
356Not regulatedNC-NC-NC265959_atAt2g37240expressed protein weak similarity to fmHP (GI: 22902096) [Takifugu rubripes] (68415.m04569)
357Not regulatedNC-NC-NC265960_atAt2g37470histone H2B, putative strong similarity to histone H2B from Lycopersicon esculentum GI: 3021483, GI: 3021485, Capsicum annuum
SP|O49118; contains Pfam profile PF00125 Core histone H2A/H2B/H3/H4 (68415.m04596)
358Not regulatedNC-NC-NC265962_atAt2g37460nodulin MtN21 family protein similar to MtN21 GI: 2598575 (root nodule development) from [Medicago truncatula] (68415.m04595)
359Not regulatedNC-NC-NC265963_s_atAt2g3727040S ribosomal protein S5 (RPS5A) identical to GP: 3043428 (68415.m04572)
360Not regulatedNC-NC-NC265965_atAt2g37500arginine biosynthesis protein ArgJ family contains Pfam profile: PF01960 ArgJ family (68415.m04599)
361Not regulatedNC-NC-NC265966_atAt2g3722029 kDa ribonucleoprotein, chloroplast, putative/RNA-binding protein cp29, putative similar to SP|Q43349 29 kDa
ribonucleoprotein, chloroplast precursor (RNA-binding protein cp29) {Arabidopsis thaliana} (68415.m04566)
362Not regulatedNC-NC-NC265968_atAt2g37410mitochondrial import inner membrane translocase (TIM17) nearly identical to SP|Q9SP35 Mitochondrial import inner membrane
translocase subunit TIM17 {Arabidopsis thaliana} (68415.m04587)
363Not regulatedNC-NC-NC265930_atAt2g18510pre-mRNA splicing factor, putative similar to SP|Q15427 Splicing factor 3B subunit 4 (Spliceosome associated protein 49) (SAP 49)
(SF3b50) (Pre-mRNA splicing factor SF3b 49 kDa subunit) {Homo sapiens}; contains Pfam profile PF00076: RNA recognition motif.
(a.k.a. RRM, RBD, or RNP domain) (68415.m02157)
364Not regulatedNC-NC-NC265940_atAt2g19480nucleosome assembly protein (NAP), putative similar to nucleosome assembly protein 1 [Glycine max] GI: 1161252; contains Pfam
profile PF00956: Nudeosome assembly protein (NAP) (68415.m02277)
365Not regulatedNC-NC-NC265943_atAt2g19570cytidine deaminase (CDD)/cytidine aminohydrolase identical to cytidine deaminase (CDD) [Arabidopsis thaliana] GI: 3046700
(68415.m02286)
366Not regulatedNC-NC-NC265947_atAt2g19540transducin family protein/WD-40 repeat family protein contains WD-40 repeats (PF00400); similar to Glutamate-rich WD repeat
protein (GRWD) (SP: Q9BQ67)[Homo sapiens] (68415.m02283)
367Not regulatedNC-NC-NC265918_atAt2g15090fatty acid elongase, putative similar to fatty acid elongase 1 [GI: 881615] (68415.m01720)
368Not regulatedNC-NC-NC265920_s_atAt2g15120
369Not regulatedNC-NC-NC265894_atAt2g15050lipid transfer protein, putative similar to SP|Q42641 nonspecific lipid-transfer protein A precursor (LTP A) (Wax-associated protein
9A) {Brassica oleracea}; contains Pfam Protease inhibitor/seed storage/LTP family domain PF00234 (68415.m01714)
370Not regulatedNC-NC-NC265895_atAt2g15000expressed protein (68415.m01707)
371Not regulatedNC-NC-NC265909_atAt2g25720expressed protein (68415.m03083)
372Not regulatedNC-NC-NC265911_atAt2g25670expressed protein (68415.m03076)
373Not regulatedNC-NC-NC265887_atAt2g25710holocarboxylase synthetase 1 (HCS1) identical to holocarboxylase synthetase 1 (hcs1) [Arabidopsis thaliana] GI: 19698365
(68415.m03081)
374Not regulatedNC-NC-NC265858_atAt2g01720ribophorin I family protein similar to SP|P04843 Dolichyl-diphosphooligosaccharide-protein glycosyltransferase 67 kDa subunit
precursor (EC 2.41.119) (Ribophorin I) {Homo sapiens}; contains Pfam profile PF04597: Ribophorin I (68415.m00100)
375Not regulatedNC-NC-NC265866_atAt2g01710DNAJ heat shock N-terminal domain-containing protein simlar to AHM1 [Triticum aestivum] GI: 6691467; contains Pfam profile
PF00226: DnaJ domain (68415.m00099)
376Not regulatedNC-NC-NC265867_atAt2g01620expressed protein (68415.m00088)
377Not regulatedNC-NC-NC265868_atAt2g01650zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger. C2H2 type (68415.m00091)
378Not regulatedNC-NC-NC265874_atAt2g01640expressed protein (68415.m00090)
379Not regulatedNC-NC-NC265683_atAt2g42310expressed protein (68415.m05237)
380Not regulatedNC-NC-NC265852_atAt2g42350zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097; Zinc finger, C3HC4 type (RING finger)
(68415.m05241)
381Not regulatedNC-NC-NC265855_atAt2g42390protein kinase C substrate, heavy chain-related similar to Protein kinase C substrate, 80 kDa protein, heavy chain (PKCSH) (80K-H
protein) (Swiss-Prot: P14314) [Homo sapiens]; contains 1 transmembrane domain; (68415.m05246)
382Not regulatedNC-NC-NC265857_s_atAt2g42500serine/threonine protein phosphatase PP2A-3 catalytic subunit (PP2A3) identical to SP|Q07100 Serine/threonine protein
phosphatase PP2A-3 catalytic subunit (EC 3.1.3.18) {Arabidopsis thaliana}; contains Pfam profile PF00149: Ser/Thr protein
phosphatase (68415.m05258)
383Not regulatedNC-NC-NC265844_atAt2g35620leucine-rich repeat transmembrane protein kinase, putative similar to somatic embryogenesis receptor-like kinase 1 (SERK1) [Zea
mays] gi|13897318|emb|CAC37640; contains leucine rich repeat (LRR) domains, Pfam: PF00560; contains protein kinase domain,
Pfam: PF00069 (68415.m04368)
384Not regulatedNC-NC-NC265825_atAt2g35635ubiquitin family protein contains INTERPRO: IPR000626 ubiquitin domain (68415.m04370)
385Not regulatedNC-NC-NC265826_atAt2g35795DNAJ heat shock N-terminal domain-containing protein contains Pfam profile PF00226 DnaJ domain (68415.m04394)
serine carboxypeptidase S10 family protein similar to Serine carboxypeptidase II chains A and B (SP: P08819) (EC 3.4.16.6)
386Not regulatedNC-NC-NC265795_atAt2g35780[Triticum aestivum (Wheat)]; (68415.m04390)
387Not regulatedNC-NC-NC265798_atAt2g35790expressed protein (68415.m04392)
388Not regulatedNC-NC-NC265800_atAt2g35630microtubule organization 1 protein (MOR1) identical to microtubule organization 1 protein GI: 14317953 from [Arabidopsis thaliana]
(68415.m04369)
389Not regulatedNC-NC-NC265805_s_atAt2g1802060S ribosomal protein L8 (RPL8A) (68415.m02094)
390Not regulatedNC-NC-NC265810_atAt2g18090PHD finger family protein/SWIB complex BAF60b domain-containing protein/GYF domain-containing protein contains Pfam
profiles PF02201: BAF60b domain of the SWIB complex, PF02213: GYF domain, PF00628: PHD-finger (68415.m02103)
391Not regulatedNC-NC-NC265816_s_atAt2g18110elongation factor 1-beta, putative/EF-1-beta, putative nearly identical to eEF-1beta [Arabidopsis thaliana] GI: 398606
(68415.m02105)
392Not regulatedNC-NC-NC265818_atAt2g18040peptidyl-prolyl cis-trans isomerase (PIN1)/cyclophilin/rotamase identical to Chain A, Solution Structure Of Pin1at From
393Not regulatedNC-NC-NC265819_atAt2g17972Arabidopsis Thaliana GI: 22218833; contains Pfam profile PF00639: PPIC-type PPIASE domain (68415.m02097)
expressed protein (68415.m02086)
394Not regulatedNC-NC-NC265768_atAt2g48020sugar transporter, putative similar to ERD6 protein {Arabidopsis thaliana} GI: 3123712, sugar-porter family proteins 1 and 2
[Arabidopsis thaliana] GI: 14585699, GI: 14585701: contains Pfam profile PF00083: major facilitator superfamily protein
(68415.m06010)
395Not regulatedNC-NC-NC265770_atAt2g48100exonuclease family protein contains Pfam domain PF00929: exonuclease (68415.m06020)
396Not regulatedNC-NC-NC265773_atAt2g48070expressed protein (68415.m06016)
397Not regulatedNC-NC-NC265776_atAt2g07340prefoldin-related KE2 family protein contains similarity to Swiss-Prot: O60925 prefoldin subunit 1 [Homo sapiens]; contains Pfam
domain, PF01920: KE2 family protein (68415.m00841)
398Not regulatedNC-NC-NC265777_atAt2g07350
399Not regulatedNC-NC-NC265790_atAt2g01170amino acid permease family protein weak similarity to GABA permease [Emericella nidulans] GI: 4972245; contains Pfam profile
PF00324: Amino add permease (68415.m00025)
400Not regulatedNC-NC-NC265736_atAt2g0125060S ribosomal protein L7 (RPL7B) (68415.m00037)
401Not regulatedNC-NC-NC265739_atAt2g01270thioredoxin family protein low similarity to quiescin [Homo sapiens] GI: 13257405; contains Pfam profiles PF00065: Thioredoxin,
PF04777: Erv1/Alr family (68415.m00040)
402Not regulatedNC-NC-NC265740_atAt2g01150zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68415.m00024)
403Not regulatedNC-NC-NC265741_atAt2g01320ABC transporter family protein (68415.m00046)
404Not regulatedNC-NC-NC265742_at text missing or illegible when filed At2g01290expressed protein (68415.m00043)
405Not regulatedNC-NC-NC265759_atAt2g13100glycerol-3-phosphate transporter, putative/glycerol 3-phosphate permease, putative similar to glycerol-3-phosphate transporter
(glycerol 3-phosphate permease) [Homo sapiens] GI: 7543982; contains Pfam profile PF00083: major facilitator superfamily protein
(68415.m01436)
406Not regulatedNC-NC-NC265703_atAt2g03430ankyrin repeat family protein contains ankyrin repeats, Pfam: PF00023 (68415.m00301)
407Not regulatedNC-NC-NC265704_atAt2g03420expressed protein (68415.m00300)
408Not regulatedNC-NC-NC265707_atAt2g03390uvrB/uvrC motif-containing protein contains pfam profile PF02151: UvrB/uvrC motif (68415.m00298)
409Not regulatedNC-NC-NC265712_s_atAt2g03330expressed protein (68415.m00292)
410Not regulatedNC-NC-NC265716_atAt2g03350expressed protein contains Pfam profile PF04398: Protein of unknown function, DUF538 (68415.m00294)
411Not regulatedNC-NC-NC265720_atAt2g40110yippee family protein similar to mdgl-1 [Mus musculus] GI: 10441648, Yippee protein [Drosophila melanogaster] GI: 5713279;
contains Pfam profile PF03226: Yippee putative zinc-binding protein (68415.m04930)
412Not regulatedNC-NC-NC265722_atAt2g40100chlorophyll A-B binding protein (LHCB4.3) identical to Lhcb4: 3 protein [Arabidopsis thaliana] GI: 4741956; contains Pfam profile:
PF00504 chlorophyll A-B binding protein (68415.m04929)
413Not regulatedNC-NC-NC265697_atAt2g32170expressed protein; supported by cDNA GI: 20259498 (68415.m03932)
414Not regulatedNC-NC-NC265669_atAt2g32040integral membrane transporter family protein contains 9 transmembrane domains; contains Pfam PF03092: BT1 family; contains
TIGRFAMS TIGR00788: folate/biopterin transporter, similar to high affinity folic acid/methotrexate transporter 5 (GI: 21898554)
[Leishmania tarentolae] (68415.m03914)
415Not regulatedNC-NC-NC265671_atAt2g3206040S ribosomal protein S12 (RPS12C) (68415.m03916)
416Not regulatedNC-NC-NC265673_atAt2g32090lactoylglutathione lyase family protein/glyoxalase I family protein contains glyoxalase family protein domain, Pfam: PF00903
(68415.m03922)
417Not regulatedNC-NC-NC265676_atAt2g32070CCR4-NOT transcription complex protein, putative similar to SWISS-PROT: Q60809 CCR4-NOT transcription complex, subunit 7
(CCR4-associated factor 1, (CAF1) [Mus musculus] (68415.m03919)
418Not regulatedNC-NC-NC265677_atAt2g32080PUR alpha-1 protein identical to PUR alpha-1 GI: 5081612 from [Arabidopsis thaliana]; contains Pfam profile: PF04845 PurA
ssDNA and RNA-binding protein (68415.m03920)
419Not regulatedNC-NC-NC265679_atAt2g32240expressed protein contains Pfam profile: PF04508 viral A-type inclusion protein repeat (68415.m03940)
420Not regulatedNC-NC-NC265685_atAt2g24430no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) domain; (68415.m02919)
421Not regulatedNC-NC-NC265691_atAt2g24330expressed protein (68415.m02908)
422Not regulatedNC-NC-NC265663_atAt2g24290expressed protein (68415.m02903)
423Not regulatedNC-NC-NC265664_atAt2g24420DNA repair ATPase-related contains 2 transmembrane domains; similar to DNA double-strand break repair rad50 ATPase. (Swiss-
Prot: O33600) [Sulfolobus acidocaldarius] (68415.m02917)
424Not regulatedNC-NC-NC265637_atAt2g27490dephospho-CoA kinase family similar to Dephospho-CoA kinase (EC 2.7.1.24) (Dephosphocoenzyme A kinase). (Swiss-
Prot: Q92BF2) [Listeria innocua]; contains Pfam profile PF01121: Dephospho-CoA kinase (68415.m03322)
425Not regulatedNC-NC-NC265642_atAt2g27450carbon-nitrogen hydrolase family protein low similarity to beta-alanine synthase [Drosophila melanogaster] GI: 14334063; contains
Pfam profile PF00795: hydrolase, carbon-nitrogen family (68415.m03317)
426Not regulatedNC-NC-NC265646_atAt2g27360lipase, putative similar to lipase [Arabidopsis thaliana] GI: 1145627; contains Pfam profile PF00657: Lipase/Acylhydrolase with
GDSL-like motif (68415.m03296)
427Not regulatedNC-NC-NC265648_atAt2g27500glycosyl hydrolase family 17 protein similar to glucan endo-1,3-beta-glucosidase precursor SP: P52409 from [Triticum aestivum]
(68415.m03324)
428Not regulatedNC-NC-NC265649_atAt2g27510ferredoxin, putative similar to non-photosynthetic ferredoxin from Citrus sinensis [GI: 1360725], Ferredoxin, root R-B2 from
Raphanus sativus [SP|P14937]; contains Pfam profile PF00111 2Fe—2S iron-sulfur cluster binding domain (68415.m03327)
429Not regulatedNC-NC-NC265617_atAt2g25520phosphate translocator-related low similarity to SP|P52178 Triose phosphate/phosphate translocator, non-green plastid, chloroplast
precursor (CTPT) {Brassica oleracea}, phosphoenolpyruvate/phosphate translocator precursor [Mesembryanthemum crystallinum]
GI: 9295275 (68415.m03055)
430Not regulatedNC-NC-NC265626_atAt2g27260expressed protein (68415.m03276)
431Not regulatedNC-NC-NC265628_atAt2g27290expressed protein (68415.m03280)
432Not regulatedNC-NC-NC265630_atAt2g27350OTU-like cysteine protease family protein contains Pfam profile PF02338: OTU-like cysteine protease (68415.m03291)
433Not regulatedNC-NC-NC265575_atAt2g14260proline iminopeptidase identical to GP: 1710151: U72711 (68415.m01594)
434Not regulatedNC-NC-NC265593_s_atAt2g20130expressed protein contains Pfam domain, PF04367: Protein of unknown function (DUF502) (68415.m02352)
435Not regulatedNC-NC-NC265594_atAt2g20060ribosomal protein L4 family protein contains Pfam profile PF00573: ribosomal protein L4/L1 family (68415.m02344)
436Not regulatedNC-NC-NC265595_atAt2g2014026S protease regulatory complex subunit 4, putative similar to Swiss-Prot: P48601 26S protease regulatory subunit 4 (P26S4)
[Drosophila melanogaster] (68415.m02353)
437Not regulatedNC-NC-NC265571_s_atAt2g28230expressed protein (68415.m03427)
438Not regulatedNC-NC-NC265573_atAt2g26200zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger, C2H2 type (68415.m03424)
439Not regulatedNC-NC-NC265569_atAt2g05620expressed protein (68415.m00598)
440Not regulatedNC-NC-NC265510_atAt2g05630autophagy 8d (APG8d) identical to autophagy 8d [Arabidopsis thaliana] GI: 19912157; contains Pfam profile PF02991: Microtubule
associated protein 1A/1B, light chain 3 (68415.m00599)
441Not regulatedNC-NC-NC265538_atAt2g15860expressed protein and genefinder (68415.m01818)
442Not regulatedNC-NC-NC265495_atAt2g15695expressed protein contains Pfam PF05705: Eukaryotic protein of unknown function (DUF829) (68415.m01797)
443Not regulatedNC-NC-NC265474_atAt2g15690pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68415.m01796)
444Not regulatedNC-NC-NC265476_atAt2g15570thioredoxin M-type 3, chloroplast (TRX-M3) identical to SP|Q9SEU7 Thioredoxin M-type 3, chloroplast precursor (TRX-M3)
{Arabidopsis thaliana} (68415.m01783)
445Not regulatedNC-NC-NC265450_atAt2g46620AAA-type ATPase family protein contains Pfam profile: ATPase family PF00004 (68415.m05815)
446Not regulatedNC-NC-NC265456_atAt2g46505expressed protein (68415.m05794)
447Not regulatedNC-NC-NC265457_atAt2g46550expressed protein (68415.m05807)
448Not regulatedNC-NC-NC265458_atAt2g46580pyridoxine 5′-phosphate oxidase-related similar to pyridoxine 5′-phosphate oxidase (GI: 3237304) [Rattus norvegicus]; similar to
pyridoxamine 5′-phosphate oxidase (GI: 22294052) [Thermosynechococcus elongatus BP-1] (68415.m05810)
449Not regulatedNC-NC-NC265461_atAt2g46500phosphatidylinositol 3- and 4-kinase family protein/ubiquitin family protein contains INTERPRO: IPR000626 ubiquitin domain
(68415.m05790)
450Not regulatedNC-NC-NC265471_atAt2g37130peroxidase 21 (PER21) (P21) (PRXR5) identical to SP|Q42580 Peroxidase 21 precursor (EC 1.11.1.7) (Atperox P21) (PRXR5)
(ATP2a/ATP2b) {Arabidopsis thaliana} (68415.m04555)
451Not regulatedNC-NC-NC265416_atAt2937120DNA-binding S1FA family protein contains Pfam profile; PF04689 DNA binding protein S1FA (68415.m04554)
452Not regulatedNC-NC-NC265417_atAt2g20920expressed protein (68415.m02467)
453Not regulatedNC-NC-NC265419_atAt2g20840secretory carrier membrane protein (SCAMP) family protein contains Pfam domain, PF04144: SCAMP family (68415.m02456)
454Not regulatedNC-NC-NC265426_atAt2g20740expressed protein (68415.m02436)
455Not regulatedNC-NC-NC265442_atAt2g20940expressed protein (68415.m02469)
456Not regulatedNC-NC-NC265415_atAt2g20890expressed protein (68415.m02462)
457Not regulatedNC-NC-NC265385_atAt2g20900diacylglycerol kinase, putative contains INTERPRO domain, IPR001206, DAG-kinase catalytic domain (68415.m02463)
458Not regulatedNC-NC-NC265386_atAt2g20930expressed protein (68415.m02468)
459Not regulatedNC-NC-NC265390_atAt2g20820expressed protein (68415.m02450)
460Not regulatedNC-NC-NC265391_atAt2g20810glycosyl transferase family 6 protein contains Pfam profile: PF01501 glycosyl transferase family 6 (68415.m02448)
461Not regulatedNC-NC-NC265392_atAt2g20860lipoic acid synthase (LIP1) identical to gi: 3928758 contains Pfam profile PF04055: radical SAM domain protein (68415.m02458)
462Not regulatedNC-NC-NC265393_atAt2g20830expressed protein weak similarity to formiminotransferase cyclodeaminase (GI: 3980064) [Gallus gallus] (68415.m02453)
463Not regulatedNC-NC-NC265394_atAt2g20725CAAX amino terminal protease family protein contains Pfam profile PF02517 CAAX amino terminal protease family protein
(68415.m02435)
464Not regulatedNC-NC-NC265402_atAt2g10950BSD domain-containing protein contains Pfam profile PF03909: BSD domain (68415.m01169)
465Not regulatedNC-NC-NC265382_atAt2g16790shikimate kinase family protein similar to thermosensitive glucokinase from Escherichia coli [SP|P39208] [SP|P46859]; contains
Pfam profile PF01202: shikimate kinase (68415.m01925)
466Not regulatedNC-NC-NC265352_atAt2g16600peptidyl-prolyl cis-trans isomerase, cytosolic/cydophilin/rotamase (ROC3) identical to cytosotic cyclophilin [Arabidopsis thaliana]
GI: 1305455 (68415.m01906)
467Not regulatedNC-NC-NC265354_atAt2g16700actin-depolymerizing factor 5 (ADF5) identical to SP|Q9ZNT3 Actin-depolymerizing factor 5 (ADF-5) (AtADF5) {Arabidopsis
thaliana} (68415.m01916)
468Not regulatedNC-NC-NC265356_atAt2g16595translocon-associated protein (TRAP), putative similar to Swiss-Prot: P45434 translocon-associated protein, alpha subunit precursor
(TRAP-alpha, Signal sequence receptor alpha subunit, SSR-alpha) [Arabidopsis thaliana] (68415.m01904)
469Not regulatedNC-NC-NC265357_atAt2g16740ubiquilin-conjugating enzyme, putative strong similarity to SP|P35133 Ubiquitin-conjugating enzyme E2-17 kDa 10 (EC 6.3.2.19)
(Ubiquitin-protein ligase 10) (Ubiquitin carrier protein 10) (Arabidopsis thaliana); contains Pfam profile PF00179: Ubiquitin-
conjugating enzyme (68415.m01920)
470Not regulatedNC-NC-NC265374_atAt2g06520membrane protein, putative contains 2 transmembrane domains; (68415.m00723)
471Not regulatedNC-NC-NC265375_atAt2g06530SNF7 family protein contains Pfam domain, PF03357: SNF7 family (68415.m00724)
472Not regulatedNC-NC-NC265334_atAt2g18370protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to lipid-transfer protein [Nicotiana glauca]
GI: 6782436; contains Pfam protease inhibitor/seed storage/LTP family domain PF00234 (68415.m02140)
473Not regulatedNC-NC-NC265338_atAt2g18400ribosomal protein L6 family protein (68415.m02143)
474Not regulatedNC-NC-NC265340_atAt2g18330AAA-type ATPase family protein contains Pfam profile: PF00004 ATPase family associated with various cellular activities (AAA)
(68415.m02136)
475Not regulatedNC-NC-NC265319_atAt2g22670auxin-responsive protein/indoleacetic acid-induced protein 8 (IAA8) identical to SP|Q38826 Auxin-responsive protein IAA8
(Indoleacetic acid-induced protein 8) {Arabidopsis thaliana} (68415.m02686)
476Not regulatedNC-NC-NC265289_atAt2g22690expressed protein (68415.m02689)
477Not regulatedNC-NC-NC265291_atAt2g22720expressed protein (68415.m02691)
478Not regulatedNC-NC-NC265307_atAt2g20310expressed protein (68415.m02372)
479Not regulatedNC-NC-NC265284_atAt2g20230expressed protein (68415.m02364)
480Not regulatedNC-NC-NC265288_atAt2g20270glutaredoxin family protein contains glutaredoxin domain, Pfam: PF00462 (68415.m02368)
481Not regulatedNC-NC-NC265258_atAt2g20390expressed protein (68415.m02380)
482Not regulatedNC-NC-NC265259_atAt2g20330transducin family protein/WD-40 repeat family protein similar to Transcriptional repressor rco-1 (SP: P78706) [Neurospora crassa];
similar to TUP1(GB: AF079369); contains 6 WD-40 repeats (PF00400) (68415.m02374)
483Not regulatedNC-NC-NC265265_atAt2g42900expressed protein (68415.m05314)
484Not regulatedNC-NC-NC265266_atAt2g42890RNA recognition motif (RRM)-containing protein (68415.m05311)
485Not regulatedNC-NC-NC265270_atAt2g42910ribose-phosphate pyrophosphokinase 4/phosphoribosyl diphosphate synthetase 4 (PRS4) identical to phosphoribosyl
diphosphate synthase (prs4) [Arabidopsis thaliana] GI: 4902472 (68415.m05316)
486Not regulatedNC-NC-NC265274_atAt2g28450zinc finger (CCCH-type) family protein contains Pfam domain, PF00842: Zinc finger C-x8-C-x5-C-x3-H type (and similar)
(68415.m03456)
487Not regulatedNC-NC-NC265281_atAt2g28370expressed protein contains Pfam PF04535: Domain of unknown function (DUF588); similar to putative ethylene responsive
element binding protein (GI: 22135858) [Arabidopsis thaliana] (68415.m03448)
488Not regulatedNC-NC-NC265256_atAt2g28390SAND family protein similar to Sand (GI: 3928166) [Takifugu rubripes]; contains Pfam PF03164: SAND family protein
(68415.m03450)
489Not regulatedNC-NC-NC265226_atAt2g28430expressed protein (68415.m03454)
490Not regulatedNC-NC-NC265228_s_atAt2g07698ATP synthase alpha chain, mitochondrial, putative very strong similarity to SP|P23413 ATP synthase alpha chain, mitochondrial
(EC 3.6.3.14) {Brassica campestris}; contains Pfam profiles PF00006: ATP synthase alpha/beta family nucleotide-binding domain,
PF00306: ATP synthase ab C terminal, PF02874: ATP synthase alpha/beta family beta-barrel domain (68415.m00949)
491Not regulatedNC-NC-NC265230_s_atAt2g07707hypothetical protein contains Pfam profile PF02328: YMF19 hypothetical plant mitochondrial protein (68415.m00957)
492Not regulatedNC-NC-NC285247_atAt2g43030ribosomal protein L3 family protein contains Pfam profile PF00297: ribosomal protein L3 (68415.m05340)
493Not regulatedNC-NC-NC265248_atAt2g43010phytochrome-interacting factor 4 (PIF4)/basic helix-loop-helix protein 9 (bHLH9)/short under red-light 2 (SRL2) identical to
SP|Q8W2F3 Phytochrome-interacting factor 4 (Basic helix-loop-helix protein 9) (bHLH9) (Short under red-light 2) {Arabidopsis
thaliana}; supporting cDNA gi|18026965|gb|AF251694.1|AF251694 (68415.m05337)
494Not regulatedNC-NC-NC265252_atAt2g01980sodium proton exchanger, putative (NHX7) (SOS1) identical to putative Na+/H+ antiporter SOS1 [Arabidopsis thaliana]
gi|8515714|gb|AAF76139; Member of The Monovalent Cation:Proton Antiporter (CPA1) Family, PMID: 11500563 (68415.m00133)
495Not regulatedNC-NC-NC265219_atAt2g02050NADH-ubiquinone oxidoreductase B18 subunit, putative contains Pfam PF05676: NADH-ubiquinone oxidoreductase B18 subunit
(NDUFB7); similar to NADH-ubiquinone oxidoreductase B18 subunit (EC 1.6.5.3) (EC 1.6.99.3) (Complex I-B18) (CI-B18) (Cell
adhesion protein SQM1) (Swiss-Prot: P17568) [Homo sapiens]; similar to NADH:ubiquinoe oxidoreductase NDUFB7 subunit
(GI: 9651635) [Homo sapiens] (68415.m00140)
496Not regulatedNC-NC-NC265220_atAt2g02040peptide transporter (PTR2-B)/oligopeptide transporter 1-1, putative (OPT1-1) identical to peptide transporter PTR2-B SP: P46032
from [Arabidopsis thaliana]; contains Pfam profile: PF00854 POT family; identical to cDNA NT1 GI: 510237 (68415.m00139)
497Not regulatedNC-NC-NC265203_atAt2g38630expressed protein contains Pfam profile: PF01925 domain of unknown function DUF81 (68415.m04492)
498Not regulatedNC-NC-NC265210_atAt2g3862060S ribosomal protein L24 (RPL24A) (68415.m04490)
499Not regulatedNC-NC-NC265212_atAt1g05030hexose transporter, putative similar to hexose transporters from Nicotiana tabacum (GI: 8347244), Solanum tuberosum
(GI: 8347246), Arabidopsis thaliana (GI: 8347250); contains Pfam profile PF00083: major facilitator superfamily protein
(68414.m00504)
500Not regulatedNC-NC-NC265214_atAt1g05000tyrosine specific protein phosphatase family protein contains tyrosine specific protein phosphatases active site, PROSITE: PS00383
(68414.m00501)
501Not regulatedNC-NC-NC265218_atAt1g05050
502Not regulatedNC-NC-NC265192_atAt1g05060expressed protein (68414.m00507)
503Not regulatedNC-NC-NC265193_atAt1g05070expressed protein (68414.m00509)
504Not regulatedNC-NC-NC265172_atAt1g23820spermidine synthase 1 (SPDSYN1)/putrescine aminopropyltransferase 1 identical to SP|Q9ZUB3 Spermidine synthase 1 (EC
2.5.1.16) (Putrescine aminopropyltransferase 1) (SPDSY 1) {Arabidopsis thaliana} (68414.m03004)
505Not regulatedNC-NC-NC265183_atAt1g23750DNA-binding protein-related contains weak similarity to G-quartet DNA binding protein 3 [Tetrahymena thermophila]
gi|4583503|gb|AAD25098 (68414.m02997)
506Not regulatedNC-NC-NC265184_atAt1g23710expressed protein (68414.m02993)
507Not regulatedNC-NC-NC265187_atAt1g23490ADP-ribosylation factor identical to SP: Q9SRC3 ADP-ribosylation factor 1-like [Arabidopsis thaliana], ADP-ribosylation factor
GI: 166586 [Arabidopsis thaliana] (68414.m02948)
508Not regulatedNC-NC-NC265188_atAt1g23800aldehyde dehydrogenase, mitochondrial (ALDH3) nearly identical to mitochondrial aldehyde dehydrogenase ALDH3 [Arabidopsis
thaliana] gi|19850249|gb|AAL99612; contains Pfam profile PF00171: aldehyde dehydrogenase (NAD) family protein
(68414.m03002)
509Not regulatedNC-NC-NC265190_atAt1g23780F-box family protein contains Pfam PF00646: F-box domain: similar to SP: Q9Y3I1 F-box only protein 7 {Homo sapiens}; similar to
SKP1 interacting partner 2 (SKIP2) TIGR_Ath1: At5g67250 (68414.m03000)
510Not regulatedNC-NC-NC265132_atAt1g23830expressed protein (68414.m03006)
511Not regulatedNC-NC-NC265148_atAt1g51160synbindin, putative similar to Swiss-Prot: Q9ES56 synbindin (TRS23 homolog) [Mus musculus] (68414.m05752)
512Not regulatedNC-NC-NC265150_atAt1g51200zinc finger (AN1-like) family protein contains Pfam domains, PF01428: AN1-like Zinc finger and PF01754: A20-like zinc finger
(68414.m05759)
513Not regulatedNC-NC-NC265162_atAt1g30910molybdenum cofactor sulfurase family protein weak similarity to molybdenum cofactor sulfurase (LOS5/ABA3) [Arabidopsis
thaliana] GI: 15407262; contains Pfam profiles PF03476: MOSC N-terminal beta barrel domain, PF03473: MOSC domain
(68414.m03781)
514Not regulatedNC-NC-NC265129_atAt1g30970zinc finger (C2H2 type) family protein contains Pfam domain PF00096: Zinc finger, C2H2 type (68414.m03792)
515Not regulatedNC-NC-NC265130_atAt1g30890integral membrane HRF1 family protein contains Pfam domain PF03878: Hrf1 family (68414.m03779)
516Not regulatedNC-NC-NC265101_atAt1g30880expressed protein similar to ESTs gb|R30049 and gb|T46176 (68414.m03778)
517Not regulatedNC-NC-NC265102_atAt1g30870cationic peroxidase, putative similar to cationic peroxidase (gi|1232069); similar to EST gb|AI100412 (68414.m03776)
518Not regulatedNC-NC-NC265113_atAt1g62460
519Not regulatedNC-NC-NC265117_atAt1g62500protease inhibitor/seed storage/lipid transfer protein (LTP) family protein similar to auxin down regulated GB: X69640 GI: 296442
from [Glycine max]; contains Pfam profile PF00234: Protease inhibitor/seed storage/LTP family (68414.m07052)
520Not regulatedNC-NC-NC265121_atAt1g62560flavin-containing monooxygenase family protein/FMO family protein similar to flavin-containing monooxygenase GB: AAA21178
GI: 349534 SP|P32417 from [Oryctolagus cuniculus]; contains Pfam profile PF00743 Flavin-binding monooxygenase-like
(68414.m07058)
521Not regulatedNC-NC-NC265071_atAt1g55520transcription initiation factor IID-2 (TFIID-2)/TATA-box factor 2/TATA sequence-binding protein 2 (TBP2) identical to Swiss-
Prot: P28148|TF22_ARATH Transcription initiation factor TFIID-2 (TATA-box factor 2) (TATA sequence-binding protein 2) (TBP-2)
[Arabidopsis thaliana] (68414.m06351)
522Not regulatedNC-NC-NC265073_atAt1g55480expressed protein (68414.m06346)
523Not regulatedNC-NC-NC265092_atAt1g03910expressed protein low similarity to cactin [Drosophila melanogaster] GI: 7673675; expression supported by MPSS (68414.m00376)
524Not regulatedNC-NC-NC265036_atAt1g04080hydroxyproline-rich glycoprotein family protein Contains similarity to pre-mRNA processing protein PRP39 gp L29224 from
S. cerevisiae. ESTs gb|R64908 and gb|T88158, gb|N38703 and gb|AA651043 come from this gene (68414.m00396)
525Not regulatedNC-NC-NC265037_atAt1g03860prohibitin, putative similar to SP|P24142 Prohibitin (B-cell receptor associated protein 32) (BAP 32) {Rattus norvegicus}; contains
Pfam profile PF01145: SPFH domain/Band 7 family (68414.m00368)
526Not regulatedNC-NC-NC265043_atAt1g03900expressed protein (68414.m00374)
527Not regulatedNC-NC-NC265048_atAt1g52050jacalin lectin family protein similar to myrosinase-binding protein homolog [Arabidopsis thaliana] GI: 2997767; contains Pfam profile
PF01419 jacalin-like lectin domain (68414.m05872)
528Not regulatedNC-NC-NC265057_atAt1g52140expressed protein (68414.m05883)
529Not regulatedNC-NC-NC265032_atAt1g6158060S ribosomal protein L3 (RPL3B) identical to ribosomal protein GI: 806279 from [Arabidopsis thaliana] (68414.m06939)
530Not regulatedNC-NC-NC265033_atAt1g61520chlorophyll A-B binding protein/LHCI type III (LHCA3.1) nearly identical to PSI type III chlorophyll a/b-binding protein GI: 430947;
contains Pfam profile: PF00504 chlorophyll A-B binding protein; similar to PSI type III chlorophyll a/b-binding protein GI: 430947
from [Arabidopsis thaliana] (68414.m06931)
531Not regulatedNC-NC-NC265035_atAt1g61620expressed protein contains Pfam profile: PF01363 FYVE zinc finger (68414.m06943)
532Not regulatedNC-NC-NC265005_atAt1g61667expressed protein contains Pfam profile PF04398: Protein of unknown function, DUF538 (68414.m06953)
533Not regulatedNC-NC-NC265006_atAt1g61570mitochondrial import inner membrane translocase (TIM13) identical to mitochondrial import inner membrane translocase subunit
Tim13 [Arabidopsis thaliana] Swiss-Prot: Q9XH48; contains Pfam domain, PF02953: Tim10/DDP family zinc finger (68414.m06938)
534Not regulatedNC-NC-NC265013_atAt1g24460myosin-related contains TIGRFAM TIGR01612: reticulocyte binding protein; similar to Myosin heavy chain, non-muscle (Zipper
protein) (Myosin II) (SP: Q99323) {Drosophila melanogaster} similar to EST gb|T76116 (68414.m03081)
535Not regulatedNC-NC-NC265014_atAt1g24430transferase family protein similar to deacetylvindoline 4-O-acetyltransferase from Catharanthus roseus GI: 4091808 GB: AAC99311,
acetyl CoA:benzylalcohol acetyltransferase Clarkia breweri GI: 3170250, acetyl-CoA:benzylalcohol acetyltranferase Clarkia
concinna GI: 6166328: contains Pfam profile PF02458 transferase family (68414.m03076)
536Not regulatedNC-NC-NC265021_atAt1g24610SET domain-containing protein low similarity to SP|Q43088 Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-
methyltransferase, chloroplast precursor (EC 2.1.1.127) {Pisum sativum}; contains Pfam profile PF00856: SET domain
(68414.m03096)
537Not regulatedNC-NC-NC265025_atAt1g24575expressed protein (68414.m03093)
538Not regulatedNC-NC-NC265027_atAt1g24450ribonuclease III family protein contains similarity to Swiss-Prot: P51837 ribonuclease III (EC 3.1.26.3) (RNase III) [Coxiella burnetii]
(68414.m03080)
539Not regulatedNC-NC-NC264977_atAt1g27090glycine-rich protein (68414.m03302)
540Not regulatedNC-NC-NC264980_atAt1g27190leucine-rich repeat transmembrane protein kinase, putative similar to CLV1 receptor kinase GB: AAB58929 GI: 2160756 from
[Arabidopsis thaliana] (68414.m03312)
541Not regulatedNC-NC-NC264984_atAt1g27000bZIP family transcription factor (68414.m03292)
542Not regulatedNC-NC-NC264990_atAt1g27210expressed protein (68414.m03314)
543Not regulatedNC-NC-NC264996_atAt1g67230expressed protein (68414.m07652)
544Not regulatedNC-NC-NC264998_atAt1g67330expressed protein contains Pfam profile PF04669: Protein of unknown function (DUF579) (68414.m07664)
545Not regulatedNC-NC-NC265001_atAt1g67350expressed protein contains similarity to MHC class II antigen GI: 9502037 from [Aotus nancymaae] (68414.m07666)
546Not regulatedNC-NC-NC264970_atAt1g67280lactoylglutathione lyase, putative/glyoxalase I, putative similar to putative lactoylglutathione lyase SP: Q39366, GI: 2494843 from
[Brassica oleracea] (68414.m07657)
547Not regulatedNC-NC-NC264942_atAt1g67340zinc finger (MYND type) family protein/F-box family protein (68414.m07665)
548Not regulatedNC-NC-NC264944_atAt1g76940RNA recognition motif (RRM)-containing protein contains Pfam PF00076: RNA recognition motif. (a.k.a. RRM, RBD, or RNP
domain); similar to RNA-binding protein with multiple splicing homolog (RBP-MS) (HEart, RRM Expressed Sequence) (Hermes)
(Swiss-Prot: Q9YGI5) [Xenopus laevis]; similar to RNA-binding protein with multiple splicing (RBP-MS) (Swiss-Prot: Q93062) [Homo
sapiens] (68414.m08957)
549Not regulatedNC-NC-NC264952_atAt1g76900F-box family protein/tubby family protein similar to Tubby protein (SP: P50586) {Mus musculus}; similar to Chain A, C-Terminal
Domain Of Mouse Brain Tubby Protein (GI: 6730158) [Mus musculus]; similar to Tubby related protein 1 (Tubby-like protein 1)
(Swiss-Prot: O00294) [Homo sapiens]; similar to phosphodiesterase (GI: 467578) [Mus musculus]; contains Pfam profile: PF01167:
Tub family; contains Pfam PF00646: F-box domain (68414.m08949)
550Not regulatedNC-NC-NC264954_atAt1g77060mutase family protein similar to carboxyvinyl-carboxyphosphonate phosphorylmutase GB: O49290 from [Arabidopsis thaliana];
similar to carboxyphosphonoenolpyruvate mutase (GI: 47149) [Streptomyces hygroscopicus]; contains Prosite PS00161: Isocitrate
lyase signature (68414.m08972)
551Not regulatedNC-NC-NC264955_atAt1g76920F-box family protein (FBX3) contains similarity to stamina pistilloidia GI: 4101570, the pea ortholog of Fim and UFO from [Pisum
sativum] (68414.m08954)
552Not regulatedNC-NC-NC264959_atAt1g77090thylakoid lumenal 29.8 kDa protein identical to SP|O49292|TL30_ARATH (Arabidopsis thaliana); contains a PsbP domain
AF370571; SIMILAR TO GI: 13926195-F22K20.16 (68414.m08978)
553Not regulatedNC-NC-NC264916_atAt1g60810ATP citrate-lyase-related similar to ATP citrate-lyase GI: 949989 from [Rattus norvegicus] (68414.m06845)
554Not regulatedNC-NC-NC264922_s_atAt1g60830U2 snRNP auxiliary factor large subunit, putative similar to GI: 3850823 from (Nicotiana plumbaginifolia) (J. Biol. Chem. 273 (51),
34603-34610 (1998)) (68414.m06846)
555Not regulatedNC-NC-NC264928_atAt1g60710aldo/keto reductase family protein contains Pfam profile PF00248: oxidoreductase, aldo/keto reductase family (68414.m06834)
556Not regulatedNC-NC-NC264935_atAt1g61150expressed protein similar to Protein C20orf11 (Swiss-Prot: Q9NWU2) [Homo sapiens] (68414.m06889)
557Not regulatedNC-NC-NC264936_atAt1g61140SNF2 domain-containing protein/helicase domain-containing protein/zinc finger protein-related similar to ATPase [Homo sapiens]
GI: 531196; contains Pfam profiles PF00271: Helicase conserved C-terminal domain, PF00176: SNF2 family N-terminal domain,
PF00097: Zinc finger, C3HC4 type (RING finger) (68414.m06888)
558Not regulatedNC-NC-NC264883_s_atAt1g61250secretory carrier membrane protein (SCAMP) family protein (SC3) contains Pfam domain, PF04144: SCAMP family
(68414.m06902)
559Not regulatedNC-NC-NC264894_atAt1g23040hydroxyproline-rich glycoprotein family protein contains proline-rich domains, INTERPRO: IPR000694 (68414.m02878)
560Not regulatedNC-NC-NC264897_atAt1g23220dynein light chain type 1 family protein similar to SP|O02414 Dynein light chain LC6, flagellar outer arm {Anthocidaris crassispina};
contains Pfam profile PF01221: Dynein light chain type 1 (68414.m02904)
561Not regulatedNC-NC-NC264904_s_atAt2g17420thioredoxin reductase 2/NADPH-dependent thioredoxin reductase 2 (NTR2) identical to SP|Q39242 (68415.m02010)
562Not regulatedNC-NC-NC264908_atAt2g17440leucine-rich repeat family protein contains Pfam PF00560: Leucine Rich Repeats (68415.m02012)
563Not regulatedNC-NC-NC264875_atAt2g17390ankyrin repeat family protein contains ankyrin repeats, Pfam: PF00023 (68415. m02008)
564Not regulatedNC-NC-NC264847_atAt2g17380clathrin assembly protein AP19 identical to clathrin assembly protein AP19 GI: 2231698 from [Arabidopsis thaliana] (68415.m02007)
565Not regulatedNC-NC-NC264848_atAt2g17350expressed protein (68415.m02004)
566Not regulatedNC-NC-NC264850_atAt2g17340pantothenate kinase-related contains Pfam domain, PF01937: Protein of unknown function; supported by tandem duplication of
pantothenate kinase-related protein (TIGR_Ath1: At2g17320) [Arabidopsis thaliana] (68415.m02003)
567Not regulatedNC-NC-NC264854_atAt2g17450zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
(68415.m02014)
568Not regulatedNC-NC-NC264862_atAt1g24330armadillo/beta-catenin repeat family protein/U-box domain-containing family protein contains Pfam domain, PF00514:
Armadillo/beta-catenin-like repeats and Pfam, PF04564: U-box domain (68414.m03069)
569Not regulatedNC-NC-NC264865_atAt1g24120DNAJ heat shock protein, putative similar to Altered Response to Gravity [Arabidopsis thaliana] GI: 4249662; contains Pfam profile
PF00226 DnaJ domain (68414.m03043)
570Not regulatedNC-NC-NC264869_atAt1g24350expressed protein contains Pfam domain, PF02681: Uncharacterized BCR, COG1963 (68414.m03071)
571Not regulatedNC-NC-NC264871_atAt1g24180pyruvate dehydrogenase E1 component alpha subunit, mitochondrial, putative similar to SP|P52901 Pyruvate dehydrogenase E1
component alpha subunit, mitochondrial precursor (EC 1.2.4.1) (PDHE1-A) {Arabidopsis thaliana}; contains Pfam profile PF00676:
Dehydrogenase E1 component (68414.m03050)
572Not regulatedNC-NC-NC264818_atAt1g03530expressed protein similar to hypothetical protein GB: O14360 (68414.m00334)
573Not regulatedNC-NC-NC264820_atAt1g03475coproporphyrinogen III oxidase, putative/coproporphyrinogenase, putative/coprogen oxidase, putative similar to
coproporphyrinogen III oxidase, chloroplast [precursor] from Glycine max [SP|P35055], Nicotiana tabacum [SP|Q42946], Hordeum
vulgare [SP|Q42840], ESTs gb|AA586260 and dbj|D48620; contains Pfam domain coproporphyrinogen III oxidase, aerobic
[PF01218] (68414.m00329)
574Not regulatedNC-NC-NC264824_atAt1g03420expressed protein similar to gb|T45484, emb|Z30724, and emb|Z30531 (68414.m00322)
575Not regulatedNC-NC-NC264828_atAt1g03380expressed protein (68414.m00317)
576Not regulatedNC-NC-NC264834_atAt1g03730expressed protein similar to ESTs gb|AA605440 and gb|H37232 (68414.m00353)
577Not regulatedNC-NC-NC264836_atAt1g03610expressed protein (68414.m00341)
578Not regulatedNC-NC-NC264837_atAt1g03600photosystem II family protein similar to SP: P74367 {Synechocystis sp.}; similar to ESTs emb|Z27038, gb|AA451546, emb|Z29876,
gb|T45359 and gp|R90316 (68414.m00340)
579Not regulatedNC-NC-NC264838_atAt1g03430two-component phosphorelay mediator, putative strong similarity to ATHP1 [Arabidopsis thatiana] GI: 4156241 (68414.m00323)
580Not regulatedNC-NC-NC264840_atAt1g03440leucine-rich repeat family protein contains leucine rich-repeat domains Pfam: PF00560, INTERPRO: IPR001611 (68414.m00324)
581Not regulatedNC-NC-NC264843_atAt1g034002-oxoglutarate-dependent dioxygenase, putative similar to 2A6 (GI: 599622) and tomato ethylene synthesis regulatory protein E8
(SP|P10967); similar to ESTs emb|Z34690, gb|T04168, gb|H37738, gb|T76913, gb|T43801, amd gb|T21964 (68414.m00320)
582Not regulatedNC-NC-NC264845_atAt1g03675
583Not regulatedNC-NC-NC264789_atAt2g17870cold-shock DNA-binding family protein contains Pfam domains, PF00313: ‘Cold-shock’ DNA-binding domain and PF00098: Zinc
knuckle (68415.m02070)
584Not regulatedNC-NC-NC264796_atAt1g08690
585Not regulatedNC-NC-NC264799_atAt1g08550violaxanthin de-epoxidase precursor, putative (AVDE1) similar to EST gb|N37612 (68414.m00948)
586Not regulatedNC-NC-NC264802_atAt1g08560syntaxin-related protein KNOLLE (KN)/syntaxin 111 (SYP111) identical to SP|Q42374 Syntaxin-related protein KNOLLE (Syntaxin
111) (AtSYP111) {Arabidopsis thaliana}; BAC F22O13 has a deletion of a cytosine at position 7887 (68414.m00949)
587Not regulatedNC-NC-NC264803_atAt1g08580expressed protein (68414.m00951)
588Not regulatedNC-NC-NC264807_atAt1g08700presenilin family protein similar to SP|P52166 Presenilin set-12 {Caenorhabditis elegans}; contains Pfam profile PF01080:
Presenilin (68414.m00966)
589Not regulatedNC-NC-NC264808_atAt1g08770prenylated rab acceptor (PRA1) family protein weak similarity to prenylated Rab acceptor 1 (PRA1) [Homo sapiens] GI: 4877285;
contains Pfam profile PF03208: Prenylated rab acceptor (PRA1) (68414.m00976)
590Not regulatedNC-NC-NC264809_atAt1g08830superoxide dismutase [Cu—Zn] (SODCC)/copper/zinc superoxide dismutase (CSD1) identical to SWISS-PROT: P24704
(68414.m00983)
591Not regulatedNC-NC-NC264810_atAt1g08750GPI-anchor transamidase, putative similar to SP|P49018 GPI-anchor transamidase (EC 3.—.—.—) (GPI transamidase)
{Saccharomyces cerevisiae}; contains Pfam profile PF01650: Peptidase C13 family (68414.m00972)
592Not regulatedNC-NC-NC264811_atAt1g08640expressed protein (68414.m00959)
593Not regulatedNC-NC-NC264778_atAt1g08780prefoldin, putative similar to Swiss-Prot: Q9NQP4 prefoldin subunit 4 (Protein C-1) [Homo sapiens] (68414.m00977)
594Not regulatedNC-NC-NC264782_atAt1g08810myb family transcription factor (MYB60) (68414.m00980)
595Not regulatedNC-NC-NC264767_atAt1g61380S-locus protein kinase, putative similar to Ki domain interacting kinase 1 [Zea mays] gi|2735017|gb|AAB93834; contains S-locus
glycoprotein family domain, Pfam: PF00954 (68414.m06917)
596Not regulatedNC-NC-NC264772_atAt1g22930T-complex protein 11 contains Pfam PF05794: T-complex protein 11 (68414.m02866)
597Not regulatedNC-NC-NC264724_atAt1g22920COP9 signalosome subunit 5B/CSN subunit 5B (CSN5B)/c-JUN coactivator protein AJH1, putative (AJH1) COP9 complex
subunit CSN5-1; identical to Arabidopsis homologs of a c-Jun coactivator AJH1 GI: 3641314 from [Arabidopsis thaliana]; identical to
cDNA CSN complex subunit 5B (CSN5B) GI: 18056662; contains Pfam profile PF01398: Mov34/MPN/PAD-1 family
(68414.m02864)
598Not regulatedNC-NC-NC264725_atAt1g22885expressed protein (68414.m02858)
599Not regulatedNC-NC-NC264727_atAt1g22840cytochrome c, putative similar to cytochrome c [Pumpkin, Winter squash] SWISS-PROT: P00051 (68414.m02852)
600Not regulatedNC-NC-NC264728_atAt1g22850expressed protein (68414.m02853)
601Not regulatedNC-NC-NC264736_atAt1g62200proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family; contains non-
consensus GA donor site at intron 4 (68414.m07016)
602Not regulatedNC-NC-NC264716_atAt1g70170matrixin family protein similar to SP|P29136 Metalloendoproteinase 1 precursor (EC 3.4.24.—) (SMEP1) {Glycine max}; contains
InterPro accession IPR001818: Matrixin (68414.m08074)
603Not regulatedNC-NC-NC264692_atAt1g70000DNA-binding family protein contains Pfam domains, PF00249: Myb-like DNA-binding domain and PF00098: Zinc knuckle
(68414.m08056)
604Not regulatedNC-NC-NC264699_atAt1g69980expressed protein (68414.m08054)
605Not regulatedNC-NC-NC264700_atAt1g70100expressed protein (68414.m08065)
606Not regulatedNC-NC-NC264701_atAt1g70160expressed protein similar to hypothetical protein GI: 4455225 from [Arabidopsis thaliana] (68414.m08073)
607Not regulatedNC-NC-NC264703_atAt1g69960serine/threonine protein phosphatase PP2A-5 catalytic subunit (PP2A5) identical to SP|Q04951|P2A5_ARATH Serine/threonine
protein phosphatase PP2A-5 catalytic subunit (EC 3.1.3.16) {Arabidopsis thaliana}; contains Pfam profile PF00149: Ser/Thr protein
phosphatase (68414.m08051)
608Not regulatedNC-NC-NC264705_atAt1g09620tRNA synthetase class I (I, L, M and V) family protein similar to cytosolic leucyl-tRNA synthetase [Candida albicans] GI: 9858190;
contains Pfam profile PF00133: tRNA synthetases class I (I, L, M and V) (68414.m01079)
609Not regulatedNC-NC-NC264708_atAt1g09740ethylene-responsive protein, putative similar to ER6 protein [Lycopersicon esculentum] GI: 5669654; contains Pfam profile
PF00582: universal stress protein family (68414.m01093)
610Not regulatedNC-NC-NC264709_atAt1g09770myb family transcription factor contains Pfam profile: PF00249 myb-like DNA-binding domain (68414.m01096)
611Not regulatedNC-NC-NC264687_atAt1g09850cysteine protease, papain-like (XBCP3) identical to papain-like cysteine peptidase XBCP3 GI: 14600257 from [Arabidopsis
thaliana]; contains Pfam profiles PF00112: Papain family cysteine protease and PF00396: Granulin (68414.m01109)
612Not regulatedNC-NC-NC264664_atAt1g09660KH domain-containing quaking protein, putative similar to GB: AAC67357 (68414.m01084)
613Not regulatedNC-NC-NC264668_atAt1g097802,3-biphosphoglycerate-independent phosphoglycerate mutase, putative/phosphoglyceromutase, putative strong similarity to
SP|Q42908 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) (Phosphoglyceromutase)
{Mesembryanthemum crystallinum}; contains Pfam profile PF01676: Metalloenzyme superfamily (68414.m01097)
614Not regulatedNC-NC-NC264669_atAt1g09630Ras-related GTP-binding protein, putative similar to GTP-binding protein GI: 1370146 from [Lotus japonicus] (68414.m01080)
615Not regulatedNC-NC-NC264670_s_atAt1g09640elongation factor 1B-gamma, putative/eEF-1B gamma, putative Similar to elongation factor 1-gamma (gb|EF1G_XENLA). ESTs
gb|T20564, gb|T45940, gb|T04527 come from this gene (68414.m01081)
616Not regulatedNC-NC-NC264676_atAt1g09870histidine add phosphatase family protein contains Pfam profile PF00328: Histidine acid phosphatase; similar to multiple inositol
polyphosphate phosphatase (GI: 4105496)[Mus musculus]; EST gb|R64758 comes from this gene (68414.m01111)
617Not regulatedNC-NC-NC264679_s_atAt1g0969060S ribosomal protein L21 (RPL21C) Similar to ribosomal protein L21 (gb|L38826). ESTs gb|AA395597, gb|ATTS5197 come from
this gene (68414.m01088)
618Not regulatedNC-NC-NC264685_atAt1g65610endo-1,4-beta-glucanase, putative/cellulase, putative similar to endo-1,4-beta-glucanase GI: 2065530 from [Lycopersicon
esculentum] (68414.m07442)
619Not regulatedNC-NC-NC264627_atAt1g65520enoyl-CoA hydratase/isomerase family protein low similarity to enoyl-CoA hydratase [Escherichia coli]GI: 2764828, carnitine
racemase SP|P31551 [Escherichia coli]; contains Pfam profile PF00378 enoyl-CoA hydratase/isomerase family protein
(68414.m07434)
620Not regulatedNC-NC-NC264639_atAt1g65650ubiquitin carboxyl-terminal hydrolase family 1 protein similar to 26S proteasome regulatory complex subunit p37A [Drosophila
melanogaster] GI: 6434962; contains Pfam profile PF01088: Ubiquitin carboxyl-terminal hydrolase, family 1 (68414.m07448)
621Not regulatedNC-NC-NC264641_atAt1g09130ATP-dependent Clp protease proteolytic subunit, putative similar to nClpP5 GI: 5360595 from [Arabidopsis thaliana]
(68414.m01017)
622Not regulatedNC-NC-NC264644_atAt1g08960cation exchanger, putative (CAX11) similar to sodium/calcium exchanger protein [Mus musculus] gi|13925861|gb|AAK49407;
Ca2+:Cation Antiporter (CaCA) Family member PMID: 11500563 (68414.m00996)
623Not regulatedNC-NC-NC264645_atAt1g08940phosphoglycerate/bisphosphoglycerate mutase family protein contains Pfam profile PF00300: phosphoglycerate mutase family
(68414.m00995)
624Not regulatedNC-NC-NC264649_atAt1g09060transcription factor jumonji (jmjC) domain-containing protein contains Pfam domain, PF02373: jmjC domain (68414.m01010)
625Not regulatedNC-NC-NC264651_atAt1g08880histone H2A, putative Strong similarity to histone H2A Cicer arietinum SP|O65759, Picea abies SP|P35063; contains Pfam profile
PF00125 Core histone H2A/H2B/H3/H4; ESTs gb|ATTS3874, gb|T46627, gb|T14194 come from this gene (68414.m00988)
626Not regulatedNC-NC-NC264653_atAt1g08980amidase family protein similar to component of chloroplast outer membrane translocon Toc64 [Pisum sativum] GI: 7453538;
contains Pfam profile PF01425: Amidase; supporting cDNA gi|11493701|gb|AF202077.1|AF202077 (68414.m01001)
627Not regulatedNC-NC-NC264656_atAt1g09010glycoside hydrolase family 2 protein low similarity to mannosidase [gi: 5359712] from Cellulomonas fimi (68414.m01005)
628Not regulatedNC-NC-NC264657_atAt1g0910026S protease regulatory subunit 6A, putative identical to SP: O04019 from [Arabidopsis thaliana] (68414.m01016)
629Not regulatedNC-NC-NC264595_atAt1g04750synaptobrevin family protein similar to Vesicle-associated membrane protein 722 (AtVAMP722) Synaptobrevin-related protein 1
(SP: P47192) {Arabidopsis thaliana}; (68414.m00470)
630Not regulatedNC-NC-NC284609_atAt1g04530expressed protein (68414.m00445)
631Not regulatedNC-NC-NC264613_atAt1g04640biotin/lipoate A/B protein ligase family protein similar to lipoyltransferase (LIP2p) [Arabidopsis thaliana] GI: 15887052; contains Pfam
profile PF03099: Biotin/lipoate A/B protein ligase family (68414.m00460)
632Not regulatedNC-NC-NC264615_atAt1g04590expressed protein isofonn contains GG acceptor splice site at intron 7 (68414.m00452)
633Not regulatedNC-NC-NC264619_atAt2g17760aspartyl protease family protein contains Eukaryotic and viral aspartyl proteases active site, PROSITE: PS00141 (68415.m02057)
634Not regulatedNC-NC-NC264622_atAt2g17790vacuolar protein sorting-associated protein 35 family protein/VPS35 family protein similar to vacuolar protein sorting 35 [Mus
musculus] GI: 11875394; contains Pfam profile PF03635: Vacuolar protein sorting-associated protein 35 (68415.m02062)
635Not regulatedNC-NC-NC264591_atAt2g17670pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68415.m02045)
636Not regulatedNC-NC-NC264594_atAt2g17640serine O-acetyltransferase, putative (SAT-106) similar to Arabidopsis thaliana serine acetyltransferase GI: 905391 (68415.m02040)
637Not regulatedNC-NC-NC264570_atAt1g05350thiF family protein low similarity to SP|P30138 Adenylyltransferase thiF (EC 2.7.7.—) {Escherichia coli}; contains Pfam profile
PF00899: ThiF family (68414.m00542)
638Not regulatedNC-NC-NC264575_atAt1g05190ribosomal protein L6 family protein Similar to Mycobacterium RipF (gb|Z84395). ESTs gb|T75785, gb|R30580, gb|T04698 come from
this gene (68414.m00523)
639Not regulatedNC-NC-NC264576_atAt1g05360expressed protein Similar to Arabidopsis hypothetical protein PID: e326839 (gb|297337) contains transmembrane domains
(68414.m00543)
640Not regulatedNC-NC-NC264579_atAt1g05205expressed protein (68414.m00525)
641Not regulatedNC-NC-NC264584_atAt1g05140membrane-associated zinc metalloprotease, putative similar to Hypothetical zinc metalloprotease All3971 (SP: Q8YQ64) [strain
PCC 7120] {Anabaena sp.}; Similar to Synechocystis hypothetical protein (gb|D80908); contains Pfam PF00595: PDZ domain (Also
known as DHR or GLGF); contains TIGRFAM TIGR00054: membrane-associated zinc metalloprotease, putative (68414.m00517)
642Not regulatedNC-NC-NC264585_atAt1g05180auxin-resistance protein AXR1 (AXR1) identical to SP|P42744 Auxin-resistance protein AXR1 {Arabidopsis thaliana}; contains Pfam
profile PF00899: ThiF family; identical to cDNA ubiquitin activating enzyme E1-related protein (AXR1) GI: 304103 (68414.m00521)
643Not regulatedNC-NC-NC264545_atAt1g55670photosystem I reaction center subunit V, chloroplast, putative/PSI-G, putative (PSAG) identical to SP|Q9S7N7; similar to
SP|Q00327 Photosystem I reaction center subunit V, chloroplast precursor (PSI-G) (Photosystem I 9 kDa protein) {Hordeum
vulgare}; contains Pfam profile PF01241: Photosystem I psaG/psaK (68414.m06372)
644Not regulatedNC-NC-NC264504_atAt1g09430ATP-citrate synthase (ATP-citrate (pro-S-)-lyase/citrate cleavage enzyme), putative similar to ATP-citrate-lyase (GI: 16648642)
[Arabidopsis thaliana]; similar to ATP-citrate (pro-S-)-lyase (EC 4.1.3.8) (Citrate cleavage enzyme)(SP: Q91V92) {Mus musculus};
Location of EST gb|Z34587 (68414.m01055)
645Not regulatedNC-NC-NC264510_atAt1g09530phytochrome interacting factor 3 (PIF3) identical to phytochrome interacting factor 3 (PIF3) GI: 3929585 from [Arabidopsis thaliana]
(68414.m01068)
646Not regulatedNC-NC-NC264515_atAt1g10080
647Not regulatedNC-NC-NC264523_atAt1g10030integral membrane family protein contains Pfam PF03694: Erg28 like protein (68414.m01131)
648Not regulatedNC-NC-NC264529_atAt1g30820CTP synthase, putative/UTP-ammonia ligase, putative similar to SP|P17812 CTP synthase (EC 6.3.4.2) (UTP-ammonia ligase)
{Homo sapiens}; contains Pfam profile PF00117: glutamine amidotransferase class-I; similar to ESTs gb|AA660762, gb|AA220982,
dbj|AU008137, gb|AI054783, and gb|AA100804 (68414.m03768)
649Not regulatedNC-NC-NC264474_s_atAt1g67090ribulose bisphosphate carboxylase small chain 1A/RuBisCO small subunit 1A (RBCS-1A) (ATS1A) identical to SP|P10795
Ribulose bisphosphate carboxylase small chain 1A, chloroplast precursor (EC 4.1.1.39) (RuBisCO small subunit 1A) {Arabidopsis
thaliana} (68414.m07629)
650Not regulatedNC-NC-NC264476_atAt1g77130glycogenin glucosyltransferase (glycogenin)-related contains similarity to glycogenin-1 from Mus musculus [SP|Q9R062], Rattus
norvegicus [SP|O08730], Homo sapiens [SP|P46976] (68414.m08985)
651Not regulatedNC-NC-NC264484_atAt1g77260dehydration-responsive protein-related similar to early-responsive to dehydration stress ERD3 protein [Arabidopsis thaliana]
GI: 15320410; contains Pfam profile PF03141: Putative methyltransferase (68414.m08996)
652Not regulatedNC-NC-NC264438_atAt1g2740060S ribosomal protein L17 (RPL17A) similar to GB: P51413 from [Arabidopsis thaliana]; similar to ESTs gb|L33542 and
gb|AA660016 (68414.m03340)
653Not regulatedNC-NC-NC264439_atAt1g27450adenine phosphoribosyltransferase 1 (APT1) nearly identical to SP|P31186 Adenine phosphoribosyltransferase 1 (EC 2.4.2.7)
(APRT) {Arabidopsis thaliana} (68414.m03346)
654Not regulatedNC-NC-NC264440_atAt1g27340F-box family protein contains Pfam PF00646: F-box domain; similar to fim protein; similar to ESTs gb|T42445, gb|T76780,
gb|AA650733, and emb|Z17748 (68414.m03330)
655Not regulatedNC-NC-NC264442_atAt1g27480lecithin:cholesterol acyltransferase family protein/LACT family protein similar to LCAT-like lysophospholipase (LLPL) [Homo
sapiens] GI: 4589720; contains Pfam profile PF02450: Lecithin:cholesterol acyltransferase {phosphatidylcholine-sterol
acyltransferase} (68414.m03350)
656Not regulatedNC-NC-NC264443_atAt1g27385expressed protein (68414.m03338)
657Not regulatedNC-NC-NC264446_atAt1g27310nuclear transport factor 2 (NTF2), putative similar to Swiss-Prot: P33331 nuclear transport factor 2 (NTF-2) (Nuclear transport factor
P10) [Saccharomyces cerevisiae] (68414.m03327)
658Not regulatedNC-NC-NC264463_atAt1g10150expressed protein similar to ESTs gb|T20511, gb|T45308, gb|H36493, and gb|AA651176 (68414.m01144)
659Not regulatedNC-NC-NC264467_atAt1g10140expressed protein similar to EST gb|AA598098 (68414.m01143)
660Not regulatedNC-NC-NC264468_atAt1g10310short-chain dehydrogenase/reduclase (SDR) family protein contains INTERPRO family IPR002198 short-chain
dehydrogenase/reductase (SDR) superfamily (68414.m01161)
661Not regulatedNC-NC-NC264407_atAt1g10180expressed protein (68414.m01148)
662Not regulatedNC-NC-NC264421_atAt1g4317060S ribosomal protein L3 (RPL3A) identical to ribosomal protein GI: 166858 from [Arabidopsis thaliana] (68414.m04974)
663Not regulatedNC-NC-NC264422_atAt1g43130expressed protein contains Pfam domain, PF04367: Protein of unknown function (DUF502) (68414.m04968)
664Not regulatedNC-NC-NC264424_atAt1g61740expressed protein contains Pfam profile: PF01925 domain of unknown function DUF81; identical to cDNA hypothetical protein,
partial GI: 4079631 (68414.m06963)
665Not regulatedNC-NC-NC264427_atAt1g61770DNAJ heat shock N-terminal domain-containing protein similar to SP|Q9UBS4 DnaJ homolog subfamily B member 11 precursor
Homo sapiens; contains Pfam profile PF00226 DnaJ domain (68414.m06966)
666Not regulatedNC-NC-NC264429_atAt1g61670expressed protein similar to membrane protein PTM1 precursor isolog GI: 1931644 from [Arabidopsis thaliana] (68414.m06956)
667Not regulatedNC-NC-NC264399_atAt1g61780postsynaptic protein-related similar to postsynaptic protein CRIPT GI: 3098551 from [Rattus norvegicus] (68414.m06967)
668Not regulatedNC-NC-NC264374_atAt2g25180two-component responsive regulator family protein/response regulator family protein contains Pfam profile: PF00072 response
regulator receiver domain (68415.m03011)
669Not regulatedNC-NC-NC264376_atAt2g25070protein phosphatase 2C, putative/PP2C, putative (68415.m02999)
670Not regulatedNC-NC-NC284381_atAt2g25100ribonuclease HII family protein contains Pfam profile: PF01351 ribonuclease HII (68415.m03003)
671Not regulatedNC-NC-NC264396_atAt1g12050fumarylacetoacetase, putative similar to fumarylacetoacetase (Fumarylacetoacetate hydrolase, Beta-diketonase, FAA)[Rattus
norvegicus] SWISS-PROT: P25093 (68414.m01391)
672Not regulatedNC-NC-NC264397_atAt1g11820glycosyl hydrolase family 17 protein similar to elicitor inducible chitinase Nt-SubE76 GI: 11071974 from [Nicotiana tabacum]
(68414.m01358)
673Not regulatedNC-NC-NC264373_atAt1g11890vesicle transport protein SEC22, putative identified as SEC22 by Raikhel, NV, et al. in Plant Physiol. 124: 1558-69 (2000); similar to
vesicle trafficking protein gb|U91538 from Mus musculus; ESTs gb|F15494 and gb|F14097 come from this gene (68414.m01371)
674Not regulatedNC-NC-NC264349_atAt1g11930alanine racemase family protein contains Pfam domain, PF01168: Alanine racemase, N-terminal domain (68414.m01378)
675Not regulatedNC-NC-NC264350_atAt1g11870seryl-tRNA synthetase, putative/serine-tRNA ligase, putative similar to PIR|T03949 serine-tRNA lipase (EC 6.1.1.11) serS {Zea
mays}; contains Pfam profiles PF00587: tRNA synthetase class II core domain (G, H, P, S and T), PF02403: Seryl-tRNA
synthetase N-terminal domain (68414.m01367)
676Not regulatedNC-NC-NC264351_atAt1g03370C2 domain-containing protein/GRAM domain-containing protein contains Pfam profiles PF00168: C2 domain; contains PF02893:
GRAM domain; similar to Chain A, Crystal Structure Of Synaptotagmin III C2aC2B Length(GI: 6980525); similar to Synaptotagmin III
(SytIII) (Swiss-Prot: P40748) [Rattus norvegicus] (68414.m00316)
677Not regulatedNC-NC-NC264355_atAt1g03210phenazine biosynthesis PhzC/PhzF family protein contains Pfam profile: PF02567 phenazine biosynthesis-like protein
(68414.m00299)
678Not regulatedNC-NC-NC264357_atAt1g03360exonuclease family protein similar to Exosome complex exonuclease RRP4 (Ribosome RNA processing protein 4)(SP: P38792)
{Saccharomyces cerevisiae} (68414.m00315)
679Not regulatedNC-NC-NC264362_atAt1g03290expressed protein ESTs gb|H36966, gb|R65511, gb|T42324 and gb|T20569 come from this gene (68414.m00307)
680Not regulatedNC-NC-NC264366_atAt1g03250expressed protein (68414.m00303)
681Not regulatedNC-NC-NC264367_atAt1g03350BSD domain-containing protein contains Pfam profile PF03909: BSD domain (68414.m00314)
682Not regulatedNC-NC-NC264337_atAt1g70350expressed protein (68414.m08093)
683Not regulatedNC-NC-NC264340_atAt1g70280NHL repeat-containing protein contains Pfam profile PF01436: NHL repeat (68414.m08085)
684Not regulatedNC-NC-NC264313_atAt1g70410carbonic anhydrase, putative/carbonate dehydratase, putative similar to SP|P42737 Carbonic anhydrase 2 (EC 4.2.1.1)
(Carbonate dehydratase 2) {Arabidopsis thaliana}; contains Pfam profile PF00484: Carbonic anhydrase (68414.m08099)
685Not regulatedNC-NC-NC264317_atAt1g70310spermidine synthase 2 (SPDSYN2)/putrescine aminopropyltransferase 2 identical to SP|O48661 Spermidine synthase 2 (EC
2.5.1.16) (Putrescine aminopropyltransferase 2) (SPDSY 2) {Arabidopsis thaliana} (68414.m08089)
686Not regulatedNC-NC-NC264322_atAt1g04190tetratricopeptide repeat (TPR)-containing protein low similarity to protein antigen LmSTI1 [Leishmania major] GI: 1698880; contains
Pfam profile PF00515 TPR Domain; EST gb|Z47802 and gb|Z48402 come from this gene (68414.m00409)
687Not regulatedNC-NC-NC264326_atAt1g04230expressed protein (68414.m00413)
688Not regulatedNC-NC-NC264330_atAt1g04120ABC transporter family protein Strong similarity to MRP-like ABC transporter gb|U92650 from A. thaliana and canalicular multi-drug
resistance protein gb|L49379 from Rattus norvegicus (68414.m00401)
689Not regulatedNC-NC-NC264307_atAt1g61900expressed protein contains similarity to glutamic acid/alanine-rich protein GI: 6707830 from [Trypanosome congolense]
(68414.m06983)
690Not regulatedNC-NC-NC264289_atAt1g61890MATE efflux family protein similar to ripening regulated protein DDTFR18 [Lycopersicon esculentum] GI: 12231296; contains Pfam
profile PF01554: Uncharacterized membrane protein family (68414.m06982)
691Not regulatedNC-NC-NC264300_atAt1g78670gamma-glutamyl hydrolase, putative/gamma-Glu-X carboxypeptidase, putative/conjugase, putative similar to gamma glutamyl
hydrolase GI: 1679658 SP|P93164 from [Glycine max] (68414.m09170)
692Not regulatedNC-NC-NC264303_s_atAt1g78870ubiquitin-conjugating enzyme, putative nearly identical to ubiquitin-conjugating enzyme E2 [Catharanthus roseus] GI: 5381319;
contains Pfam profile PF00179: Ubiquitin-conjugating enzyme (68414.m09193)
693Not regulatedNC-NC-NC264306_atAt1g78890expressed protein (68414.m09196)
694Not regulatedNC-NC-NC264248_atAt1g78700brassinosteroid signalling positive regulator-related contains similarity to BZR1 protein [Arabidopsis thaliana]
gi|20270971|gb|AAM18490 (68414.m09173)
695Not regulatedNC-NC-NC264250_atAt1g78680gamma-glutamyl hydrolase (GGH1)/gamma-Glu-X carboxypeptidase/conjugase identical to SP|O65355 Gamma-glutamyl
hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH) {Arabidopsis thaliana} (68414.m09171)
696Not regulatedNC-NC-NC264255_atAt1g09140SF2/ASF-like splicing modulator (SRP30) nearly identical to SF2/ASF-like splicing modulator Srp30 [Arabidopsis thaliana]
GI: 4775270 (68414.m01018)
697Not regulatedNC-NC-NC264256_atAt1g09270importin alpha-1 subunit, putative (IMPA4) similar to importin alpha-1 subunit (Karyopherin alpha-1 subunit, KAP alpha)
[Arabidopsis thaliana] SWISS-PROT: Q96321 (68414.m01035)
698Not regulatedNC-NC-NC264244_atAt1g60440eukaryotic pantothenate kinase family protein similar to pantothenate kinase GI: 4191500 from [Aspergillus nidulans]; contains Pfam
profile PF03630: Fumble (68414.m06804)
699Not regulatedNC-NC-NC264246_atAt1g60140glycosyl transferase family 20 protein/trehalose-phosphatase family protein contains Pfam profile: PF02358 trehalose-
phosphatase (68414.m06775)
700Not regulatedNC-NC-NC264219_atAt1g60420DC1 domain-containing protein contains Pfam domain PF03107: DC1 domain (68414.m06802)
701Not regulatedNC-NC-NC264221_s_atAt1g60170pre-mRNA processing ribonucleoprotein binding region-containing protein similar to U4/U6 snRNP-associated 61 kDa protein
[Homo sapiens] GI: 18249847; contains Pfam profile PF01798: Putative snoRNA binding domain (68414.m06778)
702Not regulatedNC-NC-NC264229_atAt1g67480kelch repeat-containing F-box family protein similar to SKP1 interacting partner 6 [Arabidopsis thaliana] GI: 10716957; contains
Pfam profiles PF01344: Kelch motif, PF00646: F-box domain (68414.m07685)
703Not regulatedNC-NC-NC264233_atAt1g6743060S ribosomal protein L17 (RPL17B) similar to ribosomal protein GI: 19101 from [Hordeum vulgare] (68414.m07675)
704Not regulatedNC-NC-NC264236_atAt1g54680expressed protein (68414.m06234)
705Not regulatedNC-NC-NC264239_atAt1g54770expressed protein (68414.m06245)
706Not regulatedNC-NC-NC264189_s_atAt1g54630acyl carrier protein 3, chloroplast (ACP-3) nearly identical to SP|P25702 Acyl carrier protein 3, chloroplast precursor (ACP)
{Arabidopsis thaliana} (68414.m06230)
707Not regulatedNC-NC-NC264190_atAt1g54830CCAAT-box binding transcription factor Hap5a, putative similar to heme activated protein GI: 6289057 from (Arabidopsis thaliana)
GI: 14577940 CCAAT-binding protein subunit HAP5 {Hypocrea jecorina} similar to Transcription factor GB: CAA74053 GI: 2398533
from [Arabidopsis thaliana] similarity to transcription factor Hap5a similar to transcription factor Hap5a [Arabidopsis
thaliana](GI: 6523090) (68414.m06251)
708Not regulatedNC-NC-NC264192_atAt1g54710expressed protein contains 3 WD-40 repeats (PF00400) (1 weak) submitForm( ); (68414.m06237)
709Not regulatedNC-NC-NC264193_atAt1g54610protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68414.m06228)
710Not regulatedNC-NC-NC264195_atAt1g22690gibberellin-responsive protein, putative similar to SP|P46688 Gibberellin-regulated protein 2 precursor {Arabidopsis thaliana};
contains Pfam profile PF02704: Gibberellin regulated protein (68414.m02835)
711Not regulatedNC-NC-NC264205_atAt1g22790expressed protein identical to hypothetical protein GB: CAA72910 (68414:m02847)
712Not regulatedNC-NC-NC264207_atAt1g22750expressed protein (68414.m02842)
713Not regulatedNC-NC-NC264210_atAt1g22640myb family transcription factor {MYB4} similar to myb-related protein GI: 1020155 from [Arabidopsis thaliana] (68414.m02828)
714Not regulatedNC-NC-NC264211_atAt1g22770gigantea protein (GI) identical to gigantea protein SP: Q9SQI2 from [Arabidopsis thaliana] (68414.m02845)
715Not regulatedNC-NC-NC264156_atAt1g65280DNAJ heat shock N-terminal domain-containing protein contains Pfam profile PF00226 DnaJ domain (68414.m07402)
716Not regulatedNC-NC-NC264158_atAt1g65260PspA/IM30 family protein contains Pfam PF04012: PspA/IM30 family profile; similar to Membrane-associated 30 kDa protein,
chloroplast precursor (M30) (Swiss-Prot: Q03943) [Pisum sativum]; similar to phage shock protein A (GI: 28806161) [Vibrio
parahaemolyticus]; similar to Phage shock protein A. (Swiss-Prot: P23853) [Shigella flexneri] (68414.m07398)
717Not regulatedNC-NC-NC264159_atAt1g65270expressed protein (68414.m07399)
718Not regulatedNC-NC-NC264164_atAt1g65295expressed protein (68414.m07404)
719Not regulatedNC-NC-NC264165_atAt1g65410ABC transporter family protein contains similarity to toluene tolerance protein Ttg2A GI: 4336798 from [Pseudomonas putida]
(68414.m07421)
720Not regulatedNC-NC-NC264168_atAt1g02080transcriptional regulator-related contains Pfam PF04054: CCR4-Not complex component, Not1; contains TIGRFAM TIGR01612:
reticulocyte binding protein; similar to General negative regulator of transcription subunit 1 (SP: P25655) {Saccharomyces
cerevisiae}; Location of ESTs gb|T44328 and gb|AA395265 (68414.m00130)
721Not regulatedNC-NC-NC264170_atAt1g02260transmembrane protein, putative similar to P protein (Melanocyte-specific transporter protein) (SP: Q04671) {Homo sapiens};
contains 8 transmembrane domains (68414.m00165)
722Not regulatedNC-NC-NC264172_atAt1g02120GRAM domain-containing protein-related contains low similarity to PF02893: GRAM domain (68414.m00138)
723Not regulatedNC-NC-NC264173_atAt1g02160expressed protein (68414.m00143)
724Not regulatedNC-NC-NC264177_atAt1g02150pentatricopeptide (PPR) repeat-containing protein low similarity to DNA-binding protein [Triticum aestivum] GI: 6958202; contains
Pfam profile: PF01535 PPR repeat (68414.m00141)
725Not regulatedNC-NC-NC264178_atAt1g02170latex-abundant family protein (AMC1)/caspase family protein contains similarity to latex-abundant protein [Hevea brasiliensis]
gb: AAD13216; contains Pfam profile PF00656: ICE-like protease (caspase) p20 domain (68414.m00145)
726Not regulatedNC-NC-NC264152_atAt1g02140mago nashi family protein similar to Mago Nashi, Genbank Accession Number U03559; contains Pfam PF02792: Mago nashi
protein domain (68414.m00140)
727Not regulatedNC-NC-NC264121_atAt1g02280GTP-binding protein (TOC33) identical to atToc33 protein (GI: 11557973) [Arabidopsis thaliana]; Carboxyl-terminal end highly
similar to GTP-binding protein SP: U43377, location of EST gb|AA394770 and gb|R30089; identical to cDNA for chloroplast atToc33
protein GI: 11557972 (68414.m00169)
728Not regulatedNC-NC-NC264122_atAt1g02130Ras-related protein (ARA-5)/small GTP-binding protein, putative identical to Ras-related protein ARA-5 SP: P28188 from
[Arabidopsis thaliana] (68414.m00139)
729Not regulatedNC-NC-NC264123_atAt1g02270endonuclease/exonuclease/phosphatase family protein/calcium-binding EF hand family protein contains Pfam profiles: PF03372
endonuclease/exonuclease/phosphatase family, PF00036 EF hand (68414.m00167)
730Not regulatedNC-NC-NC264130_atAt1g79160expressed protein (68414.m09230)
731Not regulatedNC-NC-NC264140_atAt1g7921020S proteasome alpha subunit B, putative nearly identical to SP|O23708 Proteasome subunit alpha type 2 (EC 3.4.25.1) (20S
proteasome alpha subunit B) {Arabidopsis thaliana} and to At1g16470 (68414.m09235)
732Not regulatedNC-NC-NC264120_atAt1g79340latex-abundant protein, putative (AMC7)/caspase family protein similar to latex-abundant protein [Hevea brasiliensis]
gb: AAD13216; contains Pfam domain, PF00656: ICE-like protease (caspase) p20 domain (68414.m09246)
733Not regulatedNC-NC-NC264092_atAt1g79040photosystem II 10 kDa polypeptide identical to photosystem II 10 kDa polypeptide, chloroplast [precursor] SP: P27202 from
[Arabidopsis thaliana]; contains Pfam profile: PF04725 photosystem II 10 kDa polypeptide PsbR (68414.m09216)
734Not regulatedNC-NC-NC264097_s_atAt1g79010NADH-ubiquinone oxidoreductase 23 kDa subunit, mitochondrial (TYKY) identical to SP|Q42599 NADH-ubiquinone oxidoreductase
23 kDa subunit, mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3) (Complex I-23 KD) (CI-23 KD) (Complex I-28.5 KD)
(CI-28.5 KD) {Arabidopsis thaliana} (68414.m09213)
735Not regulatedNC-NC-NC264098_atAt1g79260expressed protein (68414.m09240)
736Not regulatedNC-NC-NC264099_atAt1g79050DNA repair protein recA identical to DNA repair protein recA, chloroplast [Precursor] SP: Q39199 from [Arabidopsis thaliana];
contains Pfam profile: PF00154 recA bacterial DNA recombination protein (68414.m09217)
737Not regulatedNC-NC-NC264102_atAt1g79270expressed protein contains Pfam profile PF04146: YT521-B-like family (68414.m09241)
738Not regulatedNC-NC-NC264084_atAt2g31240tetratricopeptide repeat (TPR)-containing protein contains Pfam profile PF00515: TPR Domain (68415.m03815)
739Not regulatedNC-NC-NC264089_atAt2g31200actin-depolymerizing factor 6 (ADF6) identical to SP|Q9ZSK2 Actin-depolymerizing factor 6 (ADF-6) (AtADF6) {Arabidopsis
thaliana} (68415.m03810)
740Not regulatedNC-NC-NC264059_atAt2g31305expressed protein (68415.m03822)
741Not regulatedNC-NC-NC264061_atAt2g27970cyclin-dependent kinase, putative/CDK, putative similar to Cks1 protein [Arabidopsis thaliana] gi|2274859|emb|CAA03859
(68415.m03390)
742Not regulatedNC-NC-NC264069_atAt2g28000RuBisCO subunit binding-protein alpha subunit, chloroplast/60 kDa chaperonin alpha subunit/CPN-60 alpha identical to SWISS-
PROT: P21238-RuBisCO subunit binding-protein alpha subunit, chloroplast precursor (60 kDa chaperonin alpha subunit, CPN-60
alpha) [Arabidopsis thaliana] (68415.m03393)
743Not regulatedNC-NC-NC264070_atAt2g27960cyclin-dependent kinase/CDK (CKS1) identical to Cks1 protein [Arabidopsis thaliana] gi|2274859|emb|CAA03859 (68415.m03389)
744Not regulatedNC-NC-NC264076_atAt2g28540expressed protein (68415.m03467)
745Not regulatedNC-NC-NC264078_atAt2g28470beta-galactosidase, putative/lactase, putative similar to Beta-galactosidase precursor SP: P48980 from [Lycopersicon esculentum]
(68415.m03460)
746Not regulatedNC-NC-NC264080_atAt2g28520vacuolar proton ATPase, putative similar to Swiss-Prot: Q93050 vacuolar proton translocating ATPase 116 kDa subunit A isoform 1
(Clathrin-coated vesicle/synaptic vesicle proton pump 116 kDa subunit, Vacuolar proton pump subunit 1, Vacuolar adenosine
triphosphatase subunit Ac116) [Homo sapiens] (68415.m03465)
747Not regulatedNC-NC-NC264056_atAt2g28510Dof-type zinc finger domain-containing protein similar to elicitor-responsive Dof protein ERDP GI: 6092016 from [Pisum sativum]
(68415.m03464)
748Not regulatedNC-NC-NC264028_atAt2g03680expressed protein Alternative splicing exists based on EST evidence (68415.m00327)
749Not regulatedNC-NC-NC264037_atAt2g03750sulfotransferase family protein similar to similar to steroid sulfotransferase 3 [Brassica napus] GI: 3420008, steroid sulfotransferase
1 [Brassica napus] GI: 3420034; contains Pfam profile PF00685: Sulfotransferase domain (68415.m00335)
750Not regulatedNC-NC-NC264038_atAt2g03690coenzyme Q biosynthesis Coq4 family protein/ubiquinone biosynthesis Coq4 family protein contains Pfam profile PF05019:
Coenzyme Q (ubiquinone) biosynthesis protein Coq4 (68415.m00328)
751Not regulatedNC-NC-NC264040_atAt2g03730ACT domain-containing protein (ACR5) contains Pfam ACT domain PF01842 (68415.m00333)
752Not regulatedNC-NC-NC264048_atAt2g22400NOL1/NOP2/sun family protein contains Pfam profile PF01189: NOL1/NOP2/sun family (68415.m02656)
753Not regulatedNC-NC-NC263995_atAt2g22540short vegetative phase protein (SVP) identical to cDNA short vegetative phase protein (SVP) GI: 10944319; (68415.m02673)
754Not regulatedNC-NC-NC263998_atAt2g22510hydroxyproline-rich glycoprotein family protein similar to proline-rich cell wall protein [Gossypium barbadense]
gi|451544|gb|AAA79364; contains proline-rich extensin domains, INTERPRO: IPR002965 (68415.m02670)
755Not regulatedNC-NC-NC264003_atAt2g22475GRAM domain-containing protein/ABA-responsive protein-related similar to ABA-responsive protein [Hordeum vulgare]
GI: 4103635; contains Pfam profile PF02893: GRAM domain (68415.m02665)
756Not regulatedNC-NC-NC264008_atAt2g21120expressed protein (68415.m02506)
757Not regulatedNC-NC-NC264012_atAt2g21080expressed protein (68415.m02502)
758Not regulatedNC-NC-NC264018_atAt2g21170triosephosphate isomerase, chloroplast, putative similar to Triosephosphate isomerase, chloroplast precursor. SP|P48496 from
Spinacia oleracea, SP|P46225 from Secale cereale (68415.m02511)
759Not regulatedNC-NC-NC264019_atAt2g21130peptidyl-prolyl cis-trans isomerase/cyclophilin (CYP2)/rotamase identical to cyclophilin [Arabidopsis thaliana]
gi|2443757|gb|AAB71402: similar to peptidyl-prolyl cis-trans isomerase, PPlase (cyclophilin, cyclosporin A-binding protein)
[Arabidopsis thaliana] SWISS-PROT: P34790 (68415.m02507)
760Not regulatedNC-NC-NC264020_atAt2g21160translocon-associated protein alpha (TRAP alpha) family protein contains Pfam profile: PF03896 translocon-associated protein
(TRAP), alpha subunit (68415.m02510)
761Not regulatedNC-NC-NC264022_atAt2g21185expressed protein (68415.m02513)
762Not regulatedNC-NC-NC264024_atAt2g21180expressed protein (68415.m02512)
763Not regulatedNC-NC-NC263978_atAt2g42680ethylene-responsive transcriptional coactivator, putative similar to ethylene-responsive transcriptional coactivator [Lycopersicon
esculentum] gi|5669634|gb|AAD46402 (68415.m05283)
764Not regulatedNC-NC-NC263980_atAt2g42770peroxisomal membrane 22 kDa family protein contains Mpv17/PMP22 family domain, Pfam: PF04117 (68415.m05296)
765Not regulatedNC-NC-NC263986_atAt2g42790citrate synthase, glyoxysomal, putative strong similarity to SP|P49299 Citrate synthase, glyoxysomal precursor {Cucurbita maxima};
contains Pfam profile PF00285: Citrate synthase (68415.m05298)
766Not regulatedNC-NC-NC263987_atAt2g42690lipase, putative similar to lipase [Dianthus caryophyllus] GI: 4103627; contains Pfam profile PF01764: Lipase (68415.m05285)
767Not regulatedNC-NC-NC263990_atAt2g42810serine/threonine protein phosphatase, putative similar to SP|P53042 Serine/threonine protein phosphatase 5 (EC 3.1.3.16) (PP5)
(Protein phosphatase T) (PPT) {Rattus norvegicus}: contains Pfam profiles PF00149: Ser/Thr protein phosphates., PF00515: TPR
Domain (68415.m05300)
768Not regulatedNC-NC-NC263938_atAt2g35900expressed protein (68415.m04407)
769Not regulatedNC-NC-NC263939_atAt2g36070mitochondrial import inner membrane translocase subunit TIM44, putative contains similarity to Swiss-Prot: O35857 import inner
membrane translocase subunit TIM44, mitochondrial precursor [Mus musculus]; contains Pfam domian PF04280: Mitochondrial
import inner membrane, translocase subunit TIM44 (68415.m04429)
770Not regulatedNC-NC-NC263949_atAt2g36060ubiquitin-conjugating enzyme family protein similar to DNA-binding protein CROC-1B [Homo sapiens] GI: 1066082; contains Pfam
profile PF00179: Ubiquitin-conjugating enzyme (68415.m04427)
771Not regulatedNC-NC-NC263951_atAt2g35960harpin-induced family protein/HIN1 family protein/harpin-responsive family protein similar to harpin-induced protein hin1
(GI: 1619321) [Nicotiana tabacum] (68415.m04414)
772Not regulatedNC-NC-NC263954_atAt2g35840sucrose-phosphatase 1 (SPP1) identical to sucrose-phosphatase (SPP1) [Arabidopsis thaliana] GI: 11127757 (68415.m04400)
773Not regulatedNC-NC-NC263956_atAt2g35940homeodomain-containing protein contains ‘Homeobox’ domain signature, Prosite: PS00027 (68415.m04411)
774Not regulatedNC-NC-NC263958_atAt2g38240pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68415.m04448)
775Not regulatedNC-NC-NC263928_atAt2g36330integral membrane protein, putative contains 4 transmembrane domains; contains Pfam PF04535: Domain of unknown function
(DUF588); similar to putative ethylene responsive element binding protein (GI: 22135858) [Arabidopsis thaliana] (68415.m04459)
776Not regulatedNC-NC-NC263929_atAt2g36310inosine-uridine preferring nucleoside hydrolase family protein similar to Chain A, Crystal Structure Of Nucleoside Hydrolase From
Leishmania Major GI: 8569431; contains Pfam profile PF01156: Inosine-uridine preferring nucleoside hydrolase (68415.m04457)
777Not regulatedNC-NC-NC263930_atAt2g36300integral membrane Yip1 family protein contains Pfam domain, PF04893: Yip1 domain (68415.m04455)
778Not regulatedNC-NC-NC263904_atAt2g36380ABC transporter family protein related to multi drug resistance proteins and P-glycoproteins (68415.m04484)
779Not regulatedNC-NC-NC263906_atAt2g36250chloroplast division protein FtsZ (FtsZ2-1) identical to chloroplast division protein AtFtsZ2-1 [Arabidopsis thaliana] GI: 15636809,
plastid division protein FtsZ [Arabidopsis thaliana] GI: 14195704 (68415.m04449)
780Not regulatedNC-NC-NC263920_atAt2g36410expressed protein contains Pfam profile PF04949: Family of unknown function (DUF662) (68415.m04469)
781Not regulatedNC-NC-NC263921_atAt2g36460fructose-bisphosphate aldolase, putative similar to PIR|S65073 fructose-bisphosphate aldolase (EC 4.1.2.13) isoenzyme C-1,
cytosolic [Oryza sativa]; contains Pfam profile PF00274 Fructose-bisphosphate aldolase class-I (68415.m04475)
782Not regulatedNC-NC-NC263922_s_atAt2g36580pyruvate kinase, putative similar to pyruvate kinase, cytosolic isozyme [Glycine max] SWISS-PROT: Q42806 (68415.m04486)
783Not regulatedNC-NC-NC263898_atAt2g21950SKP1 interacting partner 6 (SKIP6) identical to SKP1 interacting partner 6 GI: 10716957 from [Arabidopsis thaliana]
(68415.m02608)
784Not regulatedNC-NC-NC263873_atAt2g21860violaxanthin de-epoxidase-related contains weak similarity to violaxanthin de-epoxidase precursor gi|1438875|gb|AAC49373
(68415.m02597)
785Not regulatedNC-NC-NC263874_atAt2g21870expressed protein (68415.m02598)
786Not regulatedNC-NC-NC263880_atAt2g21960expressed protein (68415.m02609)
787Not regulatedNC-NC-NC263886_atAt2g36960myb family transcription factor contains Pfam profile: PF00249 myb-like DNA-binding domain (68415.m04532)
788Not regulatedNC-NC-NC263867_atAt2g36830major intrinsic family protein/MIP family protein contains Pfam profile: MIP PF00230 (68415.m04516)
789Not regulatedNC-NC-NC263840_atAt2g36885expressed protein (68415.m04522)
790Not regulatedNC-NC-NC263842_atAt2g36835expressed protein (68415.m04517)
791Not regulatedNC-NC-NC263856_atAt2g04410expressed protein (68415.m00445)
792Not regulatedNC-NC-NC263859_atAt2g04360expressed protein (68415.m00437)
793Not regulatedNC-NC-NC263862_atAt2g04550dual specificity protein phosphatase family protein contains Pfam profile: PF00782 dual specificity phosphates, catalytic domain
(68415.m00461)
794Not regulatedNC-NC-NC263808_atAt2g04340expressed protein (68415.m00431)
795Not regulatedNC-NC-NC263809_atAt2g04570GDSL-motif lipase/hydrolase family protein similar to family II lipase EXL3 (GI: 15054388), EXL1 (GI: 15054382), EXL2
(GI: 15054384) [Arabidopsis thaliana] ; contains Pfam profile PF00657: Lipase/Acylhydrolase with GDSL-like motif (68415.m00465)
796Not regulatedNC-NC-NC263810_atAt2g04520eukaryotic translation initiation factor 1A, putative/eIF-1A, putative/eIF-4C, putative strong similarity to translation initiation factor
(eIF-1A) [Beta vulgaris] GI: 17977975; contains Pfam profile PF01176: Eukaryotic initiation factor 1A (68415.m00458)
797Not regulatedNC-NC-NC263811_atAt2g04350long-chain-fatty-acid-CoA ligase family protein/long-chain acyl-CoA synthetase family protein (LACS8) similar to LACS 4
[SP|O35547] from Rattus norvegicus, LACS 4 [S9|O60488] from Homo sapiens; contains Pfam HMM hit: AMP-binding enzymes
PF00501 (68415.m00433)
798Not regulatedNC-NC-NC263821_s_atAt2g0999040S ribosomal protein S16 (RPS16A) Same as GB: Q42340 (68415.m01037)
799Not regulatedNC-NC-NC263824_atAt2g40360transducin family protein/WD-40 repeat family protein contains 4 WD-40 repeats (PF00400); similar to block of proliferation
protein Bop1 (GI: 1679772) [Mus musculus] (68415.m04977)
800Not regulatedNC-NC-NC263826_atAt2g40410Ca(2+)-dependent nuclease, putative similar to Ca(2+)-dependent nuclease [Arabidopsis thaliana] GI: 7684292 (68415.m04983)
801Not regulatedNC-NC-NC263831_atAt2g40300ferritin, putative similar to ferritin subunit cowpea2 precursor [Vigna unguiculata] GI: 2970654; contains Pfam profile PF00210:
Ferritin-like domain (68415.m04964)
802Not regulatedNC-NC-NC263835_atAt2g40290eukaryotic translation initiation factor 2 subunit 1, putative/eIF-2A, putative/eIF-2-alpha, putative similar to Swiss-Prot: P05198
eukaryotic translation initiation factor 2 subunit 1 (Eukaryotic translation initiation factor 2 alpha subunit) (eIF-2-alpha) (EIF-2alpha)
(EIF-2A) [Homo sapiens] (68415.m04960)
803Not regulatedNC-NC-NC263802_atAt2g40430expressed protein identical to Protein At2g40430 (Swiss-Prot: O22892) [Arabidopsis thaliana]; similar to Glioma tumor suppressor
candidate region gene 2 protein (p60) (Swiss-Prot: Q9NZM5) [Homo sapiens] (68415.m04986)
804Not regulatedNC-NC-NC263805_atAt2g40400expressed protein similar to GI: 7572912 (At3g56140)[Arabidopsis thaliana] (68415.m04981)
805Not regulatedNC-NC-NC263774_atAt2g40280dehydration-responsive family protein similar to early-responsive to dehydration stress ERD3 protein [Arabidopsis thaliana]
GI: 15320410; contains Pfam profile PF03141: Putative methyltransferase (68415.m04958)
806Not regulatedNC-NC-NC263776_s_atAt2g46440cyclic nucleotide-regulated ion channel, putative (CNGC11) similar to cyclic nucleotide and calmodulin-regulated ion channel
(cngc3) GI: 4581201 from [Arabidopsis thaliana] (68415.m05779)
807Not regulatedNC-NC-NC263778_atAt2g46470OXA1 protein, putative similar to Oxa1 protein [Arabidopsis thaliana] GI: 10176922 (68415.m05783)
808Not regulatedNC-NC-NC263785_atAt2g46390expressed protein (68415.m05774)
809Not regulatedNC-NC-NC263786_atAt2g46370auxin-responsive GH3 family protein similar to auxin-responsive GH3 product [Glycine max] GI: 18591; contains Pfam profile
PF03321: GH3 auxin-responsive promoter (68415.m05770)
810Not regulatedNC-NC-NC263787_atAt2g46420expressed protein (68415.m05777)
811Not regulatedNC-NC-NC263796_atAt2g24540kelch repeat-containing F-box family protein similar to SKP1 interacting partner 4 [Arabidopsis thaliana] GI: 10716953: contains
Pfam profiles PF01344: Kelch motif, PF00646: F-box domain (68415.m02931)
812Not regulatedNC-NC-NC263797_atAt2g24570WRKY family transcription factor identical to WRKY transcription factor 17 GI: 15991743 from [Arabidopsis thaliana]
(68415.m02934)
813Not regulatedNC-NC-NC263799_atAt2g24550expressed protein weak similarity to MTD1 [Medicago truncatula] GI: 9294810 (68415.m02932)
814Not regulatedNC-NC-NC263750_atAt2g21530forkhead-associated domain-containing protein/FHA domain-containing protein (68415.m02562)
815Not regulatedNC-NC-NC263756_atAt2g21270ubiquitin fusion degradation UFD1 family protein similar to SP|P70362 Ubiquitin fusion degradation protein 1 homolog (UB fusion
protein 1) {Mus musculus}; contains Pfam profile PF03152: Ubiquitin fusion degradation protein UFD1 (68415.m02532)
816Not regulatedNC-NC-NC263759_atAt2g21290expressed protein (68415.m02534)
817Not regulatedNC-NC-NC263760_atAt2g21280expressed protein similar to YfhF (GI: 2804536) [Bacillus subtilis] (68415.m02533)
818Not regulatedNC-NC-NC263761_atAt2g21330fructose-bisphosphate aldolase, putative strong similarity to plastidic fructose-bisphosphate aldolase (EC 4.1.2.13) from Nicotiana
paniculata (NPALDP1) [GI: 4827251], Oryza sativa, PIR2: T02057 [SP|Q40677] (68415.m02538)
819Not regulatedNC-NC-NC263764_atAt2g21410vacuolar proton ATPase, putative similar to vacuolar proton ATPase 100-kDa subunit from Dictyostelium discoideum
P|1384136|gb|AAB49621 (68415.m02548)
820Not regulatedNC-NC-NC263766_atAt2g21440RNA recognition motif (RRM)-containing protein contains InterPro entry IPR000504: RNA-binding region RNP-1 {RNA recognition
motif} (RRM) (68415.m02551)
821Not regulatedNC-NC-NC263712_atAt2g20585expressed protein (68415.m02405)
822Not regulatedNC-NC-NC263717_atAt2g13560malate oxidoreductase, putative similar to NAD-dependent malic enzyme 62 kDa isoform, mitochondrial precursor (EC 1.1.1.39)
(NAD-ME) (SP: P37221) {Solanum tuberosum} (68415.m01495)
823Not regulatedNC-NC-NC263722_atAt2g13650GDP-mannose transporter (GONST1) identical to GDP-mannose transporter SP: Q941R4 from [Arabidopsis thaliana]
(68415.m01504)
824Not regulatedNC-NC-NC263726_atAt2g13610ABC transporter family protein (68415.m01500)
825Not regulatedNC-NC-NC263727_atAt2g13540mRNA cap-binding protein (ABH1) identical to mRNA cap binding protein [Arabidopsis thaliana] GI: 15192738; contains Pfam profile
PF02854: MIF4G domain; identical to cDNA nuclear cap-binding protein CBP80 GI: 8515770 (68415.m01493)
826Not regulatedNC-NC-NC263737_atAt1g60010expressed protein (68414.m06761)
827Not regulatedNC-NC-NC263685_atAt1g26830cullin, putative similar to Cutlin homolog 3 (CUL-3) SP: Q13618, GI: 3639052 from [Homo sapiens]; contains Pfam profile PF00888:
Cullin family (68414.m03270)
828Not regulatedNC-NC-NC263686_atAt1g2691060S ribosomal protein L10 (RPL108) Nearly identical to ribosomal protein L10.e, Wilm's tumor suppressor homologue, gi|17682
(Z15157), however differences in sequence indicate this is a different member of the L10 family (68414.m03281)
829Not regulatedNC-NC-NC263888_atAt1g26920expressed protein Location of EST 228A16T7A, gb|N65686 (68414.m03282)
830Not regulatedNC-NC-NC263691_atAt1g2688060S ribosomal protein L34 (RPL34A) identical to GB: Q42351, location of EST 105E2T7, gb|T22624 (68414.m03278)
831Not regulatedNC-NC-NC263693_atAt1g31200expressed protein (68414.m03819)
832Not regulatedNC-NC-NC263701_atAt1g31160zinc-binding protein, putative/protein kinase C inhibitor, putative similar to 14 kDa zinc-binding protein (Protein kinase C inhibitor,
PKCI) [Zea Mays] Swiss-Prot: P42856 (68414.m03812)
833Not regulatedNC-NC-NC263703_atAt1g31170parB-like nuclease domain-containing protein contains Pfam profile PF02195: ParB-like nuclease domain (68414.m03815)
834Not regulatedNC-NC-NC263704_atAt1g31130expressed protein (68414.m03809)
835Not regulatedNC-NC-NC263705_atAt1g31190inositol monophosphatase family protein similar to SP|P29218 Myo-inositol-1(or 4)-monophosphatase (EC 3.1.3.25) (Inositol
monophosphatase) {Homo sapiens}; contains Pfam profile PF00459: Inositol monophosphatase family; EST gb|AA597395 comes
from this gene (68414.m03818)
836Not regulatedNC-NC-NC263709_atAt1g09310expressed protein contains Pfam profile PF04398: Protein of unknown function, DUF538 (68414.m01042)
837Not regulatedNC-NC-NC263678_atAt1g04420aldo/keto reductase family protein Similar to SP|Q46933 Tas protein {Escherichia coli}, Babesia aldo-keto reductase SP|P40690;
contains Pfam profile PF00248: oxidoreductase, aldo/keto reductase family (68414.m00433)
838Not regulatedNC-NC-NC263651_atAt1g04340lesion inducing protein-related similar to ORF, able to induce HR-like lesions [Nicotiana tabacum] (68414.m00424)
839Not regulatedNC-NC-NC263654_atAt1g04300meprin and TRAF homology domain-containing protein/MATH domain-containing protein weak similarity to ubiquitin-specific
protease 12 [Arabidopsis thaliana] GI: 11993471; contains Pfam PF00917; Meprin And TRAF-Homology (MATH) domain
(68414.m00421)
840Not regulatedNC-NC-NC263660_atAt1g04260prenylated rab acceptor (PRA1) family protein weak similarity to prenylated Rab acceptor [Mus musculus] GI: 7716652; contains
Pfam profile PF03208: Prenylated rab acceptor (PRA1) (68414.m00417)
841Not regulatedNC-NC-NC263661_atAt1g04290thioesterase family protein contains Pfam profile PF03061: thioesterase family protein; EST gb|T45093 comes from this gene
(68414.m00420)
842Not regulatedNC-NC-NC263663_atAt1g04410malate dehydrogenase, cytosolic, putative strong similarity to malate dehydrogenase from Mesembryanthemum crystallinum
[SP|O24047], Medicago sativa [SP|O48905], Prunus persica [GI: 15982948]; contains InterPro entry IPR001236: Lactate/malate
dehydrogenase (68414.m00432)
843Not regulatedNC-NC-NC263666_atAt1g04510transducin family protein/WD-40 repeat family protein contains 6 WO-40 repeats (PF00400); similar to cell cycle control protein
cwf6 (SP: O14011) [Schizosaccharomyces pombe (Fission yeast)] (68414.m00442)
844Not regulatedNC-NC-NC263667_atAt1g0427040S ribosomal protein S15 (RPS15A) Strong similarity to Oryza 40S ribosomal protein S15. ESTs gb|R29788, gb|ATTS0365 come
from this gene (68414.m00418)
845Not regulatedNC-NC-NC263688_atAt1g043502-oxoglutarate-dependent dioxygenase, putative Similar to Arabidopsis 2A6 (gb|X83096) and to tomato ethylene synthesis
regulatory protein E8 (SP|P10967); EST gb|T76913 comes from this gene (68414.m00425)
846Not regulatedNC-NC-NC263669_atAt1g04400cryptochrome 2 apoprotein (CRY2)/blue light photoreceptor (PHH1) 97% identical to photolysase (PHH1) (SP: Q96524) and
cryptochrome 2 apoprotein (CRY2) (SP: U43397). ESTs gb|W43661 and gb|Z25638 come from this gene; contains Pfam profiles
PF03441: FAD binding domain of DNA photolyase and PF00875: deoxyribodipyrimidine photolyase; identical to cDNA Cvi
cryptochrome 2 (CRY2) GI: 18026275 (68414.m00430)
847Not regulatedNC-NC-NC263673_atAt2g04800expressed protein (68415.m00493)
848Not regulatedNC-NC-NC263647_atAt2g04690cellular repressor of E1A-stimulated genes (GREG) family contains 1 transmembrane domain; similar to CREG2 (GI: 24371079)
[Homo sapiens] and (GI: 24371081) [Mus muscutus]; similar to cellular repressor of E1A-stimulated genes CREG (GI: 3550343)
[Homo sapiens] (68415.m00479)
849Not regulatedNC-NC-NC283821_atAt2g04830DNA-directed RNA polymerase II, putative similar to SP|Q24320 DNA-directed RNA polymerase II 14.4 kDa polypeptide (EC
2.7.7.6) (RP86) {Drosophila melanogaster}; contains PfaM profile PF01192: RNA polymerases K/14 to 18 kDa subunit
(68415.m00473)
850Not regulatedNC-NC-NC263624_atAt2g04700ferredoxin thioredoxin reductase catalytic beta chain family protein contains Pfam profile: PF02943 ferredoxin thioredoxin
reductase catalytic beta (68415.m00480)
851Not regulatedNC-NC-NC263831_atAt2g04900expressed protein (68415.m00509)
852Not regulatedNC-NC-NC263632_atAt2g04795expressed protein (68415.m00492)
853Not regulatedNC-NC-NC263636_atAt2g11910expressed protein (68415.m01277)
854Not regulatedNC-NC-NC263637_atAt2g11890expressed protein (68415.m01276)
855Not regulatedNC-NC-NC263589_atAt2g25280expressed protein (68415.m03024)
856Not regulatedNC-NC-NC263591_atAt2g01910microtubule associated protein (MAP65/ASE1) family protein low similarity to protein regulating cytokinesis 1 (PRC1) [Homo
sapiens] GI: 2865521; contains Pfam profile PF03999: Microtubule associated protein (MAP65/ASE1 family) (68415.m00125)
purple acid phosphatase, putative contains Pfam profile: PF00149 calcineurin-like phosphoesterase; identical to purple acid
857Not regulatedNC-NC-NC263595_atAt2g01890phosphatase (GI: 20257479) [Arabidopsis thaliana]; (68415.m00122)
858Not regulatedNC-NC-NC263557_atAt2g16400homeodomain-containing protein (68415.m01877)
859Not regulatedNC-NC-NC263550_atAt2g17033pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68415.m01964)
860Not regulatedNC-NC-NC263552_x_atAt2g24980proline-rich extensin-like family protein contains proline-rich extensin domains, INTERPRO: IPR002965 (68415.m02987)
861Not regulatedNC-NC-NC263529_atAt2g24765ADP-ribosylation factor 3 (ARF3) identical to GP: 453191 ADP-ribosylation factor 3 {Arabidopsis thaliana}; contains domain
PF00025: ADP-ribosylation factor family (68415.m02959)
862Not regulatedNC-NC-NC263532_s_atAt5g37350RIO1 family protein similar to extragenic suppressor of the bimD6 mutation (SUDD) [Emericella nidulans] GI: 2338556, RIO1
[Saccharomyces cerevisiae] GI: 1359602: contains Pfam profile PF01163: RIO1 family (68416.m04486)
863Not regulatedNC-NC-NC263533_atAt2g24820Rieske [2Fe—2S] domain-containing protein similar to Rieske iron-sulfur protein Tic55 from Pisum sativum [gi: 2764524]; contains
Pfam PF00355 Rieske [2Fe—2S] domain (68415.m02969)
864Not regulatedNC-NC-NC263537_atAt2g24790zinc finger (B-box type) family protein (68415.m02963)
865Not regulatedNC-NC-NC263541_atAt2g24860chaperone protein dnaJ-related similar to Tsi1-interacting protein TSIP1 (GI: 4337001) [Nicotiana tabacum] (68415.m02973)
866Not regulatedNC-NC-NC263549_atAt2g21650myb family transcription factor contains PFAM profile: PF00249 myb-like DNA-binding domain (68415.m02575)
867Not regulatedNC-NC-NC263516_atAt2g21600RER1B protein identical to SP|O48671 RER1B protein (AtRER1B) {Arabidopsis thaliana} (68415.m02569)
868Not regulatedNC-NC-NC263517_atAt2g21620universal stress protein (USP) family protein/responsive to dessication protein (RD2) strong similarity to RD2 protein [Arabidopsis
thaliana] GI: 15320408; contains Pfam profile PF00582: universal stress protein family; identical to cDNA RD2 GI: 15320407
(68415.m02571)
869Not regulatedNC-NC-NC263519_atAt2g2158040S ribosomal protein S25 (RPS25B) (68415.m02567)
870Not regulatedNC-NC-NC263491_atAt2g42600phosphoenolpyruvate carboxylase, putative/PEP carboxylase, putative (PPC2) strong similarity to phosphoenolpyruvate
carboxylase [Brassica napus] GI: 507808; contains Pfam profile PF00311: phosphoenolpyruvate carboxylase (68415.m05271)
871Not regulatedNC-NC-NC263493_atAt2g42520DEAD box RNA helicase, putative similar to SP|O00571 DEAD-box protein 3 (Helicase-like protein 2) {Homo sapiens}, DEAD box
RNA helicase DDX3 [Homo sapiens] GI: 3523150; contains Pfam profiles PF00270: DEAD/DEAH box helicase, PF00271: Helicase
conserved C-terminal domain (68415.m05262)
872Not regulatedNC-NC-NC263494_atAt2g4259014-3-3 protein GF14 mu (GRF9) identical to GF14 mu GI: 3551052, SP: Q96299 from [Arabidopsis thaliana] (68415.m05270)
873Not regulatedNC-NC-NC263495_atAt2g42530cold-responsive protein/cold-regulated protein (cor15b) nearly identical to cold-regulated gene cor15b [Arabidopsis thaliana]
GI: 456016; contains Pfam profile PF02987: Late embryogenesis abundant protein (68415.m05263)
874Not regulatedNC-NC-NC263496_atAt2g42570expressed protein (68415.m05268)
875Not regulatedNC-NC-NC263513_atAt2g12400expressed protein (68415.m01339)
876Not regulatedNC-NC-NC263488_atAt2g31840expressed protein (68415.m03888)
877Not regulatedNC-NC-NC263459_atAt2g31820ankyrin repeat family protein contains ankyrin repeat domains, Pfam: PF00023 (68415.m03886)
878Not regulatedNC-NC-NC263461_atAt2g31800ankyrin protein kinase, putative similar to ankyrin-kinase [Medicago truncatula] gi|18700701|gb|AAL78674; contains Pfam profile
PF00023: Ankyrin repeat identical to cDNA calcineurin B-like protein 10 (CBL10) GI: 29150247; blastp match of 67% identity and
1.9e−200 P-value to GP|18700701|gb|AAL78674.1|AF458699_1|AF458699 ankyrin-kinase {Medicago truncatula} (68415.m03882)
879Not regulatedNC-NC-NC263466_atAt2g31740expressed protein (68415.m03876)
880Not regulatedNC-NC-NC263472_atAt2g31950
881Not regulatedNC-NC-NC263473_atAt2g31750UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
transferase (68415.m03877)
882Not regulatedNC-NC-NC263482_atAt2g03980GDSL-motif lipase/hydrolase family protein similar to Anther-specific proline-rich protein APG from Brassica napus (SP|P40603),
Arabidopsis thaliana (GI: 22599); contains Pfam profile PF00857: Lipase/Acylhydrolase with GDSL-like motif (68415.m00365)
883Not regulatedNC-NC-NC263483_atAt2904030heat shock protein, putative strong similarity to heat shock protein [Arabidopsis thaliana] GI: 1906830; contains Pfam profiles
PF02518: ATPase, histidine kinase-, DNA gyrase B-, and HSP90-like domain protein, PF00183: Hsp90 protein (68415.m00371)
884Not regulatedNC-NC-NC263428_atAt2g22310ubiquitin-specific protease 4 (UBP4) identical to GI: 2347100 (68415.m02647)
885Not regulatedNC-NC-NC263429_atAt2g22250aminotransferase class I and II family protein similar to aspartate aminotransferase from Bacillus stearothermophilus SP|Q59228,
Thermus aquaticus SP|O33822; contains Pfam profile PF00155 aminotransferase, classes I and II (68415.m02641)
886Not regulatedNC-NC-NC263442_atAt2g28605expressed protein (68415.m03477)
887Not regulatedNC-NC-NC263424_atAt2g31510IBR domain-containing protein/ARIADNE-like protein ARI7 (ARI7) identical to ARIADNE-like protein ARI7 [Arabidopsis thaliana]
GI: 29125028; contains similarity to Swiss-Prot: Q94981 ariadne-1 protein (Ari-1) [Drosophila melanogaster]:contains Pfam profile
PF01485: IBR domain (68415.m03850)
888Not regulatedNC-NC-NC263425_atAt2g31530secY family protein low similarity to SP|P31159 Preprotein translocase secY subunit {Synechococcus sp}; contains Pfam profile
PF00344: eubacterial secY protein (68415.m03852)
889Not regulatedNC-NC-NC263396_atAt2g31710expressed protein (68415.m03870)
890Not regulatedNC-NC-NC263398_atAt2g31680Ras-related GTP-binding protein, putative similar to GTP-binding protein GI: 289370 from [Brassica napus] (68415.m03867)
891Not regulatedNC-NC-NC263399_atAt2g31490expressed protein (68415.m03846)
892Not regulatedNC-NC-NC263400_s_atAt2g3161040S ribosomal protein S3 (RPS3A) (68415.m03862)
893Not regulatedNC-NC-NC263406_atAt2904160subtilisin-like protease (AIR3) almost identical to subtilisin-like protease AIR3 GI: 4218991 from [Arabidopsis thaliana] , missing 200
aa at N-terminus (68415.m00400)
894Not regulatedNC-NC-NC263410_atAt2g04039expressed protein (68415.m00383)
895Not regulatedNC-NC-NC263411_atAt2g28710zinc finger (C2H2 type) family protein contains Pfam domain, PF00096: Zinc finger, C2H2 type (68415.m03490)
896Not regulatedNC-NC-NC263413_atAt2g21240expressed protein (68415.m02524)
897Not regulatedNC-NC-NC263414_atAt2g21230bZIP family transcription factor contains a bZIP transcription factor basic domain signature (PDOC00036) (68415.m02520)
898Not regulatedNC-NC-NC263415_atAt2g17250expressed protein weak similarity to Ribosome biogenesis protein MAK21 (Swiss-Prot: Q12176) [Saccharomyces cerevisiae]
(68415.m01992)
899Not regulatedNC-NC-NC263419_atAt2g17220protein kinase, putative similar to protein kinase APK1A [Arabidopsis thaliana] Swiss-Prot: Q06548 (68415.m01988)
900Not regulatedNC-NC-NC263420_atAt2g17240expressed protein (68415.m01991)
901Not regulatedNC-NC-NC263422_s_atAt2g17200ubiquitin family protein weak similarity to PLIC-2 (ubiquitin-like type II) [Homo sapiens] GI: 9937505; contains Pfam profiles
PF00240: Ubiquitin family, PF00627: UBA/TS-N domain (68415.m01986)
902Not regulatedNC-NC-NC263371_atAt2g20490nucleolar RNA-binding Nop10p family protein similar to Nop10p (GI: 8096260) [Homo sapiens] (68415.m02392)
903Not regulatedNC-NC-NC263334_atAt2g03820nonsense-mediated mRNA decay NMD3 family protein contains Pfam profile: PF04981 NMD3 family (68415.m00343)
904Not regulatedNC-NC-NC263344_atAt2904940scramblase-related weak similarity to Phospholipid scramblase 1 (PL scrambles 1) (Ca(2)-dependent phospholipid scrambles 1)
(Transplantability associated protein 1) (TRA1) (NOR1) (Swiss-Prot: Q9JJ00) [Mus musculus); weak similarity to Phospholipid
scrambles 4 (PL scrambles 4) (Ca(2)-dependent phospholipid scrambles 4) (Swiss-Prot: Q9NRO2) [Homo sapiens]
(68415.m00516)
905Not regulatedNC-NC-NC263345_s_atAt2g05070chlorophyll A-B binding protein/LHCII type II (LHCB2.2) identical to Lhcb2 protein [Arabidopsis thaliana] GI: 4741946; contains
Pfam profile PF00504: Chlorophyll A-B binding protein (68415.m00529)
906Not regulatedNC-NC-NC263350_atAt2g13360serine-glyoxylate aminotransferase-related similar to serine-glyoxylate aminotransferase (GI: 21535798) [Methylobacterium
dichloromethanicum; contains TIGRFAM TIGR01364: phosphoserine aminotransferase; contains Pfam PF00266:
aminotransferase, class V|(68415.m01474)
907Not regulatedNC-NC-NC263351_atAt2g22120zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68415.m02826)
908Not regulatedNC-NC-NC263356_atAt2g22090UBP1 interacting protein 1a (UBA1a) nearly identical to UBP1 interacting protein 1a [Arabidopsis thaliana] GI: 19574238; contains
InterPro entry IPR000504: RNA-binding region RNP-1 (RNA recognition motif) (RRM); based on cDNA of partial mRNA for UBP1
interacting protein 1a (uba1a) GI: 19574235 (68415.m02823)
909Not regulatedNC-NC-NC263359_atAt2g15230lipase family protein similar to SP|P07098 Triacylglycerol lipase, gastric precursor (EC 3.1.1.3) {Homo sapiens}; contains Pfam
profile PF04083: ab-hydrolase associated lipase region (68415.m01737)
910Not regulatedNC-NC-NC263303_atAt2g15240UNC-50 family protein contains Pfam profile PF05216: UNC-50 family; contains 5 transmembrane domains; similar to inner nuclear
membrane RNA-binding protein unc-50 related protein (GI: 2735550) [Rattus norvegicus] (68415.m01738)
911Not regulatedNC-NC-NC263321_atAt2g47170ADP-ribosylation factor 1 (ARF1) identical to ADP-ribosylation factor ARF1({Arabidopsis thaliana} (SP: P36397) (GP: 166586)
912Not regulatedNC-NC-NC263325_atAt2g04240zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger. C3HC4 type (RING finger)
(68415.m00412)
913Not regulatedNC-NC-NC263330_atAt2g15320leucine-rich repeat family protein contains leucine rich-repeat (LRR) domains Pfam: PF00560, INTERPRO: IPR001611
(68415.m01747)
914Not regulatedNC-NC-NC263331_atAt2g15270expressed protein (68415.m01741)
915Not regulatedNC-NC-NC263274_atAt2g11520protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68415.m01242)
916Not regulatedNC-NC-NC263286_atAt2g3616040S ribosomal protein S14 (RPS14A) (68415.m04438)
917Not regulatedNC-NC-NC263288_atAt2g36130peptidyl-prolyl cis-trans isomerase, putative/cyclophilin, putative/rotamase, putative contains Pfam domain, PF03160: peptidyl-
prolyl cis-trans isomerase, cyclophilin-type (68415.m04436)
918Not regulatedNC-NC-NC263296_atAt2g38800calmodulin-binding protein-related contains similarity to potato calmodulin-binding protein PCBP GI: 17933110 from [Solanum
tuberosum] (68415.m04764)
919Not regulatedNC-NC-NC263267_atAt2g16510vacuolar ATP synthase 16 kDa proteolipid subunit 5/V-ATPase 16 kDa proteolipid subunit 5 (AVAP5) identical to SP|P59227
Vacuolar ATP synthase 16 kDa proteolipid subunit 1/3/5 (EC 3.6.3.14) (V-ATPase 16 kDa proteolipid subunit 1/3/5) {Arabidopsis
thaliana} GI: 926929; contains Pfam profile PF00137: ATP synthase subunit C (68415.m01893)
920Not regulatedNC-NC-NC263243_atAt2g31350hydroxyacylglutathione hydrolase, putative/glyoxalase II, putative similar to glyoxalase II isozyme [Arabidopsis thaliana]
gi|2570338|gb|AAC49865 (68415.m03829)
921Not regulatedNC-NC-NC263253_atAt2g31370bZIP transcription factor (POSF21) identical to GB: Q04088 (68415.m03832)
922Not regulatedNC-NC-NC263255_atAt1g10490expressed protein contains Pfam profile PF05127: Putative ATPase (DUF699) (68414.m01181)
923Not regulatedNC-NC-NC263256_atAt1g10500hesB-like domain-containing protein similar to IscA (putative iron-sulfur duster assembly protein) [Azotobacter vinelandii]
GI: 2271523; contains Pfam profile PF01521: HesB-like domain (68414.m01182)
924Not regulatedNC-NC-NC263235_atAt1g10430serine/threonine protein phosphatase PP2A-1 catalytic subunit (PP2A1) identical to SP|Q07098 Serine/threonine protein
phosphatase PP2A-1 catalytic subunit (EC 3.1.3.16) {Arabidopsis thaliana}; contains Pfam profile PF00149: Ser/Thr protein
phosphatase (68414.m01175)
925Not regulatedNC-NC-NC263206_atAt1g10590DNA-binding protein-related contains weak similarity to G-quartet DNA binding protein 3 [Tetrahymena thermophila]
gi|4583503|gb|AAD25098 (68414.m01194)
926Not regulatedNC-NC-NC263208_atAt1g10480zinc finger (C2H2 type) family protein contains Pfam profile: PF00096 zinc finger, C2H2 type (68414.m01180)
927Not regulatedNC-NC-NC263209_atAt1g10522expressed protein (68414.m01185)
928Not regulatedNC-NC-NC263222_atAt1930640protein kinase, putative contains protein kinase domain, Pfam: PF00069 (68414.m03747)
929Not regulatedNC-NC-NC263224_atAt1g30580expressed protein (68414.m03741)
930Not regulatedNC-NC-NC263226_atAt1g30690SEC14 cytosolic factor family protein/phosphoglyceride transfer family protein contains Pfam PF00650: CRAL/TRIO domain;
contains Pfam PF03765: CRAL/TRIO, N-terminus; similar to cytosolic factor (Phosphatidylinositol/phosphatidylcholine transfer
protein) (PI/PCTP) (SP: P24280) [Saccharomyces cerevisiae]; ESTs gb|T76582, gb|N06574 and gb|Z25700 come from this gene
(68414.m03752)
931Not regulatedNC-NC-NC263227_atAt1g30750expressed protein (68414.m03758)
932Not regulatedNC-NC-NC263205_atAt1g05500C2 domain-containing protein similar to Ca2+-dependent lipid-binding protein (CLB1) GI: 2789434 from [Lycopersicon esculentum]
(68414.m00561)
933Not regulatedNC-NC-NC263179_atAt1g05710ethylene-responsive protein, putative similar to ethylene-inducible ER33 protein [Lycopersicon esculentum]
gi|5669656|gb|AAD46413; identical to bHLH transcription factor (bHLH-alpha gene) (68414.m00592)
934Not regulatedNC-NC-NC263180_atAt1g05620inosine-uridine preferring nucleoside hydrolase family protein similar to Chain A, Crystal Structure Of Nucleoside Hydrolase From
Leishmania MajorGI: 8569431; contains Pfam profile PF01156: Inosine-uridine preferring nucleoside hydrolase (68414.m00583)
935Not regulatedNC-NC-NC263181_atAt1g05720selenoprotein family protein contains Prosite PS00190: Cylochrome c family heme-binding site signature; similar to 15 kDa
selenoprotein (GI: 12314088) {Homo sapiens} (68414.m00596)
936Not regulatedNC-NC-NC263183_atAt1g05570callose synthase 1 (CALS1)/1,3-beta-glucan synthase 1 nearly identical to callose synthase 1 catalytic subunit [Arabidopsis
thaliana] GI: 13649388 (68414.m00575)
937Not regulatedNC-NC-NC263185_atAt1g05520transport protein, putative similar to Swiss-Prot: Q15436 protein transport protein Sec23A [Homo sapiens] (68414.m00585)
938Not regulatedNC-NC-NC263193_atAt1g38050expressed protein (68414.m04479)
939Not regulatedNC-NC-NC263172_atAt1g54170ataxin-2-related similar to SCA2 (GI: 1770390) [Homo sapiens]; similar to ataxin-2 (GI: 3005020) [Mus musculus] (68414.m06175)
940Not regulatedNC-NC-NC263145_atAt1g54090exocyst subunit EXO70 family protein contains Pfam domain PF03081: Exo70 exocyst complex subunit (68414.m06164)
941Not regulatedNC-NC-NC263152_atAt1g54060expressed protein similar to 6b-interacting protein 1 (NtSIP1) [Nicotiana tabacum] GI: 18149189 (68414.m06160)
942Not regulatedNC-NC-NC263154_atAt1g54110cation exchanger, putative (CAX10) Ca2+: Cation Antiporter (CaCA) Family member PMID: 11500563 (68414.m06168)
943Not regulatedNC-NC-NC263156_atAt1g54030GDSL-motif lipase, putative similar to myrosinase-associated proteins GI: 1769968, GI: 1769970, GI: 1216391, GI: 1216389 from
[Brassica napus]; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrolase (68414.m06156)
944Not regulatedNC-NC-NC263162_atAt1g54150zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68414.m06173)
945Not regulatedNC-NC-NC263170_atAt1g03000AAA-type ATPase family protein contains Pfam domain, PF00004: ATPase, AAA family (‘A’TPases ‘A’ssociated with diverse
cellular ‘A’ctivities) (68414.m00271)
946Not regulatedNC-NC-NC263113_atAt1g03150GCN5-related N-acetyltransferase (GNAT) family protein similar to SP|P07347 N-terminal acatyttransferase complex ARD1 subunit
(Arrest-defective protein 1) {Saccharomyces cerevisiae}; contains Pfam profile PF00583: acetyltransferase. GNAT family
(68414.m03292)
947Not regulatedNC-NC-NC263120_atAt1g78490cytochrome P450 family protein similar to Cytochrome P450 90A1 (SP: Q42569) [Arabidopsis thaliana] (68414.m09149)
948Not regulatedNC-NC-NC263122_atAt1g78510solanesyl diphosphate synthase (SPS) identical to solanesyl diphosphate synthase [Arabidopsis thaliana] GI: 19911233; contains
Pfam profile PF00348: Polyprenyl synthetase (68414.m09151)
949Not regulatedNC-NC-NC263126_atAt1g78460SOUL heme-binding family protein weak similarity to SOUL protein [Mus musculus] GI: 4886906; contains Pfam profile PF04832:
SOUL heme-binding protein (68414.m09143)
950Not regulatedNC-NC-NC263128_atAt1g78600zinc finger (B-box type) family protein similar to zinc finger protein GI: 3618316 from [Oryza sativa] (68414.m09160)
951Not regulatedNC-NC-NC263129_atAt1g78620integral membrane family protein contains Pfam domain PF01940: Integral membrane protein (68414.m09162)
952Not regulatedNC-NC-NC263132_atAt1g78560bile acid:sodium symporter family protein low similarity to SP|Q12908 lieal sodium/bile acid cotransporter {Homo sapiens}; contains
Pfam profile PF01758: Sodium Bile acid Symporter family (68414.m09156)
953Not regulatedNC-NC-NC263136_atAt1g78580alpha,alpha-trehalose-phosphate synthase, UDP-forming, putative/trehalose-6-phosphate synthase, putative/UDP-glucose-
glucosephosphate glucosyltransferase, putative similar to trehalose-6-phosphate synthase SL-TPS/P [Selaginella lepidophylla]
GI: 4100325; contains Pfam profiles PF00982: Glycosyltransferase family 20, PF02358: Trehalose-phosphatase (68414.m09158)
954Not regulatedNC-NC-NC263137_atAt1g78660gamma-glutamyl hydrolase, putative/gamma-Glu-X carboxypeptidase, putative/conjugase, putative similar to SP|O65355
Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH) {Arabidopsis thaliana}
(68414.m09167)
955Not regulatedNC-NC-NC263111_s_atAt1g65190protein kinase family protein contains similarity to protein kinases (68414.m07391)
956Not regulatedNC-NC-NC263096_atAt2g16060non-symbiotic hemoglobin 1 (HB1) (GLB1) identical to SP|O24520 Non-symbiotic hemoglobin 1 (Hb1) (ARAth GUB1) {Arabidopsis
thaliana) (68415.m01841)
957Not regulatedNC-NC-NC263097_atAt2g16070expressed protein (68415.m01842)
958Not regulatedNC-NC-NC263074_atAt2g17560high mobility group protein gamma (HMGgamma)/HMG protein gamma nearly identical to HMG protein (HMGgamma)
[Arabidopsis thaliana] GI: 2832355 (68415.m02032)
959Not regulatedNC-NC-NC263076_atAt2g17520protein kinase family protein/Ire1 homolog-2 (IRE1-2) contains protein kinase domain, Pfam: PF00069; identical to Ire1 homolog-2
[Arabidopsis thaliana] GI: 15277139, cDNA Ire1 homolog-2 GI: 15277138 (68415.m02028)
960Not regulatedNC-NC-NC263077_atAt2g17510ribonuclease II family protein similar to SP|P37202 Mitotic control protein dis3 {Schizasaccharomyces pombe}; contains Pfam
profile PF00773: RNB-like protein (68415.m02025)
961Not regulatedNC-NC-NC263047_atAt2g17630phosphoserine aminotransferase, putative similar to Phosphoserine aminotransferase, chloroplast precursor (PSAT) (SP: Q96255)
[Arabidopsis thaliana]; contains TIGRFAM TIGR01364: phosphoserine aminotransferase; contains Pfam PF00266:
aminotransferase, class V (68415.m02039)
962Not regulatedNC-NC-NC263019_atAt1g23870glycosyl transferase family 20 protein/trehalose-phosphatase family protein contains Pfam profile: PF02358 trehalose-
phosphatase (68414.m03011)
963Not regulatedNC-NC-NC263023_atAt1g23960expressed protein contains Pfam profile PF04776: Protein of unknown function (DUF626) (68414.m03025)
964Not regulatedNC-NC-NC263035_atAt1g23860splicing factor RSZp21 (RSZP21)/9G8-like SR protein (SR221) nearly identical to 9G8-like splicing factor SRZ21 [Arabidopsis
thaliana] GI: 3435096, RSZp21 protein [Arabidopsis thaliana] GI: 2582843 (68414.m03009)
965Not regulatedNC-NC-NC263036_atAt1g23890NHL repeat-containing protein contains Pfam profile PF01436: NHL repeat (68414.m03013)
966Not regulatedNC-NC-NC263037_atAt1g23230expressed protein (68414.m02906)
967Not regulatedNC-NC-NC263044_atAt1g23360UbiE/COQ5 methyltransferase family protein similar to 2-hexaprenyl-1,4-naphthoquinone methyltransferase GB: BAA25267
GI: 2982680 from [Micrococcus luteus]; contains Pfam profile PF01209: methlytransferase, UbiE/COQ5 family (68414.m02921)
968Not regulatedNC-NC-NC263010_atAt1g23330expressed protein (68414.m02917)
969Not regulatedNC-NC-NC263014_atAt1g23400expressed protein (68414.m02930)
970Not regulatedNC-NC-NC263015_atAt1g23430
971Not regulatedNC-NC-NC262985_s_atAt1g2329060S ribosomal protein L27A (RPL27aB) similar to 60S RIBOSOMAL PROTEIN L27A GB: P49637 GI: 1710530 from [Arabidopsis
thaliana] (68414.m02913)
972Not regulatedNC-NC-NC263000_atAt1g54350ABC transporter family protein similar to hypothetical ABC transporter ATP-binding protein GI: 9955395 from [Microcystis
aeruginosa] (68414.m06196)
973Not regulatedNC-NC-NC263001_atAt1g54360expressed protein (68414.m06197)
974Not regulatedNC-NC-NC262954_atAt1g54500rubredoxin family protein similar to SP|P00270 Rubredoxin (Rd) {Desulfovibrio gigas}; contains Pfam profile PF00301: Rubredoxin
(68414.m06216)
975Not regulatedNC-NC-NC262955_atAt1g54520expressed protein (68414.m06218)
976Not regulatedNC-NC-NC262956_atAt1g54270eukaryotic translation initiation factor 4A-2/eIF-4A-2 similar to eukaryotic translation initiation factor 4A GI: 19696 from [Nicotiana
plumbeginifolia] (68414.m06187)
977Not regulatedNC-NC-NC262957_s_atAt1g54250DNA-directed RNA polymerase I, II, and III, putative similar to SP|P52434 DNA-directed RNA potymerases I, II, and III 17.1 kDa
polypeptide (EC 2.7.7.6) (RPB17) (RPB8) {Homo sapiens}; contains Pfam profile PF03870: RNA polymerase Rpb8
(68414.m06185)
978Not regulatedNC-NC-NC262958_atAt1g54410dehydrin family protein contains Pfam domain, PF00257: Dehydrin (68414.m06207)
979Not regulatedNC-NC-NC262959_atAt1g54290eukaryotic translation initiation factor SUI1, putative similar to P|P32911 Protein translation factor SUI1 {Saccharomyces
cerevisiae}; contains Pfam profile PF01253: Translation initiation factor SUI1 (68414.m06189)
980Not regulatedNC-NC-NC262960_atAt1g54320LEMS (ligand-effect modulator 3) family protein/CDC50 family protein Similar to GI: 11994416; GI: 4966357; GI: 4835763;
GI: 9757735 from [Arabidopsis thaliana] (68414.m06193)
981Not regulatedNC-NC-NC262964_atAt1g54380spliceosome protein-related contains Pfam domain, PF04938: Survival motor neuron (SMN) interacting protein 1 (SIP1)
(68414.m06200)
982Not regulatedNC-NC-NC262966_atAt1g75760ER lumen protein retaining receptor family protein similar to SP|P33946 ER lumen protein retaining receptor 1 (KDEL receptor 1)
{Bos taurus}, contains Pfam profile PF00810: ER lumen protein retaining receptor (68414.m08799)
983Not regulatedNC-NC-NC262975_atAt1g75540zinc finger (B-box type) family protein similar to zinc finger protein GB: BAA33202 GI: 3618312 from [Oryza sativa] (68414.m08779)
984Not regulatedNC-NC-NC262978_atAt1g75780tubulin beta-1 chain (TUB1) nearly identical to SP|P12411 Tubulin beta-1 chrain {Arabidopsis thaliana} (68414.m08801)
985Not regulatedNC-NC-NC262948_atAt1g75560zinc knuckle (CCHC-type) family protein contains Pfam domain, PF00098: Zinc knuckle (68414.m08781)
986Not regulatedNC-NC-NC262929_atAt1g65720expressed protein (68414.m07459)
987Not regulatedNC-NC-NC262930_atAt1g65690harpin-induced protein-related/HIN1-related/harpin-responsive protein-related similar to hin1 homolog (GI: 13122296)
[Arabidopsis thaliana]; similar to hin1 (GI: 22830759) [Nicotiana tabacum]; contains 1 transmembrane domain; (68414.m07458)
988Not regulatedNC-NC-NC262931_atAt1g65700small nuclear ribonucleoprotein putative/snRNP, putative/Sm protein, putative similar to U6 snRNA-associated Sm-like protein
LSm8 [Homo sapiens] SWISS-PROT: O95777 (68414.m07457)
989Not regulatedNC-NC-NC262932_atAt1g65820microsomal glutathione s-transferase, putative similar to MGST3_HUMAN SP: O14880 (68414.m07469)
990Not regulatedNC-NC-NC262937_atAt1g79560FtsH protease, putative contains similarity to chloroplast FtsH protease GI: 5804762 from [Nicotiana tabacum] (68414.m09275)
991Not regulatedNC-NC-NC262944_atAt1g79550phosphoglycerate kinase, putative similar to SP|P41758 Phosphoglycerate kinase, chloroplast precursor (EC 2.7.2.3)
{Chlamydomonas reinhardtii}; contains Pfam profile PF00162: phosphoglycerate kinase (68414.m09273)
992Not regulatedNC-NC-NC262945_atAt1g79510expressed protein (68414.m09268)
993Not regulatedNC-NC-NC262946_atAt1g79390expressed protein (68414.m09252)
994Not regulatedNC-NC-NC262920_atAt1g795002-dehydro-3-deoxyphosphooctonate aldolase/phospho-2-dehydro-3-deoxyoctonate aldolase/3-deoxy-D-manno-octulosonic acid
8-phosphate synthetase (KDSA) identical to Swiss-Prot: Q9AV97 2-dehydro-3-deoxyphosphooctonate aldolase (EC 4.12.16)
(Phospho-2-dehydro-3-deoxyoctonate aldolase) (3-deoxy-D-manno-octulosonic acid 6-phosphate synthetase) (KDO-8-phosphate
synthetase) (KDO 8-P synthase) [Arabidopsis thaliana] (68414.m09265)
995Not regulatedNC-NC-NC262899_atAt1g59870ABC transporter family protein similar to PDR5-like ABC transporter GI: 1514643 from [Spirodeta polyrhiza] (68414.m06745)
996Not regulatedNC-NC-NC262906_atAt1g59760ATP-dependent RNA heticase, putative similar to SP|P47047 ATP-dependent RNA helicase DOB1 {Saccharomyces cerevisiae},
HUA enhancer 2 [Arabidopsis thaliana] GI: 16024938; contains Pfam profiles PF00270: DEAD/DEAH box helicese. PF00271:
Helicase conserved C-terminal domain (68414.m06729)
997Not regulatedNC-NC-NC262909_atAt1g59830serine/threonine protein phosphatase PP2A-2 catalytic subunit (PP2A2) identical to SP|Q07099 Serine/threonine protein
phosphatase PP2A-2 catalytic subunit (EC 3.1.3.16) {Arabidopsis thaliana}; contains Pfam profile PF00149: Ser/Thr protein
phosphatase (68414.m06736)
998Not regulatedNC-NC-NC262910_atAt1g59710expressed protein contains Pfam profile: PF04601 protein of unknown function (DUF569 (68414: m06718)
999Not regulatedNC-NC-NC262913_atAt1g59960aldo/keto reductase, putative similar to NADPH-dependent codeinone reductase GI: 6478210 [Papaver somniferum] , NAD(P)H
dependent 6′-deoxychalcone synthase [Glycine max][GI: 187213] (68414.m06754)
1000Not regulatedNC-NC-NC262859_atAt1g64790translational activator family protein similar to HsGCN1 [Homo sapiens] GI: 2282576 (68414.m07346)
1001Not regulatedNC-NC-NC262860_atAt1g64810expressed protein contains Pfam PF05634: Arabidopsis thaliana protein of unknown function (DUF794) (68414.m07348)
1002Not regulatedNC-NC-NC262875_atAt1g64970expressed protein (68414.m07364)
1003Not regulatedNC-NCNC262876_atAt1g64750DSS1/SEM1 family protein contains Pfam profile PF05160: DSS1/SEM1 family (66414.m07341)
1004Not regulatedNC-NC-NC262878_atAt1g64770expressed protein (68414.m07344)
1005Not regulatedNC-NC-NC262880_atAt1g64880ribosomal protein S5 family protein contains similarity to 30S ribosomal protein S5 GI: 6969105 from [Campylobacter jejuni]
(68414.m07355)
1006Not regulatedNC-NC-NC262881_atAt1g64890integral membrane transporter family protein contains 11 transmembrane domains; contains Pfam PF03092: BT1 family; contains
TIGRFAMS TIGR00788: folate/biopterin transporter (68414.m07356)
1007Not regulatedNC-NC-NC262882_atAt1g64900cytoduome P450, putative similar to cytochrome p450 GI: 438240 from [Solanum melongena] (68414.m07357)
1008Not regulatedNC-NC-NC262885_atAt1g64740tubulin alpha-1 chain (TUA1) nearly identical to SP|P11139 Tubulin alpha-1 chain {Arabidopsis thaliana} (68414.m07340)
1009Not regulatedNC-NC-NC262830_atAt1g14700purple acid phosphatase, putative contains Pfam profile: PF00149 calcineurin-like phosphoesterase; similar to purple acid
phosphatase (GI: 20257479) [Arabidopsis thaliana] (68414.m01757)
1010Not regulatedNC-NC-NC262837_atAt1g14830dynamin-like protein C (DL1C) nearly identical to dynamin-like protein C [Arabidopsis thaliana] GI: 19589772 (68414.m01774)
1011Not regulatedNC-NC-NC262841_atAt1g14810semialdehyde dehydrogenase family protein similar to SP: O31219 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) (ASA
dehydrogenase) (ASADH) {Legionella pneumophila}; contains Pfam profiles PF02774: Semialdehyde dehydrogenase dimerisation
domain, PF01118: Semialdehyde dehydrogenase NAD binding domain (68414.m01770)
1012Not regulatedNC-NC-NC262842_atAt1g14720xyloglucan: xyloglucosyl transferase/xyloglucan endotransglycosylase/endo-xyloglucan transferase (XTR2) identical to
endoxyloglucan transferase [Arabidopsis thaliana] GI: 5533311 (68414.m01760)
1013Not regulatedNC-NC-NC262844_atAt1g14890invertase/pectin methylesterase inhibitor family protein similar to pectinesterase GB: X85216 GI: 732912 SP|Q43111 [Phaseolus
vulgaris] , SP|Q42534 from Arabidopsis thaliana; contains Pfam profile PF04043: Plant invertase/pectin methylesterase inhibitor
(68414.m01780)
1014Not regulatedNC-NC-NC262845_atAt1g14740expressed protein (68414.m01762)
1015Not regulatedNC-NC-NC262848_atAt1g14685expressed protein (68414.m01748)
1016Not regulatedNC-NCNC262796_atAt1g20850cysteine endopeptidase, papain-type (XCP2) identical to papain-type cysteine endopeptidase XCP2 GI: 6708183 from [Arabidopsis
thaliana] (68414.m02612)
1017Not regulatedNC-NC-NC262797_atAt1g20840transporter-related low similarity to D-xylose proton-symporter [Lactobacillus brevis] GI: 2895856; contains Pfam profile PF00083:
major facilitator superfamily protein (68414.m02611)
1018Not regulatedNC-NC-NC262801_atAt1g21010expressed protein (68414.m02829)
1019Not regulatedNC-NC-NC262805_atAt1g20900DNA-binding protein-related contains Pfam domain PF03479: Domain of unknown function (DUF296), found in AT-hook motifs
Pfam: PF02178 (68414.m02617)
1020Not regulatedNC-NC-NC262813_atAt1g11670MATE efflux family protein similar to ripening regulated protein DDTFR18 [Lycopersicon esculentum] GI: 12231296; contains Pfam
profile PF01554: Uncharacterized membrane protein family; EST gb|W43487 comes from this gene (68414.m01340)
1021Not regulatedNC-NC-NC262814_atAt1g11660heat shock protein, putative strong similarity to gb|Z70314 heat-shock protein from Arabidopsis thaliana and is a member of the
PF|00012 Hsp70 protein family (68414.m01339)
1022Not regulatedNC-NC-NC262823_atAt1g11750ATP-dependent Clp protease proteolytic subunit (ClpP) identical to ATP-dependent Clp protease proteolytic subunit GI: 2827888
from [Arabidopsis thaliana]; contains Pfam profile PF00574: Clp protease; contains TIGRfam profile TIGR00493: ATP-dependent
Clp protease, proteolytic subunit ClpP (68414.m01348)
1023Not regulatedNC-NC-NC262826_atAt1g13080cytothome P450 family protein identical to gb|O78605 cytochrome P450 monooxygenase from Arabidopsis thaliana and is a
member of the PF|00067 Cytochrome P450 family. ESTs 91|Z18072, gb|Z35218 and gb|T43466 come from this gene
(68414.m01516)
1024Not regulatedNC-NC-NC262780_atAt1g13090cytochrome P450 71B28, putative (CYP71B28) Identical to Cytochrome P450 (SP: Q9SAE3) [Arabidopsis thaliana]; strong similarity
to gb|X97864 cytochrome P450 from Arabidopsis thaliana and is a member of the PF|00067 Cytochrome P450 family. ESTs
gb|N65665, gb|T14112, gb|T76255, gb|T20906 and gb|AI100027 come from this gene (68414.m01518)
1025Not regulatedNC-NC-NC262781_s_atAt1g1306020S proteasome beta subunit E1 (PBE1) (PRCE) identical to GB: O23717; identical to cDNA proteasome subunit prce GI: 2511595
(68414.m01514)
1026Not regulatedNC-NC-NC262782_atAt1g13195zinc finger (C3HC4-type RING finger) family protein similar to MTD2 [Medicago truncatula] GI: 9294812; contains Pfam profile
PF00097: Zinc finger, C3HC4 type (RING finger) (68414.m01530)
1027Not regulatedNC-NC-NC262786_atAt1g10740expressed protein (68414.m01225)
1028Not regulatedNC-NC-NC262790_atAt1g10840eukaryotic translation initiation factor 3 subunit 3/eIF-3 gamma/eIF3h (TIF3H1) identical to SP|Q9C5Z2 Eukaryotic translation
initiation factor 3 subunit 3 (eIF-3 gamma) (eIF3 p38 subunit) (eIF3h) {Arabidopsis thaliana}; contains Pfam profile PF01398:
Mov34/MPN/PAD-1 family (68414.m01245)
1029Not regulatedNC-NC-NC262791_atAt1g10830sodium symporter-related contains five transmembrane domains; Interpro IPR001991 Sodium:dicarboxylate symporter, EST
gb|F13926 comes from this gene (68414.m01244)
1030Not regulatedNC-NC-NC262736_atAt1g28570GDSL-motif lipase, putative similar to lipase [Arabidopsis thaliana] GI: 1145627; contains InterPro Entry IPR001087 Lipolytic
enzyme, G-D-S-L family (68414.m03517)
1031Not regulatedNC-NC-NC262745_atAt1g28600lipase, putative similar to lipase [Arabidopsis thaliana] GI: 1145627; contains InterPro Entry IPR001087 Lipolytic enzyme, G-D-S-L
family (68414.m03522)
1032Not regulatedNC-NC-NC262749_atAt1g28580GDSL-motif lipase, putative similar to lipase [Arabidopsis thaliana] GI: 1145627; contains InterPro Entry IPR001087 Lipolytic
enzyme, G-D-S-L family (68414.m03519)
1033Not regulatedNC-NC-NC262750_atAt1g28710expressed protein similar to GI: 2827651, GI: 7527728, GI: 4406788, GI: 6063544. GI: 10764853 from [Arabidopsis thaliana]
(68414.m03536)
1034Not regulatedNC-NC-NC262754_atAt1g16350inosine-5′-monophosphate dehydrogenase, putative strong similarity to SP|P47996 gb|L34684 inosine monophosphate
dehydrogenase (IMPDH) from Arabidopsis thaliana member of the PF|00478 IMP dehydrogenase family (68414.m01956)
1035Not regulatedNC-NC-NC262705_atAt1g16260protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68414.m01947)
1036Not regulatedNC-NC-NC262706_atAt1g16280DEAD/DEAH box helicase, putative similar to gb|L13612 DEAD-box protein (dbp45A) from Drosophila melanogaster and is a
member of PF|00270 DEAD/DEAH box helicase family (68414.m01949)
1037Not regulatedNC-NC-NC262707_atAt1g16290expressed protein (68414.m01950)
1038Not regulatedNC-NC-NC262708_atAt1g16190DNA repair protein RAD23, putative similar to DNA repair by nucleotide excision (NER) RAD23 protein, isoform II GI: 1914685 from
[Daucus carota] (68414.m01939)
1039Not regulatedNC-NC-NC262710_atAt1g16210expressed protein ESTs gb|T04357 and gb|AA595092 come from this gene (68414.m01941)
1040Not regulatedNC-NC-NC262712_atAt1g16460mercaptopyruvate sulfurtransferase (MST2) (RDH2) identical to mercaptopyruvate sulfurtransferase GI: 6009983 and thiosulfate
sulfurtransferase GI: 5817004 from [Arabidopsis thaliana]; contains PF|00581 Rhodanese-like domain (68414.m01968)
1041Not regulatedNC-NC-NC262721_atAt1g43560thioredoxin family protein contains Pfam profile: PF00085 Thioredoxin; similar to thioredoxin GI: 142153 from [Synechococcus
PCC6301] (68414.m05000)
1042Not regulatedNC-NC-NC262725_atAt1g43580expressed protein (68414.m05003)
1043Not regulatedNC-NC-NC262727_atAt1g75800pathogenesis-related thaumatin family protein similar to receptor serine/threonine kinase PR5K [Arabidopsis thaliana] GI: 1235680;
contains Pfam profile: PF00314 Thaumatin family (68414.m08805)
1044Not regulatedNC-NC-NC262700_atAt1g76020expressed protein (68414.m08826)
1045Not regulatedNC-NC-NC262676_atAt1g75950E3 ubiquitin ligase SCF complex subunit SKP1/ASK1 (At1) E3 ubiquitin ligase; skp1a; identical to Skp1a GI: 3068807, Skp1p
GI: 1432083 and UIP1 GI: 3719209 from [Arabidopsis thaliana]; contains Pfam profiles PF01466: Skp1 family, dimensation domain
and PF03931: Skp1 family, tetramerisation domain; (68414.m08821)
1046Not regulatedNC-NC-NC262678_atAt1g75810expressed protein (68414.m08806)
1047Not regulatedNC-NC-NC262682_atAt1g75900family II extracellular lipase 3 (EXL3) EXL3 (PMID: 11431566); similar to anter-specific proline-rich protein (APG) SP: P40602
[Arabidopsis thaliana] (68414.m08816)
1048Not regulatedNC-NC-NC262684_s_atAt1g76030vacuolar ATP synthase subunit B/V-ATPase B subunit/vacuolar proton pump B subunit/V-ATPase 57 kDa subunit identical to
SP|P11574 Vacuolar ATP synthase subunit B (EC 3.6.3.14) (V-ATPase B subunit) (Vacuolar proton pump B subunit) (V-ATPase
57 kDa subunit) {Arabidopsis thaliana} (68414.m08827)
1049Not regulatedNC-NC-NC262686_atAt1g7599026S proteasome regulatory subunit S3, putative (RPN3) similar to 26S proteasome regulatory subunit S3 SP: P93768 [Nicotiana
tabacum (Common tobacco)] (68414.m08824)
1050Not regulatedNC-NC-NC262691_atAt1g62740stress-inducible protein, putative similar to sti (stress inducible protein) [Glycine max] GI: 872116; contains Pfam profile PF00515
TPR Domain (68414.m07081)
1051Not regulatedNC-NC-NC262693_atAt1g62780expressed protein (68414.m07086)
1052Not regulatedNC-NC-NC262667_atAt1g62810copper amine oxidase, putative similar to copper amine oxidase [Cicer arietinum] gi|3819099|emb|CAA08855 (68414.m07091)
1053Not regulatedNC-NC-NC262639_atAt1g62820calmodulin, putative similar to calmodulin SP: P04465 from [Trypanosoma brucei gambiense]; contains INTERPRO: IPR002048
calcium-binding EF-hand domain (68414.m07092)
1054Not regulatedNC-NC-NC262645_atAt1g62750elongation factor Tu family protein similar to elongation factor G SP: P34811 [Glycine max (Soybean)] (68414.m07082)
1055Not regulatedNC-NC-NC262660_atAt1g14000protein kinase family protein/ankyrin repeat family protein contains Pfam profiles: PF00069 protein kinase domain, PF00023
ankyrin repeat (68414: m01652)
1056Not regulatedNC-NC-NC262607_atAt1g13990expressed protein (68414.m01650)
1057Not regulatedNC-NC-NC262609_atAt1g13930expressed protein weakly similar to drought-induced protein SDi-6 (PIR: S71562) common sunflower (fragment) (68414.m01635)
1058Not regulatedNC-NC-NC262612_atAt1g14150oxygen evolving enhancer 3 (PsbQ) family protein extrinsic pll protein; contains Pfam profile PF05757: Oxygen evolving enhancer
protein 3 (PsbQ) (68414.m01672)
1059Not regulatedNC-NC-NC262618_atAt1g06560NOL1/NOP2/sun family protein contains Pfam profile PF01189: NOL1/NOP2/sun family (68414.m00695)
1060Not regulatedNC-NC-NC262621_atAt1g06530myosin heavy chain-related similar to myosin heavy chain (GI: 1408194) {Placopecten magellanicus}; similar to Myosin heavy chain,
clone 203 (Fragment) (SP: P39922){Hydra attenuata}; contains one transmembrane domain (68414.m00692)
1061Not regulatedNC-NC-NC262624_atAt1g06450CCR4-NOT transcription complex protein, putative similar to SWISS-PROT: Q9UFF9 CCR4-NOT transcription complex, subunit 8
(CAF1-like protein, CALIFp) [Homo sapiens] (68414.m00683)
1062Not regulatedNC-NC-NC262626_atAt1g06430FtsH protease, putative similar to zinc dependent protease GI: 7650138 from [Arabidopsis thaliana] (68414: m00680)
1063Not regulatedNC-NC-NC262629_atAt1g0646031.2 kDa small heat shock family protein/hsp20 family protein contains Pfam profile: PF00011 Hsp20/alpha crystallin family
(68414.m00684)
1064Not regulatedNC-NC-NC262632_atAt1g06680photosystem II oxygen-evolving complex 23 (OEC23) JBC 14: 211-238 (2002); identical to 23 kDa polypeptide of oxygen-evolving
comlex (OEC) GB: CAA66785 GI: 1769905 [Arabidopsis thaliana] (68414.m00708)
1065Not regulatedNC-NC-NC262634_atAt1g06690aldo/keto reductase family protein contains Pfam profile PF00248: oxidoreductase, aldo/keto reductase family (68414.m00710)
1066Not regulatedNC-NC-NC262638_atAt1g066502-oxoglutarate-dependent dioxygenase, putative similar to 2A6 (GI: 599622) and tomato ethylene synthesis regulatory protein E8
(SP|P10967); contains Pfam profile: PF00671 Iron/Ascorbate oxidoreductase family (68414.m00704)
1067Not regulatedNC-NC-NC262581_atAt1g15370expressed protein (68414.m01840)
1068Not regulatedNC-NC-NC262583_atAt1g15110phosphatidyl serine synthase family protein contains Pfam profile: PF03034 phosphatidyl serine synthase (68414.m01804)
1069Not regulatedNC-NC-NC262584_atAt1g15440transducin family protein/WD-40 repeat family protein Strong similarity to gb X95263 Periodic tryptophan protein 2 gene (PWP2)
from Homo sapiens and contains 6 WD40, G-beta repeat domains (68414.m01855)
1070Not regulatedNC-NC-NC262590_atAt1g15100zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68414.m01803)
1071Not regulatedNC-NC-NC262592_atAt1g15400expressed protein ESTs gb|H37295 and gb|R64895 come from this gene (68414.m01844)
1072Not regulatedNC-NC-NC262593_atAt1g15120ubiquinol-cytochrome C reductase complex 7.8 kDa protein, putative/mitochondrial hinge protein, putative similar to SP|P48504
Ubiquinol-cytochrome C reductase complex 7.8 kDa protein (EC 1.10.2.2) (Mitochondrial hinge protein) (CR7) {Solanum
tuberosum}; contains Pfam profile PF02320: Ubiquinol-cytochrome C reductase hinge protein (68414.m01805)
1073Not regulatedNC-NC-NC262594_atAt1g1525060S ribosomal protein L37 (RPL37A) almost identical to GB: Q43292 (68414.m01825)
1074Not regulatedNC-NC-NC262598_atAt1g15260expressed protein EST gb|N65467 comes from this gene (68414.m01826)
1075Not regulatedNC-NC-NC262599_atAt1g15350expressed protein (68414.m01836)
1076Not regulatedNC-NC-NC262600_atAt1g15340methyl-CpG-binding domain-containing protein contains Pfam profile PF01429: Methyl-CpG binding domain (68414.m01835)
1077Not regulatedNC-NC-NC262602_atAt1g15270expressed protein ESTs gb|AA650895, gb|AA720043 and gb|R29777 come from this gene (68414.m01827)
1078Not regulatedNC-NC-NC262572_atAt1g15140oxidoreductase NAD-binding domain-containing protein Contains Pfam profile PF00175: Oxidoreductase NAD-binding domain;
ESTs gb|H76345 and gb|AA651465 come from this gene (68414.m01808)
1079Not regulatedNC-NC-NC262573_atAt1g15390peptide deformylase, mitochondrial/polypeptide deformylase 1A (PDF1A) nearly identical to SP|Q9FV53 Peptide deformylase,
mitochondrial precursor (EC 3.5.1.88) (PDF) (Polypeptide deformylase) {Arabidopsis thaliana}; contains Pfam profile PF01327:
polypeptide deformylase; supporting cDNA gi|11320951|gb|AF250959.1|AF250959 (68414.m01843)
1080Not regulatedNC-NC-NC262574_atAt1g15230expressed protein ESTs gb|R30529, gb|Z48463, gb|Z48467, gb|AA597369 and gb|AA394772 come from this gene
(68414.m01823)
1081Not regulatedNC-NC-NC262544_atAt1g15425
1082Not regulatedNC-NC-NC262551_atAt1g31340ubiquitin family protein contains INTERPRO: IPR000626 ubiquitin domain (68414.m03835)
1083Not regulatedNC-NC-NC262557_atAt1g31330photosystem I reaction center subunit III family protein contains Pfam profile: PF02507: photosystem I reaction center subunit III
(68414.m03833)
1084Not regulatedNC-NC-NC262562_atAt1g34220expressed protein contains Pfam profile: PF03398 eukaryotic protein of unknown function, DUF292 (68414.m04246)
1085Not regulatedNC-NC-NC262563_atAt1g34210somatic embryogenesis receptor-like kinase 2 (SERK2) nearly identical to somatic embryogenesis receptor-like kinase 2
[Arabidopsis thaliana] GI: 14573457; contains Pfam domains PF00560: Leucine Rich Repeat and PF00069: Protein kinase domain;
identical to cDNA somatic embryogenesis receptor-like kinase 2 (SERK2) GI: 14573456 (68414.m04245)
1086Not regulatedNC-NC-NC262566_atAt1g34310transcriptional factor B3 family protein/auxin-responsive factor AUXAAA-related contains Pfam profile: PF02309 AUX/IAA family
(68414.m04257)
1087Not regulatedNC-NC-NC262567_atAt1g34300lectin protein kinase family protein contains Pfam domains, PF01453: Lectin (probable mannose binding) and PF00069: Protein
kinase domain (68414.m04256)
1088Not regulatedNC-NC-NC262514_atAt1g34190no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) protein; similar to NAM protein
GI: 6066595 [Petunia hybrida]; nam-like protein 9 (GI: 21105746) [Petunia x hybrida]; NAC1 GI: 7716952 [Medicago truncatula]
(68414.m04241)
1089Not regulatedNC-NC-NC262519_atAt1g17160plkB-type carbohydrate kinase family protein contains Pfam profile: PF00294 pfkB family carbohydrate kinase (68414.m02092)
1090Not regulatedNC-NC-NC262521_atAt1g17130cell cycle control protein-related contains similarity to Swiss-Prot: Q9P7C5 cell cycle control protein cwf16 [Schizosaccharomyces
pombe] (68414.m02087)
1091Not regulatedNC-NC-NC262523_atAt1g17110ubiquitin-specific protease 15 (UBP15) almost identical to ubiquitin-specific protease 15 GI: 11993475 [Arabidopsis thaliana], 7
amino acid difference (68414.m02085)
1092Not regulatedNC-NC-NC262524_atAt1g17070D111/G-patch domain-containing protein Similar to SP|Q9ERA6 Tuftelin-interacting protein 11 {Mus musculus}; contains Pfam
profile PF01585: G-patch domain (68414.m02077)
1093Not regulatedNC-NC-NC262526_atAt1g17050geranyl diphosphate synthase, putative/GPPS. putative/dimethylallyltransferase, putative/prenyl transferase, putative similar to
GI: 11322965; Except for first 55 amino acids, 52% identical to Prenyl transferase (Cyanophora paradoxa) (gi 99282). Location of
est 120E9T7 (gb|T43950) (68414.m02073)
1094Not regulatedNC-NC-NC262532_atAt1g17210expressed protein distantly related to dentin phosphoryn [Homo sapiens] (GI: 4322670) (68414.m02097)
1095Not regulatedNC-NC-NC262537_s_atAt1g17280ubiquitin-conjugating enzyme, putative similar to ubiquitin conjugating enzyme 6 from [Homo sapiens] GI: 14029267, [Mus
musculus] GI: 14029263; contains Pfam profile PF00179: Ubiquitin-conjugating enzyme (68414.m02105)
1096Not regulatedNC-NC-NC262539_atAt1g17200integral membrane family protein Location of est 136A23T7 (gb|T45563); contains TIGRFAM TIGR01569: plant integral membrane
protein TIGR01569; contains Pfam PF04535: Domain of unknown function (DUF588) (68414.m02096)
1097Not regulatedNC-NC-NC262482_atAt1g17020oxidoreductase, 2OG-Fe(II) oxygenase family protein similar to flavonol synthase [Petunia x hybrida][GI: 311658],
leucoanthocyanidin dioxygenase [Malus domestica][SP|P51091]; contains PF03171 2OG-Fe(II) oxygenase superfamily domain
(68414.m02067)
1098Not regulatedNC-NC-NC262487_atAt1g21610wound-responsive family protein similar to wound-responsive protein 14.05 (GI: 16506638) [Castanea sativa]; ESTs gb T42839 and
gb|AA395192 come from this gene (68414.m02702)
1099Not regulatedNC-NC-NC262488_atAt1g21820
1100Not regulatedNC-NC-NC262489_atAt1g21830expressed protein EST gb|T21171 comes from this gene (68414.m02731)
1101Not regulatedNC-NC-NC262497_atAt1g2172020S proteasome beta subunit C1 (PBC1).(PRCT) almost identical to GB: AAC32069 from [Arabidopsis thaliana], EST gb|T76747
comes from this gene; identical to cDNA proteasome subunit prct GI: 2511567 (68414.m02719)
1102Not regulatedNC-NC-NC262499_atAt1g21770expressed protein (68414.m02725)
1103Not regulatedNC-NC-NC262500_atAt1g21760F-box family protein Contains PF|00646 F-box domain. ESTs gb|Z37267, gb|R90412, gb|Z37268 and gb|T88189 come from this
gene similar to SKP1 interacting partner 2 (SKIP2) TIGR_Ath1: At5g67250 (68414.m02724)
1104Not regulatedNC-NC-NC262501_atAt1g21690replication factor C 37 kDa, putative Similar to SWISS-PROT: P35249 activator 1 37 kDa subunit (Replication factor C 37 kDa
subunit, A1 37 kDa subunit, RF-C 37 kDa subunit, RFC37) [Homo sapiens]; contains Pfam domain, PF00004: ATPase, AAA family
(88414.m02714)
1105Not regulatedNC-NC-NC262503_atAt1g21670expressed protein similar to TolB protein precursor (SP: P50601) {Pseudomonas aeruginosa} (68414.m02712)
1106Not regulatedNC-NC-NC262451_atAt1g11140
1107Not regulatedNC-NC-NC262453_atAt1g11240expressed protein (68414.m01287)
1108Not regulatedNC-NC-NC262455_atAt1g11310seven transmembrane MLO family protein/MLO-like protein 2 (MLO2) identical to membrane protein Mlo2 [Arabidopsis thaliana]
gi|14091574|gb|AAK53795; similar to Mlo [Hordeum vulgare subsp. vulgare] gi|1877221|emb|CAB06083 SWISS-PROT: P93766
(68414.m01299)
1109Not regulatedNC-NC-NC262457_atAt1g11200expressed protein contains Pfam profile PF03619: Domain of unknown function (68414.m01283)
1110Not regulatedNC-NC-NC262458_atAt1g11280S-locus protein kinase, putative similar to receptor protein kinase [Ipomoea trifida] gi|836954|gb|AAC23542; contains protein kinase
domain, Pfam: PF00069; contains S-locus glycoprotein family domain, Pfam: PF00954 (68414.m01294)
1111Not regulatedNC-NC-NC262473_atAt1g50250cell division protein ftsH homolog 1, chloroplast (FTSH1) (FTSH) identical to SP: Q39102 Cell division protein ftsH homolog 1.
chloroplast precursor (EC 3.4.24.—) [Arabidopsis thaliana] (68414.m05634)
1112Not regulatedNC-NC-NC262476_atAt1g50370serine/threonine protein phosphatase, putative nearly identical to serine/threonine protein phosphatase [Arabidopsis thaliana]
GI: 14582206 (68414.m05646)
1113Not regulatedNC-NC-NC262417_atAt1g50170expressed protein similar to Cbi protein (GI: 3724039) [Bacillus megaterium]; similar to YlnE protein (GI: 2462961) [Bacillus subtilis];
similar to NirR (GI: 4433637) [Staphylococcus camosus] (68414.m05626)
1114Not regulatedNC-NC-NC262418_atAt1g50320thioredoxin X nearly identical to thioredoxin X GB: AAF15952 GI: 6539616 from [Arabidopsis thaliana] (68414.m05641)
1115Not regulatedNC-NC-NC262422_atAt1g23440pyrrolidone-carboxylate peptidase family protein similar to Pyrrolidone-carboxylate peptidase (Swiss-Prot: O58321) [Pyrococcus
horikoshii]; contains Prosite PS00141: Eukaryotic and viral aspartyl proteases active site (68414.m02936)
1116Not regulatedNC-NC-NC262426_s_atAt1g47630
1117Not regulatedNC-NC-NC262427_s_atAt1g47600glycosyl hydrolase family 1 protein contains Pfam PF00232: Glycosyl hydrolase family 1 domain; TIGRFAM TIGR01233: 6-
phospho-beta-galactosidase; similar to thioglucosidase (GI: 871992) [Arabidopsis thaliana] (68414.m05285)
1118Not regulatedNC-NC-NC262432_atAt1g47530ripening-responsive protein, putative similar to ripening regulated protein DDTFR18 [Lycopersicon esculentum] GI: 12231296;
contains Pfam profile PF01554: Uncharacterized membrane protein family (68414.m05275)
1119Not regulatedNC-NC-NC262434_atAt1g47670amino acid transporter family protein similar to lysine and histidine specific transporter GI: 2576361 from [Arabidopsis thaliana];
contains Pfam profile PF01490: Transmembrane amino acid transporter protein (68414.m05296)
1120Not regulatedNC-NC-NC262442_atAt1g47420expressed protein identical to hypothetical protein GB: AAD46040 GI: 5668814 from [Arabidopsis thaliana] (68414.m05252)
1121Not regulatedNC-NC-NC262414_atAt1g49430long-chain-fatty-acid--CoA ligase/long-chain acyl-CoA synthetase nearly identical to acyl CoA synthetase (MF45P) GI: 1617268
from [Brassica napus] (68414.m05541)
1122Not regulatedNC-NC-NC262415_atAt1g49400ribosomal protein S17 family protein similar to 40S ribosomal protein S17 GI: 1620985 from [Nicotiana plumbaginitolia]
(68414.m05537)
1123Not regulatedNC-NC-NC262388_atAt1g49320BURP domain-containing protein similarity to SP|Q08298 Dehydration-responsive protein RD22 precursor {Arabidopsis thaliana};
contains Pfam profile PF03181: BURP domain (68414.m05528)
1124Not regulatedNC-NC-NC262394_atAt1g49510expressed protein (68414.m05549)
1125Not regulatedNC-NC-NC262396_atAt1g49470expressed protein contains Pfam profile PF04819: Family of unknown function (DUF716) (Plant viral-response family)
(68414.m05544)
1126Not regulatedNC-NC-NC262397_atAt1g49380cytochrome c biogenesis protein family contains Pfam PF05140: ResB-like family; similar to CCS1 (GI: 2749939) [Chlamydomonas
reinhardtii]; similar to Ccs1 (GI: 6137102) [Synechococcus sp. PCC 6301] (68414.m05535)
1127Not regulatedNC-NC-NC262400_atAt1g49480transcriptional factor B3 family protein contains Pfam profile PF02362: B3 DNA binding domain (68414.m05546)
1128Not regulatedNC-NC-NC262401_atAt1g49300Ras-related GTP-binding protein, putative contains Pfam profile: PF00071 Ras family (68414.m05526)
1129Not regulatedNC-NC-NC262407_atAt1g34630expressed protein (68414.m04305)
1130Not regulatedNC-NC-NC262408_atAt1g34750protein phosphatase 2C, putative/PP2C, putative similar to GB: AAD17805 from (Lotus japonicus) (Proc. Natl. Acad. Sci. U.S.A. 96
(4), 1738-1743 (1999)) (68414.m04321)
1131Not regulatedNC-NC-NC262413_atAt1g34780protein disulfide isomerase-related contains weak similarity to Pfam: P08003 protein disulfide isomerase A4 precursor (Protein ERp-
72, ERp72) [Mus musculus] (68414.m04329)
1132Not regulatedNC-NC-NC262355_atAt1g72820mitochondrial substrate carrier family protein contains Pfam profile: PF00153 mitochondrial carrier protein (68414.m08419)
1133Not regulatedNC-NC-NC262367_atAt1g73030SNF7 family protein contains Pfam domain, PF03357: SNF7 family (68414.m08445)
1134Not regulatedNC-NC-NC262368_atAt1g73060expressed protein (68414.m08448)
1135Not regulatedNC-NC-NC262354_atAt1g64200vacuolar ATP synthase subunit E, putative/V-ATPase E subunit, putative/vacuolar proton pump E subunit, putative similar to
SP|Q39258 Vacuolar ATP synthase subunit E (EC 3.6.3.14) (V-ATPase E subunit) (Vacuolar proton pump E subunit) {Arabidopsis
thaliana}; contains Pfam profile PF01991: ATP synthase (E/31 kDa) subunit (68414.m07273)
1136Not regulatedNC-NC-NC262329_atAt1g64090reticulon family protein (RTNLB3) weak similarity to SP|O95197 Reticulon protein 3 (Neuroendocrine-specific protein-like) {Homo
sapiens}; contains Pfam profile PF02453: Reticulon (68414.m07260)
1137Not regulatedNC-NC-NC262340_atAt1g64105no apical meristem (NAM) family protein contains Pfam PF02365: No apical meristem (NAM) domain (68414.m07262)
1138Not regulatedNC-NC-NC262343_atAt1g64040serine/threonine protein phosphatase PP1 isozyme 3 (TOPP3)/phosphoprotein phosphatase 1 identical to SP|P48483
Serine/threonine protein phosphatase PP1 isozyme 3 (EC 3.1.3.16) {Arabidopsis thaliana}, phosphoprotein phosphatase 1
GB: AAA32838 GI: 166799 from [Arabidopsis thaliana] (68414.m07254)
1139Not regulatedNC-NC-NC262346_atAt1g63980D111/G-patch domain-containing protein contains Pfam profile PF01585: G-patch domain (68414.m07247)
1140Not regulatedNC-NC-NC262349_atAt2g48130protease inhibitor/seed storage/lipid transfer protein (LTP) family protein contains Pfam protease inhibitor/seed storage/LTP family
domain PF00234 (68415.m06025)
1141Not regulatedNC-NC-NC262319_s_atAt1g27540F-box family protein similar to F-box protein family, AtFBX7 (GI: 20197899) [Arabidopsis thaliana]; confirmed by FLcDNA
GI: 16604421; contains uncharacterized Arabidoppsis domain shared by 33 Arabidopsis proteins (68414.m03357)
1142Not regulatedNC-NC-NC262297_atAt1g27600glycosyl transferase family 43 protein similar to Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 1, Rattus
norvegicus [SP|O35789], Homo sapiens [SP|Q9P2W7]; contains Pfam domain Glycosyltransferase family 43 [PF03380]
(68414.m03367)
1143Not regulatedNC-NC-NC262298_atAt1g27530expressed protein Similar to gb|AF151884 CGI-126 protein from Homo sapiens. EST gb|Z18048 comes from this gene
(68414.m03356)
1144Not regulatedNC-NC-NC262304_atAt1g70890major latex protein-related/MLP-related low similarity to major latex protein {Papaver somniferum}[GI: 294062]; contains Pfam
profile PF00407: Pathogenesis-related protein Bet v I family (68414.m08179)
1145Not regulatedNC-NC-NC262306_s_atAt1g70980asparaginyl-tRNA synthetase, cytoplasmic, putative/asparagine-tRNA ligase, putative similar to SYNC1 protein GI: 5670315
[SP|Q9SW96] from [Arabidopsis thaliana] (68414.m08188)
1146Not regulatedNC-NC-NC262308_atAt1g71010phosphatidylinositol-4-phosphate 5-kinase family protein low similarity to phosphatidylinositol 3,5-kinase [Candida albicans]
GI: 14571648; contains Pfam profile PF01504: Phosphatidylinositol-4-phosphate 5-Kinase (68414.m08192)
1147Not regulatedNC-NC-NC262312_atAt1g70830Bet v I allergen family protein similar to Csf-2 [Cucumis sativus][GI: 5762258][J Am Soc Hortic Sci 124, 136-139 (1999)]; contains
Pfam profile PF00407: Pathogenesis-related protein Bet v I family (68414.m08170)
1148Not regulatedNC-NC-NC262288_atAt1g70760inorganic carbon transport protein-related contains weak similarity to Swiss-Prot: P27372 inorganic carbon transport protein
[Synechocystis sp.] (68414.m08156)
1149Not regulatedNC-NC-NC262289_atAt1g70770expressed protein (68414.m08158)
1150Not regulatedNC-NC-NC262260_atAt1g70850Bet v I allergen family protein similar to Csf-2 [Cucumis sativus][GI: 5762258][J Am Soc Hortic Sci 124, 136-139 (1999)] contains
Pfam profile PF00407: Pathogenesis-related protein Bet v I family (68414.m08173)
1151Not regulatedNC-NC-NC262280_atAt1g68580agenet domain-containing protein/bromo-adjacent homology (BAH) domain-containing protein contains Pfam profile PF01426;
BAH domain and PF05641: Agenet domain (68414.m07835)
1152Not regulatedNC-NC-NC262281_atAt1g68570proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m07834)
1153Not regulatedNC-NC-NC262283_atAt1g68590plastid-specific 30S ribosomal protein 3, putative/PSRP-3, putative similar to SP|P82412 Plastid-specific 30S ribosomal protein 3,
chloroplast precursor (PSRP-3) {Spinacia oleracea}; contains Pfam profile PF04839: Plastid and cyanobacterial ribosomal protein
(PSRP-3/Ycf65) (68414.m07838)
1154Not regulatedNC-NC-NC262286_atAt1g68585expressed protein (68414.m07837)
1155Not regulatedNC-NC-NC262237_atAt1g48320thioesterase family protein similar to ComAB [Bacillus licheniformis] GI: 1834379; contains Pfam profile PF03061: thioesterase
family protein (68414.m05397)
1156Not regulatedNC-NC-NC262251_atAt1g53760expressed protein (68414.m06117)
1157Not regulatedNC-NC-NC262253_s_atAt1g53880eukaryotic translation initiation factor 2B family protein/elF-2B family protein similar to SP|Q64270 Translation initiation factor elF-
2B alpha subunit {Rattus norvegicus}; contains Pfam profiles PF04525: Protein of unknown function (DUF567), PF01008: Initiation
factor 2 subunit family (68414.m06133)
1158Not regulatedNC-NC-NC262254_atAt1g53920GDSL-motif lipase/hydrolase family protein similar to Anther-specific proline-rich proteins SP|P40603 SP|P40602 from {Arabidopsis
thaliana}; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrotase (68414.m06138)
1159Not regulatedNC-NC-NC262258_atAt1g5385020S proteasome alpha subunit E1 (PAE1) identical to 20S proteasome subunit PAE1 GI: 3421087 from [Arabidopsis thaliana]
(68414.m06129)
1160Not regulatedNC-NC-NC262225_atAt1g53840pectinesterase family protein contains Pfam profile: PF01095 pectinesterase (68414.m06128)
1161Not regulatedNC-NC-NC262203_atAt2g01060myb family transcription factor contains Pfam profile: PF00249 myb-like DNA-binding domain (68415.m00011)
1162Not regulatedNC-NC-NC262204_atAt2g01100expressed protein (68415.m00016)
1163Not regulatedNC-NC-NC262168_atAt1g74730expressed protein (68414.m08659)
1164Not regulatedNC-NC-NC262172_atAt1g74970ribosomal protein S9 (RPS9) identical to ribosomal protein S9 [Arabidopsis thaliana] GI: 5456946 (68414.m08703)
1165Not regulatedNC-NC-NC262173_atAt1g74920betaine-aldehyde dehydrogenase, putative identical to betaine-aldehyde dehydrogenase, chloroplast precursor (BADH)
[Arabidopsis thaliana] SWISS-PROT: Q9S795; strong similarity to betaine aldehyde dehydrogenase [Amaranthus hypochondriacus]
GI: 2388710 (68414.m08691)
1166Not regulatedNC-NC-NC262174_atAt1g74910ADP-glucose pyrophosphorylase family protein contains Pfam profile PF00483: Nucleotidyl transferase; low similarity to mannose-1-
phosphate guanylyltransferase [Hypocrea jecorina] GI: 3323397 (68414.m08685)
1167Not regulatedNC-NC-NC262175_atAt1g74880expressed protein (68414.m08679)
1168Not regulatedNC-NC-NC262176_atAt1g749603-ketoacyl-ACP synthase, putative similar to 3-ketoacyl-ACP synthase [Cuphea pulchemma] gi|3800747|gb|AAC68860; identical to
cDNA beta-ketoacyl-ACP synthetase 2 nuclear gene for plastid product GI: 14582700 (68414.m08699)
1169Not regulatedNC-NC-NC262180_atAt1g78050phosphoglycerate/bisphosphoglycerate mutase family protein similar to SP|P31217 Phosphoglycerate mutase 1 (EC 5.4.2.1)
{Escherichia coli O157: H7}; contains Pfam profile PF00300: phosphoglycerate mutase family (68414.m09095)
1170Not regulatedNC-NC-NC262181_atAt1g78060glycosyl hydrolase family 3 protein similar to xylosidase GI: 2102655 from [Aspergillus niger] (68414.m09096)
1171Not regulatedNC-NC-NC262195_atAt1g78040pollen Ole a 1 allergen and extensin family protein contains Pfam domain, PF01190: Pollen proteins Ole a I family (68414.m09094)
1172Not regulatedNC-NC-NC262137_atAt1g77920bZIP family transcription factor contains Pfam profile: PF00170 bZIP transcription factor (68414.m09080)
1173Not regulatedNC-NC-NC262145_atAt1g52730transducin family protein/WD-40 repeat family protein contains 7 WD-40 repeats (PF00400); similar to UNR-interacting protein
(WD-40 repeat protein PT-WD) (SP: Q9Y3F4) [Homo sapiens] (68414.m05958)
1174Not regulatedNC-NC-NC262157_atAt1g52670biotin/lipoyl attachment domain-containing protein similar to SP|Q06881 Biotin carboxyl carrier protein of acetyl-CoA carboxylase
(BCCP) {Anabaena sp.}; contains Pfam profile PF00364: Biotin-requiring enzyme (68414.m05947)
1175Not regulatedNC-NC-NC262159_atAt1g52720expressed protein (68414.m05956)
1176Not regulatedNC-NC-NC262160_atAt1g52590expressed protein (68414.m05937)
1177Not regulatedNC-NC-NC262161_atAt1g52600signal peptidase, putative similar to SP|P13679 Microsomal signal peptidase 21 kDa subunit (EC 3.4.—.—) {Canis familians}; contains
Pfam profile PF00461: Signal peptidase I (68414.m05938)
1178Not regulatedNC-NC-NC262107_atAt1g02750drought-responsive family protein contains similarity to drought-induced mRNA, Di19 [Arabidopsis thaliana]
gi|469110|emb|CAA55321 (68414.m00229)
1179Not regulatedNC-NC-NC262109_atAt1g02730cellulose synthase family protein similar to cellulose synthase catalytic subunit [gi: 13925881] from Nicotiana alata, cellulose
synthase-4 [gi: 9622880] from Zea mays (68414.m00226)
1180Not regulatedNC-NC-NC262110_atAt1g02840pre-mRNA splicing factor SF2 (SF2)/SR1 protein identical to SP|O22315 Pre-mRNA splicing factor SF2 (SR1 protein) (Arabidopsis
thaliana) (68414.m00244)
1181Not regulatedNC-NC-NC262112_atAt1g02870expressed protein (68414.m00252)
1182Not regulatedNC-NC-NC262113_atAt1g02820late embryogenesis abundant 3 family protein/LEA3 family protein similar to late embryogenis abundant protein 5 GI: 2981167
from [Nicotiana tabacum]; contains Pfam profile PF03242: Late embryogenesis abundant protein (68414.m00242)
1183Not regulatedNC-NC-NC262114_atAt1g02860SPX (SYG1/Pho81/XPR1) domain-containing protein/zinc finger (C3HC4-type RING finger) protein-related weak similarity to
tripartite motif protein TRIM13 [Mus musculus] GI: 12407427, gpStaf50 [Homo sapiens] GI: 899300; contains Pfam profiles
PF03105: SPX domain, PF00097: Zinc finger, C3HC4 type (RING finger) (68414.m00251)
1184Not regulatedNC-NC-NC262118_atAt1g02816expressed protein contains Pfam profile PF04398: Protein of unknown function, DUF538 (68414.m00241)
1185Not regulatedNC-NC-NC262117_atAt1g0278060S ribosomal protein L19 (RPL19A) similar to ribosomal protein L19 GI: 36127 from [Homo sapiens] (68414.m00233)
1186Not regulatedNC-NC-NC262118_atAt1g02850glycosyl hydrolase family 1 protein contains Pfam PF00232: Glycosyl hydrolase family 1 domain; TIGRFAM TIGR01233: 6-
phospho-beta-galactosidase; similar to hydroxyisourate hydrolase (GI: 19569603) [Glycine max] (68414.m00247)
1187Not regulatedNC-NC-NC262077_atAt1g59610dynamin-like protein, putative (ADL3) strong similarity to dynamin-like protein 6 (ADL6) [Arabidopsis
thaliana] GI: 6651399; contains Pfam profiles PF01031: Dynamin central region, PF00350: Dynamin family, PF02212: Dynamin
GTPase effector domain,
PF00169: PH domain; identical to cDNA dynamin-like protein ADL3, GI: 4803835 (68414.m06704)
1188Not regulatedNC-NC-NC262078_atAt1g59520expressed protein (CW7) (68414.m06684)
1189Not regulatedNC-NC-NC262096_atAt1g56010transcription activator NAC1 (NAC1) contains Pfam PF02365: No apical meristem (NAM) domain; identical to NAC1 GB: AAF21437
GI: 6649236 from [Arabidopsis thaliana] (68414.m06427)
1190Not regulatedNC-NC-NC262064_atAt1g56075
1191Not regulatedNC-NC-NC262039_atAt1g80050adenine phosphoribosyltransferase 2 (APT2) identical to SP|Q42563 Adenine phosphoribosyltransferase 2 (EC 2.4.2.7) (APRT)
{Arabidopsis thaliana} (68414.m09371)
1192Not regulatedNC-NC-NC262044_s_atAt1g80210expressed protein (68414.m09387)
1193Not regulatedNC-NC-NC262048_atAt1g80230cytochrome c oxidase family protein contains Pfam domain, PF01215: Cytochrome c oxidase subunit Vb (68414.m09389)
1194Not regulatedNC-NC-NC262053_atAt1g79940DNAJ heat shock N-terminal domain-containing protein/sec63 domain-containing protein similar to SP|Q9UGP8 Translocation
protein SEC63 homolog {Homo sapiens}; contains Pfam profiles PF00226 DnaJ domain, PF02889 Sec63 domain (68414.m09342)
1195Not regulatedNC-NC-NC262055_atAt1g79970expressed protein (68414.m09348)
1196Not regulatedNC-NC-NC262057_atAt1g80040expressed protein (68414.m09369)
1197Not regulatedNC-NC-NC262058_atAt1g79975expressed protein (68414.m09352)
1198Not regulatedNC-NC-NC262059_atAt1g80030DNAJ heat shock protein, putative similar to SP|Q05646 Chaperone protein dnaJ {Erysipelothrix rhusiopathiae}; contains Pfam
profiles PF00226: DnaJ domain. PF01556: DnaJ C terminal region, PF00684: DnaJ central domain (4 repeats) (68414.m09366)
1199Not regulatedNC-NC-NC262038_atAt1g35580beta-fructofuranosidase, putative/invertase, putative/saccharase, putative/beta-fructosidase, putative similar to neutral invertase
[Daucus carota] GI: 4200165; contains Pfam profile PF04853: Plant neutral invertase (68414.m04417)
1200Not regulatedNC-NC-NC262026_atAt1g35670calcium-dependent protein kinase 2 (CDPK2) identical to calcium-dependent protein kinase [Arabidopsis thaliana]
gi|604881|dbj|BAA04830; contains protein kinase domain, Pfam: PF00069; contains EF hand domain (calcium-binding EF-hand).
Pfam: PF00036, INTERPRO: IPR002048 (68414.m04435)
1201Not regulatedNC-NC-NC262029_atAt1g3588050S ribosomal protein L21, chloroplast/CL21 (RPL21) identical to 50S ribosomal protein L21, chloroplast precursor (CL21)
{Arabidopsis thaliana} SWISS-PROT: P51412 (68414.m04436)
1202Not regulatedNC-NC-NC261981_atAt1g33811GDSL-motif lipase/hydrolase family protein similar to family II lipases EXL3 GI: 15054386, EXL1 GI: 15054382, EXL2 GI: 15054384
from [Arabidopsis thaliana]; contains Pfam profile PF00657: GDSL-like Lipase/Acylhydrolase (68414.m04180)
1203Not regulatedNC-NC-NC261962_atAt1g33780expressed protein similar to At3g29240 [Arabidopsis thaliana]; contains Pfam profile PF02622: Uncharacterized ACR, COG1678
(68414.m04175)
1204Not regulatedNC-NC-NC261999_atAt1g33800expressed protein contains Pfam profile PF04669: Protein of unknown function (DUF579) (68414.m04178)
1205Not regulatedNC-NC-NC262005_atAt1g64550ABC transporter family protein similar to ABC transporter protein GB: AAF31030 GI: 6699653 from [Leishmania major]
(68414.m07317)
1206Not regulatedNC-NC-NC261972_atAt1g64600expressed protein similar to Hypothetical 72.2 kDa protein in RPS27A-GPM1 intergenic region (Swiss-Prot: P36056)
[Saccharomyces cerevisiae] (68414.m07322)
1207Not regulatedNC-NC-NC261945_atAt1g64530RWP-RK domain-containing protein similar to nodule inception protein [Lotus japonicus] GI: 6448579; contains Pfam profile:
PF02042 RWP-RK domain (68414.m07315)
1208Not regulatedNC-NC-NC261948_atAt1g64680expressed protein (68414.m07332)
1209Not regulatedNC-NC-NC261949_atAt1g64670hydrolase, alpha/beta fold family protein low similarity to 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase [Pseudomonas
putida] GI: 2822275; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68414.m07331)
1210Not regulatedNC-NC-NC261954_atAt1g64510ribosomal protein S6 family protein similar to plastid ribosomal protein S6 precursor GB: AAF64311 GI: 7582401 from [Spinacia
oleracea] (68414.m07313)
1211Not regulatedNC-NC-NC261955_atAt1g6452026S proteasome regulatory subunit, putative (RPN12) similar to 26S proteasome regulatory complex subunit p30 GB: AAF08395
GI: 6434966 from [Drosophila melanogaster] (68414.m07314)
1212Not regulatedNC-NC-NC261958_atAt1g64590short-chain dehydrogenase/reductase (SDR) family protein contains INTERPRO family IPR002198 short-chain
dehydrogenase/reductase (SDR) superfamily (68414.m07321)
1213Not regulatedNC-NC-NC261958_atAt1g64500glutaredoxin family protein (68414.m07312)
1214Not regulatedNC-NC-NC261919_atAt1g65980peroxiredoxin type 2, putative strong similarity to type 2 peroxiredoxin [Brassica rapa subsp. pekinensis] GI: 4928472; contains
Pfam profile: PF00578 AhpC/TSA (alkyl hydroperoxide reductase and thiol-specific antioxidant) family (68414.m07486)
1215Not regulatedNC-NC-NC261920_atAt1g65930isocitrate dehydrogenase, putative/NADP+ isocitrate dehydrogenase, putative strong similarity to isocitrate dehydrogenase
SP|Q40345 from [Medicago sativa] (68414.m07481)
1216Not regulatedNC-NC-NC261924_atAt1g22550proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m02816)
1217Not regulatedNC-NC-NC261925_atAt1g22540proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m02815)
1218Not regulatedNC-NC-NC261930_atAt1g22440alcohol dehydrogenase, putative similar to alcohol dehydrogenase ADH GI: 7705214 from [Lycopersicon esculentum]; contains
Pfam zinc-binding dehydrogenase domain PF00107 (68414.m02805)
1219Not regulatedNC-NC-NC261939_atAt1g22450cytochrome c oxidase subunit 6b, putative (COX6b) nearly identical to subunit 6b of cytochrome c oxidase [Arabidopsis thaliana]
GI: 6518353 (68414.m02806)
1220Not regulatedNC-NC-NC261940_atAt1g22520expressed protein contains Pfam PF04418: Domain of unknown function (DUF543) (68414.m02813)
1221Not regulatedNC-NC-NC261882_atAt1g80770expressed protein (68414.m09476)
1222Not regulatedNC-NC-NC261885_atAt1g80930MIF4G domain-containing protein/MA3 domain-containing protein similar to SP|Q9P6R9 Cell cycle control protein cwf22
{Schizosaccharomyces pombe}; contains Pfam profiles PF02854: MIF4G domain, PF02847: MA3 domain (68414.m09495)
1223Not regulatedNC-NC-NC261886_s_atAt1g80700expressed protein (68414.m09469)
1224Not regulatedNC-NC-NC261887_atAt1g80780CCR4-NOT transcription complex protein, putative similar to SWISS-PROT: Q60809 CCR4-NOT transcription complex, subunit 7
(CCR4-associated factor 1, (CAF1) [Mus musculus] (68414.m09477)
1225Not regulatedNC-NC-NC261891_atAt1g80790XH/XS domain-containing protein/XS zinc finger domain-containing protein contains Pfam domains PF03469: XH domain,
PF03468: XS domain and PF03470: XS zinc finger domain (68414.m09479)
1226Not regulatedNC-NC-NC261895_atAt1g80830NRAMP metal ion transporter 1 (NRAMP1) identical to NRAMP1 protein [Arabidopsis thaliana] gi|7108911|gb|AAF36535; member
of the natural resistance-associated macrophage protein (NRAMP) metal transporter family, PMID: 11500563 (68414.m09483)
1227Not regulatedNC-NC-NC261896_atAt1g80670transducin family protein/WD-40 repeat family protein contains 5 WD-40 repeats (PF00400) (1 weak); similar to Hypothetical
RAE1-like protein. (SP: Q38942) [Arabidopsis thaliana]; similar to mRNA-associated protein mmp 41 ((mRNA export protein)
(GB: AAC28126) (GI: 1903456)(RAE1) (MRNP41) (SP: P78406) [Homo sapiens] (68414.m09486)
1228Not regulatedNC-NC-NC261897_atAt1g80950phospholipid/glycerol acyltransferase family protein low similarity to SP|Q59601 1-acyl-sn-glycerol-3-phosphate acyltransferase (EC
2.3.1.51) {Neisseria gonorrhoeae}; contains Pfam profile PF01553: Acyltransferase (68414.m09498)
1229Not regulatedNC-NC-NC261900_atAt1g80940expressed protein (68414.m09496)
1230Not regulatedNC-NC-NC261902_atAt1g80860expressed protein (68414.m09486)
1231Not regulatedNC-NC-NC261904_atAt1g65040zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68414.m07372)
1232Not regulatedNC-NC-NC261852_atAt1g50440zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68414.m05653)
1233Not regulatedNC-NC-NC261854_atAt1g50670OTU-like cysteine protease family protein contains Pfam profile PF02338: OTU-like cysteine protease (68414.m05698)
1234Not regulatedNC-NC-NC261855_atAt1g50510indigoidine synthase A family protein similar to lndA protein (GI: 7576263) [Erwinia chrysanthemi]; contains Pfam profile PF04227:
Indigoidine synthase A like protein (68414.m05665)
1235Not regulatedNC-NC-NC261858_atAt1g50570C2 domain-containing protein low similarity to cold-regulated gene SRC2 [Glycine max] GI: 2055230; contains Pfam profile
PF00168: C2 domain (68414.m05675)
1236Not regulatedNC-NC-NC261860_atAt1g50600scarecrow-like transcription factor 5 (SCL5) similar to SCARECROW GB: AAB06318 GI: 1497987 from [Arabidopsis thaliana]
(68414.m05683)
1237Not regulatedNC-NC-NC261861_atAt1g50450expressed protein (68414.m05655)
1238Not regulatedNC-NC-NC261864_s_atAt1g50480formate-tetrahydrofolate ligase/10-formyltetrahydrofolate synthetase (THFS) identical to 10-formyltetrahydrofolate synthetase
(Arabidopsis thaliana) GI: 5921663 (68414.m05660)
1239Not regulatedNC-NC-NC261865_atAt1g504307-dehydrocholesterol reductase/7-DHC reductase/sterol delta-7-reductase (ST7R)/dwarf5 protein (DWF5) identical to
SP|Q9LDU6 7-dehydrocholesterol reductase (EC 1.3.1.21) (7-DHC reductase) (Sterol delta-7-reductase) (Dwarf5 protein)
{Arabidopsis thaliana} (68414.m05652)
1240Not regulatedNC-NC-NC261866_atAt1g50420scarecrow-like transcription factor 3 (SCL3) identical to GB: AAD24404 GI: 4580515 from [Arabidopsis thaliana]
(Plant J. 18 (1), 111-119 (1999)) (68414.m05651)
1241Not regulatedNC-NC-NC261867_atAt1g50575lysine decarboxylase family protein contains Pfam profile PF03641: lysine decarboxylase family (68414.m05677)
1242Not regulatedNC-NC-NC261871_atAt1g11440expressed protein (68414.m01314)
1243Not regulatedNC-NC-NC261821_atAt1g11530thioredoxin family protein similar to thioredoxin H-type from Arabidopsis thaliana SP|P29448, Nicotiana tabacum SP|Q07090;
contains Pfam profile: PF00085 Thioredoxin (68414.m01324)
1244Not regulatedNC-NC-NC261822_atAt1g11380expressed protein contains Pfam profile PF04749: Protein of unknown function, DUF614 (68414.m01307)
1245Not regulatedNC-NC-NC261823_atAt1g11400expressed protein (68414.m01309)
1246Not regulatedNC-NC-NC261824_atAt1g11430plastid developmental protein DAG, putative similar to DAG protein, chloroplast precursor [Garden snapdragon] SWISS-
PROT: Q38732 (68414.m01313)
1247Not regulatedNC-NC-NC261827_atAt1g11480eukaryotic translation initiation factor-related contains weak similarity to Swiss-Prot: P23588 eukaryotic translation initiation factor 4B
(eIF-4B) [Homo sapiens] (68414.m01319)
1248Not regulatedNC-NC-NC261828_atAt1g11360universal stress protein (USP) family protein contains Pfam PF00582: universal stress protein family domain; similar to ethylene-
responsive ER6 protein (GI: 5669654) [Lycopersicon esculentum] (68414.m01304)
1249Not regulatedNC-NC-NC261831_atAt1g10630ADP-ribosylation factor, putative similar to ADP-ribosylation factor GI: 166586 from [Arabidopsis thaliana] (68414.m01205)
1250Not regulatedNC-NC-NC261832_atAt1g10650expressed protein (68414.m01207)
1251Not regulatedNC-NC-NC261838_atAt1g16030heat shock protein 70, putative/HSP70, putative similar to heat shock protein hsp70 GI: 1771478 from [Pisum sativum]
(68414.m01924)
1252Not regulatedNC-NC-NC261843_atAt1g16180TMS membrane family protein/tumour differentially expressed (TDE) family protein contains Pfam domain, PF03348: TMS
membrane protein/tumour differentially expressed protein (TDE) (68414.m01938)
1253Not regulatedNC-NC-NC261787_atAt1g16020expressed protein (68414.m01921)
1254Not regulatedNC-NC-NC261788_atAt1g15980expressed protein (68414.m01917)
1255Not regulatedNC-NC-NC261790_atAt1g16000expressed protein (68414.m01919)
1256Not regulatedNC-NC-NC261791_atAt1g16170expressed protein (68414.m01937)
1257Not regulatedNC-NC-NC261793_atAt1g16080expressed protein (68414.m01929)
1258Not regulatedNC-NC-NC261794_atAt1g16060ovule development protein, putative similar to ovule development protein AINTEGUMENTA (GI: 1209099)[Arabidopsis thaliana]
(68414.m01926)
1259Not regulatedNC-NC-NC261795_atAt1g16010magnesium transporter CorA-like family protein (MRS2-1) low similarity to SP|Q01926 RNA splicing protein MRS2, mitochondrial
precursor {Saccharomyces cerevisiae}; contains Pfam profile PF01544: CorA-like Mg2+ transporter protein (68414.m01920)
1260Not regulatedNC-NC-NC261801_atAt1g30520acyl-activating enzyme 14 (AAE14) identical to acyl-activating enzyme 14 [Arabidopsis thaliana]; similar to SP|Q42524 4-coumarate-
CoA ligase 1 (EC 6.2.1.12) (4-coumaroyl-CoA synthase 1) {Arabidopsis thaliana}; contains Pfam profile PF00501: AMP-binding
enzyme; identical to cDNA acyl-activating enzyme 14 (At1g30520) GI: 29893263 (68414.m03734)
1261Not regulatedNC-NC-NC261806_atAt1g30510ferredoxin--NADP(+) reductase, putative/adrenodoxin reductase, putative strong similarity to SP|P41345 Ferredoxin--NADP
reductase, root isozyme, chloroplast precursor (EC 1.18.1.2) (FNR) {Oryza sativa}, ferredoxin-NADP reductase precursor [Zea
mays] GI: 500751 (68414.m03730)
1262Not regulatedNC-NC-NC261808_atAt1g30480DNA-damage-repair/toleration protein, chloroplast (DRT111) nearly identical to SP|P42698 DNA-damage-repair/toleration protein
DRT111, chloroplast precursor {Arabidopsis thaliana}; contains Pfam profiles PF01585: G-patch domain, PF00076: RNA
recognition motif. (a.k.a. RRM, RBD, or RNP domain) (68414.m03726)
1263Not regulatedNC-NC-NC261810_atAt1g08130DNA ligase/polydeoxyribonucleotide synthase [ATP] identical to SP|Q42572 DNA ligase (EC 6.5.1.1) {Polydeoxyribonucleotide
synthase [ATP]} {Arabidopsis thaliana}; contains Pfam profiles: PF01068 ATP dependent DNA ligase domain, PF04679 ATP
dependent DNA ligase C terminal region, PF04675 DNA ligase N terminus (68414.m00892)
1264Not regulatedNC-NC-NC261815_atAt1g08325
1265Not regulatedNC-NC-NC261756_atAt1g08320bZIP family transcription factor contains Pfam profile: PF00170 bZIP transcription factor (68414.m00920)
1266Not regulatedNC-NC-NC261757_atAt1g08210aspartyl protease family protein contains Pfam profile PF00026: Eukaryotic aspartyl protease; similar to CND41, chloroplast
nucleoid DNA binding protein (GI: 2541876) {Nicotiana tabacum} (68414.m00907)
1267Not regulatedNC-NC-NC261758_atAt1g08250prephenate dehydratase family protein contains similarity to prephenate dehydratase GI: 1008717 from [Amycolatopsis
methanolica] (68414.m00910)
1268Not regulatedNC-NC-NC261769_atAt1g76100plastocyanin identical to plastocyanin GI: 1865683 from [Arabidopsis thaliana] (68414.m08837)
1269Not regulatedNC-NC-NC261770_atAt1g76140prolyl oligopeptidase, putative/prolyl endopeptidase, putative/post-proline cleaving enzyme, putative similar to SP|Q9QUR6 Prolyl
endopeptidase (EC 3.4.21.26) (Post-proline cleaving enzyme) {Mus musculus}; contains Pfam profiles PF00326: prolyl
oligopeptidase family, PF02897: Prolyl oligopeptidase, N-terminal beta-propeller domain (68414.m08842)
1270Not regulatedNC-NC-NC261771_atAt1g76150maoC-like dehydratase domain-containing protein contains similarity to Swiss-Prot: P51659 estradiol 17 beta-dehydrogenase 4 (17-
beta-HSD 4) (17-beta-hydroxysteroid dehydrogenase 4) [Homo sapiens]; contains Pfam profile PF01575: MaoC like domain
(68414.m08843)
1271Not regulatedNC-NC-NC261748_atAt1g76070expressed protein (68414.m08834)
1272Not regulatedNC-NC-NC261751_atAt1g76080thioredoxin family protein low similarity to thioredoxin (TRX) [Fasciola hepatica] GI: 6687568; contains Pfam profile PF00085:
Thioredoxin (68414.m08835)
1273Not regulatedNC-NC-NC261754_atAt1g76130alpha-amylase, putative/1,4-alpha-D-glucan glucanohydrolase, putative strong similarity to alpha-amylase GI: 7532799 from [Malus x
domestica]; contains Pfam profile PF00128: Alpha amylase, catalytic domain (68414.m08841)
1274Not regulatedNC-NC-NC261723_atAt1g76200expressed protein (68414.m08849)
1275Not regulatedNC-NC-NC261725_atAt1g76300small nuclear ribonucleoprotein D3, putative/snRNP core protein D3, putative/Sm protein D3, putative similar to SWISS-
PROT: P43331 small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3, Sm-D3) [Mouse] (68414.m08862)
1276Not regulatedNC-NC-NC261733_atAt1g47830clathrin coat assembly protein, putative similar to clathrin coat assembly protein AP17 GB: CAA65533 GI: 2959358 from [Zea mays];
contains Pfam profile: PF01217 clathrin adaptor complex small chain (68414.m05324)
1277Not regulatedNC-NC-NC261739_atAt1g47750peroxisomal biogenesis factor 11 family protein/PEX11 family protein contains Pfam PF05648: Peroxisomal biogenesis factor 11
(PEX11) (68414.m05310)
1278Not regulatedNC-NC-NC261740_atAt1g47740expressed protein (68414.m05308)
1279Not regulatedNC-NC-NC261744_atAt1g08490cysteine desulfurase, putative similar to nitrogen fixation protein (nifS) GB: D64004 GI: 1001701 from [Synechocystis sp]; contains
TIGRFAM TIGR01364: phosphoserine aminotransferase; contains Pfam PF00266: aminotransferase, class V (68414.m00940)
1280Not regulatedNC-NC-NC261746_atAt1g08380expressed protein (68414.m00927)
1281Not regulatedNC-NC-NC261720_atAt1g08460histone deacetylase family protein (HDA8) identical to HDA8 [Arabidopsis thaliana] GI: 21360988low similarity to SP|Q9Z2V5
Histone deacetylase 6 (ND6) (Histone deacetylase mHDA2) {Mus musculus}; contains Pfam profile PF00850: Histone deacetylase
family; supporting cDNA gi|21360987|gb|AF510167.1| (68414.m00936)
1282Not regulatedNC-NC-NC261721_atAt1g08480expressed protein (68414.m00939)
1283Not regulatedNC-NC-NC261692_atAt1g08450catreticulin 3 (CRT3) identical to similar to SP|O04153 Calreticulin 3 precursor {Arabidopsis thaliana} (68414.m00934)
1284Not regulatedNC-NC-NC261693_atAt1g08370hydroxyproline-rich glycoprotein family protein contains proline-rich extensin domains, INTERPRO: IPR002965; contains some
similarity to transcription factor [Danio rerio] gi|15617376|emb|CAC69871 (68414.m00926)
1285Not regulatedNC-NC-NC261694_atAt1g0836060S ribosomal protein L10A (RPL10aA) similar to 60S ribosomal protein L10A GB: AAC73045 GI: 3860277 from [Arabidopsis
thaliana] (68414.m00925)
1286Not regulatedNC-NC-NC261895_atAt1g08520magnesium-chelatase subunit chID, chloroplast, putative/Mg-protoporphyrin IX chelatase, putative (CHLD) similar to Mg-chelatase
SP|O24133 from Nicotiana tabacum, GB: AF014399 GI: 2318116 from [Pisum sativum] (68414.m00943)
1287Not regulatedNC-NC-NC261696_atAt1g08470strictosidine synthase family protein similar to strictosidine synthase [Rauvolfia serpentina][SP|P15324] (68414.m00938)
1288Not regulatedNC-NC-NC261709_atAt1g32790RNA-binding protein, putative similar to RNA-binding protein GB: CAB40027 GI: 4539439 from [Arabidopsis thaliana]
(68414.m04042)
1289Not regulatedNC-NC-NC261711_atAt1g32700zinc-binding family protein similar to zinc-binding protein [Pisum sativum] GI: 16117799; contains Pfam profile PF04640: Protein of
unknown function, DUF597 (68414.m04032)
1290Not regulatedNC-NC-NC261718_atAt1g18390protein kinase family protein contains protein kinase domain, Pfam: PF00069 (68414.m02297)
1291Not regulatedNC-NC-NC261661_atAt1g18360hydrolase, alpha/beta fold family protein similar to monoglyceride lipase from [Homo sapiens] GI: 14594904, [Mus musculus]
GI: 2632162, [Rattus norvegicus] GI: 19697886; contains Pfam profile PF00561: hydrolase, alpha/beta fold family (68414.m02294)
1292Not regulatedNC-NC-NC261666_atAt1g18440peptidyl-tRNA hydrolase family protein contains Pfam profile PF01195: peptidyl-tRNA hydrolase (68414.m02301)
1293Not regulatedNC-NC-NC261687_atAt1g18460lipase family protein similar to triacylglycerol lipase, gastric precursor (EC 3.1.1.3) {Canis familiaris} [SP|P80035] (68414.m02303)
1294Not regulatedNC-NC-NC261672_atAt1g18450actin-related protein 4 (ARP4) neary identical to actin-related protein 4 (ARP4) [Arabidopsis thaliana] GI: 21427463; contains Pfam
profile PF00022: Actin; supporting cDNA gi|21427462|gb|AF507912.1| (68414.m02302)
1295Not regulatedNC-NC-NC261674_atAt1g18270ketose-bisphosphate aldolase class-II family protein low similarity to KbaY (tagatose-1,6-bisphosphate aldolase) [Escherichia coli]
GI: 8895753; contains Pfam profile PF01116: Fructose-bisphosphate aldolase class-II (68414.m02280)
1296Not regulatedNC-NC-NC261677_atAt1g18470zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (68414.m02304)
1297Not regulatedNC-NC-NC261682_atAt1g47330expressed protein contains Pfam profile PF01595: Domain of unknown function (68414.m05240)
1298Not regulatedNC-NC-NC261659_atAt1g50030target of rapamycin protein (TOR) identical to pTOR [Arabidopsis thaliana] GI: 12002902; contains Pfam profiles PF00454
Phosphatidylinositol 3- and 4-kinase, PF02259 FAT domain, PF02260 FATC domain (68414.m05614)
1299Not regulatedNC-NC-NC261634_atAt1g49970ATP-dependent Clp protease proteolytic subunit (ClpR1) (nClpP5) identical to nClpP5 GB: BAA82069 GI: 5380595 from
[Arabidopsis thaliana]; identical to cDNA nClpP5 (nuclear encoded ClpP5) GI: 5360594 (68414.m05607)
1300Not regulatedNC-NC-NC261635_atAt1g50020expressed protein (68414.m05613)
1301Not regulatedNC-NC-NC261637_atAt1g49950DNA-binding protein, putative contains similarity to DNA-binding protein PcMYB1 [Petroselinum crispum] gi|2224899|gb|AAB81699
(68414.m05602)
1302Not regulatedNC-NC-NC261638_atAt1g49975expressed protein (68414.m05608)
1303Not regulatedNC-NC-NC261642_atAt1g27680glucose-1-phosphate adenylyltransferase large subunit 2 (APL2)/ADP-glucose pyrophosphorylase identical to SP|P55230
(68414.m03383)
1304Not regulatedNC-NC-NC261644_s_atAt1g27830
1305Not regulatedNC-NC-NC261655_atAt1g01940peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein contains Pfam domain, PF00160: peptidyl-prolyl cis-trans
isomerase, cyclophilin-type (68414.m00112)
1306Not regulatedNC-NC-NC261622_atAt1g01970pentatricopeptide (PPR) repeat-containing protein low similarity to 67 kD chloroplastic RNA-binding protein RSP67.2 [Raphanus
sativus] GI: 9755888; contains Pfam profile PF01535: PPR repeat (68414.m00115)
1307Not regulatedNC-NC-NC261626_atAt1g01990expressed protein (68414.m00117)
1308Not regulatedNC-NC-NC261627_atAt1g01910anion-transporting ATPase, putative similar to SP|O43681 Arsenical pump-driving ATPase (EC 3.6.3.16) (Arsenite-translocating
ATPase) (Arsenical resistance ATPase) (Arsenite-transporting ATPase) (ARSA) (ASNA-I) {Homo sapiens}; contains Pfam profile
PF02374; Anion-transporting ATPase (68414.m00108)
1309Not regulatedNC-NC-NC261606_atAt1g49570peroxidase, putative identical to peroxidase ATP5a [Arabidopsis thaliana] gi|1546702|emb|CAA67341; similar to peroxidase SWISS
PROT: P80679 from [Armoracia rusticana] (68414.m05558)
1310Not regulatedNC-NC-NC261607_atAt1g49860expressed protein (68414.m05569)
1311Not regulatedNC-NC-NC261612_atAt1g49710fucosyltransferase-like protein, putative/FucT2, putative/FucTB, putative (FUT12) identical to Putative fucosyltransferase-like
protein (FucTB) (FucT2) (AtFUT12) (Swiss-Prot: Q9FX97) [Arabidopsis thaliana]; similar to glycoprotain 3-alpha-L-
fucosyltransferase A (SP: Q9LJK1) [Arabidopsis thaliana]; contains Pfam profile PF00852: Fucosyl transferase (68414.m05573)
1312Not regulatedNC-NC-NC261620_s_atAt1g3314060S ribosomal protein L9 (RPL90A/C) similar to RIBOSOMAL PROTEIN L9 GB: P49209 from [Arabidopsis thaliana]
(68414.m04093)
1313Not regulatedNC-NC-NC261566_atAt1g33230expressed protein (68414.m04106)
1314Not regulatedNC-NC-NC261570_atAt1g01120fatty acid elongase 3-ketoacyl-CoA synthase 1 (KCS1) nearly identical to GB: AAC99312 GI: 4091810 from [Arabidopsis thaliana]
(68414.m00015)
1315Not regulatedNC-NC-NC261577_atAt1g0108033 kDa ribonucleoprotein, chloroplast, putative/RNA-binding protein cp33, putative similar to 33 KDA RIBONUCLEOPROTEIN
GB: P19684 from [Nicotiana sylvestris] (68414.m00010)
1316Not regulatedNC-NC-NC261582_atAt1g01160SSXT protein-related/transcription co-activator-related similar to SYT/SSX4 fusion protein (GI: 11127695) [Homo sapiens];
supporting cDNA gi|21539891|gb|AY102640.1|; contains Pfam profile PF05030: SSXT protein (N-terminal region) (68414.m00026)
1317Not regulatedNC-NC-NC261583_atAt1g01090pyruvate dehydrogenase E1 component alpha subunit, chloroplast identical to pyruvate dehydrogenase E1 alpha subunit
GB: AAB86803 GI: 2454182 from [Arabidopsis thaliana]; identical to cDNA pyruvate dehydrogenase E1 alpha subunit mRNA,
nuclear gene encoding plastid protein GI: 2454181 (68414.m00011)
1318Not regulatedNC-NC-NC261591_atAt1g01740protein kinase family protein low similarity to protein kinase [Arabidopsis thaliana] GI: 2852449; contains Pfam profile: PF00069
Protein kinase domain (68414.m00093)
1319Not regulatedNC-NC-NC261563_atAt1g01630SEC14 cytosolic factor, putative/phosphoglyceride transfer protein, putative contains Pfam PF00650: CRAL/TRIO domain and
PF03765: CRAL/TRIO, N-terminus; similar to polyphosphoinositide binding protein Ssh2p GB: AAB94599 GI: 2739046 from
[Glycine max] (68414.m00080)
1320Not regulatedNC-NC-NC261534_atAt1g01820peroxisomal biogenesis factor 11 family protein/PEX11 family protein contains Pfam PF05648: Peroxisomal biogenesis factor 11
(PEX11) (68414.m00101)
1321Not regulatedNC-NC-NC261535_atAt1g01725expressed protein (68414.m00091)
1322Not regulatedNC-NC-NC261536_atAt1g01790K+ efflux antiporter, putative (KEA1) identical to GB: AAD01191 GI: 4101473 from [Arabidopsis thaliana]; Monovalent cation:proton
antiporter family 2 (CPA2 family) member, PMID: 11500563 (68414.m00098)
1323Not regulatedNC-NC-NC261537_atAt1g01800short-chain dehydrogenase/reductase (SDR) family protein similar to carbonyl reductase GI: 1049108 from [Mus musculus]
(68414.m00099)
1324Not regulatedNC-NC-NC261540_atAt1g63610expressed protein (68414.m07191)
1325Not regulatedNC-NC-NC261530_atAt1g63460glutathione peroxidase, putative contains Pfam profile: PF00255 glutathione peroxidases (68414.m07176)
1326Not regulatedNC-NC-NC261509_atAt1g71740hypothetical protein (68414.m08292)
1327Not regulatedNC-NC-NC261513_atAt1g71840transducin family protein/WD-40 repeat family protein contains Pfam profile: PF00560 Leucine Rich Repeat (4 copies); Pfam
profile: PF00069 Eukaryotic protein kinase domain; Pfam profile: PF00400 WD domain, G-beta repeat (7 copies) (68414.m08302)
1328Not regulatedNC-NC-NC261515_atAt1g71800cleavage stimulation factor, putative similar to cleavage stimulation factor 64 kilodalton subunit GB: AAD47839 GI: 5713194 from
[Drosophila melanogaster], SP|P33240 Cleavage stimulation factor, 64 kDa subunit {Homo sapiens}; contains InterPro entry
IPR000504: RNA-binding region RNP-1 (RNA recognition motif) (RRM) (68414.m08298)
1329Not regulatedNC-NC-NC261517_atAt1g71780expressed protein (68414.m08296)
1330Not regulatedNC-NC-NC261519_atAt1g71810ABC1 family protein contains Pfam domain, PF03109: ABC1 family (68414.m08299)
1331Not regulatedNC-NC-NC261522_atAt1g71710inositol polyphosphate 5-phosphatase, putative similar to inositol polyphosphate 5-phosphatase I [Arabidopsis thaliana]
GI: 10444261 (68414.m08289)
1332Not regulatedNC-NC-NC261523_atAt1g71860protein tyrosine phosphatase 1 (PTP1) identical to protein tyrosine phosphatase 1 GI: 3170531 from [Arabidopsis thaliana]; contains
Pfam profile: PF00102 protein-tyrosine phosphatase (68414.m08304)
1333Not regulatedNC-NC-NC261524_atAt1g14300expressed protein contains Pfam PF04063: Domain of unknown function (DUF383) and PF04064: Domain of unknown function
(DUF384) (68414.m01695)
1334Not regulatedNC-NC-NC261526_atAt1g14370protein kinase (APK2a) identical to protein kinase APK2a GI: 2852447 from [Arabidopsis thaliana] (68414.m01703)
1335Not regulatedNC-NC-NC261481_atAt1g14260zinc finger (C3HC4-type RING finger) family protein contains Pfam domain, PF00097: Zinc finger, C3HC4 type (RING finger)
(68414.m01689)
1336Not regulatedNC-NC-NC261483_atAt1g14270CAAX amino terminal protease family protein contains Pfam profile PF02517: CAAX amino terminal protease family
(68414.m01691)
1337Not regulatedNC-NC-NC261486_atAt1g14510PHD finger family protein contains Pfam domain, PF00628: PHD-finger (68414.m01720)
1338Not regulatedNC-NC-NC261487_atAt1g14340RNA recognition motif (RRM)-containing protein (68414.m01699)
1339Not regulatedNC-NC-NC261489_atAt1g14450expressed protein contains similarity to cytochrome c oxidase subunit I GI: 5678701 from [Loligo pealei] (68414.m01714)
1340Not regulatedNC-NC-NC261490_atAt1g1432060S ribosomal protein L10 (RPL10A)/Wilm's tumor suppressor protein-related similar to tumor suppressor GI: 575354 from [Oryza
sativa] (68414.m01697)
1341Not regulatedNC-NC-NC261492_atAt1g14290acid phosphatase, putative similar to acid phosphatase [Lupinus albus] GI: 5360721; contains Pfam profile PF01598 sterol
desaturase (68414.m01694)
1342Not regulatedNC-NC-NC261493_atAt1g14410DNA-binding protein-related similar to DNA-binding protein p24 GI: 9651810 from [Solanum tuberosum] (68414.m01709)
1343Not regulatedNC-NC-NC261495_atAt1g28410expressed protein (68414.m03493)
1344Not regulatedNC-NC-NC261439_atAt1g28395expressed protein (68414.m03489)
1345Not regulatedNC-NC-NC261440_atAt1g28510expressed protein (68414.m03505)
1346Not regulatedNC-NC-NC261408_s_atAt1g07820histone H4 identical to histone H4 from Lycopersicon esculentum GI: 297150, Lolium temulentum SP|P02308, Acropora formosa
GI: 455652, Citrus jambhiri GI: 16797797 (68414.m00847)
1347Not regulatedNC-NC-NC261409_atAt1g07640Dof-type zinc finger domain-containing protein identical to zinc finger protein OBP2 GI: 5059394 from [Arabidopsis thaliana]
(68414.m00819)
1348Not regulatedNC-NC-NC261411_atAt1g07790histone H2B, putative strong similarity to histone H2B Arabidopsis thaliana GI: 2407802, Gossypium hirsutum SP|O22582.
Lycopersicon esculentum GI: 3021489, Capsicum annum SP|O49118; contains Pfam profile PF00125 Core histone
H2A/H2B/H3/H4 (68414.m00843)
1349Not regulatedNC-NC-NC261413_atAt1g07630protein phosphatase 2C family protein/PP2C family protein similar to protein phosphatase-2c (GI: 3608412) [Mesembryanthemum
crystallinum]; contains Pfam PF00481: Protein phosphatase 2C domain (68414.m00818)
1350Not regulatedNC-NC-NC261415_atAt1g07750cupin family protein similar to legumin (11S-globulin) from Ginkgo biloba [GI: 949889], 11S globulin from Avena sativa [GI: 472867]
(68414.m00837)
1351Not regulatedNC-NC-NC261417_atAt1g07700thioredoxin family protein low similarity to thioredoxin [Gallus gallus] GI: 212766; contains Pfam profile: PF00085 Thioredoxin
(68414.m00827)
1352Not regulatedNC-NC-NC261418_atAt1g07830ribosomal protein L29 family protein similar to GB: CAA83057 from [Saccharomyces cerevisiae] (68414.m00849)
1353Not regulatedNC-NC-NC261420_atAt1g07720beta-ketoacyl-CoA synthase family protein similar to GB: AAC99312 from [Arabidopsis thaliana] (Plant J. (1999) in press)
(68414.m00832)
1354Not regulatedNC-NC-NC261422_atAt1g18730expressed protein (68414.m02336)
1355Not regulatedNC-NC-NC261424_atAt1g18700DNAJ heat shock N-terminal domain-containing protein low similarity to SP|Q9QYI8 DnaJ homolog subfamily B member 7 Mus
musculus; contains Pfam profile PF00226 DnaJ domain (68414.m02333)
1356Not regulatedNC-NC-NC261425_atAt1g18880proton-dependent oligopeptide transport (POT) family protein contains Pfam profile: PF00854 POT family (68414.m02350)
1357Not regulatedNC-NC-NC261405_atAt1g18740expressed protein (68414.m02337)
1358Not regulatedNC-NC-NC261406_atAt1g18800nucleosome assembly protein (NAP) family protein similar to SP|Q01105|SET protein (HLA-DR associated protein II) (PHAPII)
(Phosphatase 2A inhibitor I2PP2A) {Homo sapiens}; contains Pfam profile PF00956: Nucleosome assembly protein (NAP)
(68414.m02343)
1359Not regulatedNC-NC-NC261376_atAt1g18660zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (68414.m02326)
1360Not regulatedNC-NC-NC261377_atAt1g18850expressed protein (68414.m02347)
1361Not regulatedNC-NC-NC261378_atAt1g18890calcium-dependent protein kinase 1 (CDPK1) identical to calcium-dependent protein kinase [Arabidopsis thaliana]
gi|604880|dbj|BAA04829; contains protein kinase domain, Pfam: PF00069; contains EF hand domain (calcium-binding EF-hand),
Pfam: PF00036, INTERPRO: IPR002048 (68414.m02351)
1362Not regulatedNC-NC-NC261379_atAt1g18720expressed protein similar to YGL010w-like protein GI: 2982301 from [Picea mariana] (68414.m02335)
1363Not regulatedNC-NC-NC261386_atAt1g05430expressed protein (68414.m00551)
1364Not regulatedNC-NC-NC261397_atAt1g79820hexose transporter, putative similar to hexose transporter GI: 8347246 from (Solanum tuberosum); contains Pfam profile PF00083:
major facilitator superfamily protein (68414.m09322)
1365Not regulatedNC-NC-NC261403_atAt1g79590syntaxin 52 (SYP52) identical to Swiss-Prot: Q94KK7 syntaxin 52 (AtSYP52) [Arabidopsis thaliana] (68414.m09280)
1366Not regulatedNC-NC-NC261344_atAt1g79710integral membrane transporter family protein similar to high affinity folic acid/methotrexate transporter 5 (GI: 21898554) [Leishmania
tarentolae]; Interpro IPR001991/PR00173 Sodium:dicarboxylater symporter family (68414.m09296)
1367Not regulatedNC-NC-NC261346_atAt1g79720aspartyl protease family protein contains Pfam domain, PF00026: eukaryotic aspartyl protease (68414.m09298)
1368Not regulatedNC-NC-NC261348_atAt1g79810Pex2/Pex12 N-terminal domain-containing protein/zinc finger (C3HC4-type RING finger) family protein contains Pfam profiles
PF00097: zinc finger C3HC4 type (RING finger), PF04757: Pex2/Pex12 amino terminal region (68414.m09318)
1369Not regulatedNC-NC-NC261351_atAt1g79790haloacid dehalogenase-like hydrolase family protein contains InterPro accession IPR005834: Haloacid dehalogenase-like
hydrolase (68414.m09312)
1370Not regulatedNC-NC-NC261352_atAt1g79650DNA repair protein RAD23, putative similar to DNA repair by nucleotide excision (NER) RAD23 protein, isoform II GI: 1914685 from
[Daucus carota]; contains Pfam profiles PF00240: Ubiquitin family, PF00627: UBA/TS-N domain (68414.m09287)
1371Not regulatedNC-NC-NC261354_atAt1g79690MutT/nudix family protein contains Pfam NUDIX domain [PF00293]; very low similarity to Chain A and Chain B of Escherichia coli
isopentenyl diphosphate:dimethylallyl diphosphate isomerase [gi: 15826361] [gi: 15826360] (68414.m09294)
1372Not regulatedNC-NC-NC261362_s_atAt1g4188060S ribosomal protein L35a (RPL35aB) identical to GB: CAB81600 from [Arabidopsis thaliana] (68414.m04836)
1373Not regulatedNC-NC-NC261373_atAt1g53000cytidylyltransferase family contains Pfam profile: PF02348 cytidylyltransferase (68414.m05999)
1374Not regulatedNC-NC-NC261314_atAt1g52980GTP-binding family protein contains Pfam domain, PF01926: GTPase of unknown function (68414.m05995)
1375Not regulatedNC-NC-NC261315_atAt1g53170ethylene-responsive element-binding factor 8/ERF transcription factor 8 (ERF8) identical to ERF transcription factor 8
GI: 10567108 from [Arabidopsis thaliana] (68414.m06025)
1376Not regulatedNC-NC-NC261320_atAt1g53120RNA-binding S4 domain-containing protein (68414.m06015)
1377Not regulatedNC-NC-NC261322_atAt1g44750purine permease family protein similar to purine permease [Arabidopsis thaliana] GI: 7620007; contains Pfam profile PF03151:
Domain of unknown function, DUF250 (68414.m05126)
1378Not regulatedNC-NC-NC261323_atAt1g44760universal stress protein (USP) family protein contains Pfam profile PF00582: universal stress protein family (68414.m05128)
1379Not regulatedNC-NC-NC261324_atAt1g44770expressed protein (68414.m05129)
1380Not regulatedNC-NC-NC261326_s_atAt1g44180aminoacylase, putative/N-acyl-L-amino-acid amidohydrolase, putative similar to aminoacylase-1 (N-acyl-L-amino-acid
amidohydrolase, ACY-1) [Homo sapiens] SWISS-PROT: Q03154 (68414.m05103)
1381Not regulatedNC-NC-NC261328_atAt1g44835YbaK/prolyl-tRNA synthetase family protein contains Pfam PF04073: YbaK/prolyl-tRNA synthetases associated domain; similar to
25.7 kDa protein (GI: 7271117) [Cicer arietinum] (68414.m05136)
1382Not regulatedNC-NC-NC261334_atAt1g44960expressed protein (68414.m05153)
1383Not regulatedNC-NC-NC261338_atAt1g44920expressed protein (68414.m05147)
1384Not regulatedNC-NC-NC261293_atAt1g36980expressed protein (68414.m04610)
1385Not regulatedNC-NC-NC261294_atAt1g48430dihydroxyacetone kinase family protein similar to dihydroxyacetone kinases; contains Pfam profiles PF02733: DAK1 domain,
PF02734: DAK2 domain (68414.m05414)
1386Not regulatedNC-NC-NC261295_atAt1g48450expressed protein (68414.m05416)
1387Not regulatedNC-NC-NC261299_atAt1g48550vacuolar protein sorting-associated protein 26 family protein/VPS26 family protein contains Pfam profile PF03643: Vacuolar
protein sorting-associated protein 26 (68414.m05429)
1388Not regulatedNC-NC-NC261301_atAt1g48570zinc finger (Ran-binding) family protein contains Pfam domain, PF00641: Zn-finger in Ran binding protein and others
(68414.m05431)
1389Not regulatedNC-NC-NC261304_atAt1g48440expressed protein (68414.m05415)
1390Not regulatedNC-NC-NC261308_atAt1g48480leucine-rich repeat transmembrane protein kinase, putative contains similarity to many predicted protein kinases (68414.m05419)
1391Not regulatedNC-NC-NC261309_atAt1g48600phosphoethanolamine N-methyltransferase 2, putative (NMT2) vary similar to [PEM2_ARATH Putative phosphoethanolamine N-
methyltransferase 2 (EC 2.1.1.103) (SP: Q944H0){Arabidopsis thaliana}; very similar to Halotolerance protein Hal3b
(SP: P94063)[Arabidopsis thaliana]; to similar to GB: AAF61950 from [Spinacia oleracea] (68414.m05434)
1392Not regulatedNC-NC-NC261279_atAt1g05850chitinase-like protein 1 (CTL1) similar to class I chitinase GI: 7798856 from [Halimolobos perplexa var. perplexa]; contains Pfam
profile PF00182: Chitinase class I; identical to cDNA chitinase-like protein 1 (CTL1) CTL1-ELP1 allele GI: 17226328
(68414.m00612)
1393Not regulatedNC-NC-NC261252_atAt1g05810Ras-related protein (ARA-1) (ARA)/small GTP-binding protein, putative nearly identical to SP: P19892 Ras-related protein ARA-1
[Arabidopsis thaliana] (Gene 76: 313-319(1989)) (68414.m00608)
1394Not regulatedNC-NC-NC261253_atAt1g05840aspartyl protease family protein contains Pfam PF00026: Eukaryotic aspartyl protease (68414.m00611)
1395Not regulatedNC-NC-NC261254_atAt1g05805basic helix-loop-helix (bHLH) family protein (68414.m00607)
1396Not regulatedNC-NC-NC261267_atAt1g26750expressed protein (68414.m03257)
1397Not regulatedNC-NC-NC261270_atAt1g26630eukaryotic translation initiation factor 5A, putative/eIF-5A, putative strong similariy to SP|Q9AXQ6 Eukaryotic translation initiation
factor 5A-1 (eIF-5A 1) {Lycopersicon esculentum} (68414.m03243)
1398Not regulatedNC-NC-NC261220_atAt1g19970ER lumen protein retaining receptor family protein similar to SP|P33946 ER lumen protein retaining receptor 1 (KDEL receptor 1)
{Bos taurus}; contains Pfam profile PF00810: ER lumen protein retaining receptor (68414.m02502)
1399Not regulatedNC-NC-NC261225_atAt1g20100expressed protein (68414.m02515)
1400Not regulatedNC-NC-NC261227_atAt1g2020026S proteasome regulatory subunit S3, putative (RPN3) similar to SP: Q06384 from [Daucus carota] (68414.m02524)
1401Not regulatedNC-NC-NC261238_atAt1g32810expressed protein (68414.m04044)
1402Not regulatedNC-NC-NC261190_atAt1g32990ribosomal protein L11 family protein similar to chloroplast ribosomal protein L11 GI: 21312 from [Spinacia oleracea]
(68414.m04063)
1403Not regulatedNC-NC-NC261196_atAt1g12860basic helix-loop-helix (bHLH) family protein/F-box family protein contains Pfam profiles: PF00646 F-box domain, PF00010 helix-
loop-helix DNA-binding domain (68414.m01494)
1404Not regulatedNC-NC-NC261197_atAt1g12900glyceraldehyde 3-phosphate dehydrogenase, chloroplast, putative/NADP-dependent glyceraldehydephosphate dehydrogenase,
putative similar to SP|P25856 Glyceraldehyde 3-phosphate dehydrogenase A, chloroplast precursor (EC 1.2.1.13) (NADP-
dependent glyceraldehydephosphate dehydrogenase subunit A) {Arabidopsis thaliana}; contains Pfam profiles PF02800:
Glyceraldehyde 3-phosphate dehydrogenase C-terminal domain. PF00044: Glyceraldehyde 3-phosphate dehydrogenase NAD
binding domain (68414.m01498)
1405Not regulatedNC-NC-NC261202_atAt1g12910flower pigmentation protein (AN11) contains 3 WD-40 repeats (PF00400); identical to GB: AAC18912 from [Arabidopsis thaliana]
(Genes Dev. 11 (11), 1422-1434 (1997)) (68414.m01499)
1406Not regulatedNC-NC-NC261203_atAt1g12845expressed protein (68414.m01492)
1407Not regulatedNC-NC-NC261204_s_atAt3g26618eukaryotic release factor 1 family protein/eRF1 family protein contains Pfam profiles: PF03463 eRF1 domain 1, PF03464 eRF1
domain 2, PF03465 eRF1 domain 3 (68416.m03325)
1408Not regulatedNC-NC-NC261206_atAt1g12800S1 RNA-binding domain-containing protein contains Pfam domain, PF00575: S1 RNA binding domain (68414.m01486)
1409Not regulatedNC-NC-NC261207_atAt1g12830expressed protein (68414.m01490)
1410Not regulatedNC-NC-NC261209_atAt1g12810proline-rich family protein contains proline rich extensin domains, INTERPRO: IPR002965 (68414.m01488)
1411Not regulatedNC-NC-NC261210_atAt1g12840vacuolar ATP synthase subunit C (VATC)/V-ATPase C subunit/vacuolar proton pump C subunit (DET3) identical to vacuolar ATP
synthase subunit C SP: Q9SDS7 from [Arabidopsis thaliana] (68414.m01491)
1412Not regulatedNC-NC-NC261183_atAt1g34550expressed protein contains Pfam profile PF04765: Protein of unknown function (DUF616); expression supported by MPSS
(68414.m04294)
1413Not regulatedNC-NC-NC261165_atAt1g34430dihydrolipoamide S-acetyltransferase, putative similar to dihydrolipoamide S-acetyltransferase (LTA2) [Arabidopsis thaliana]
GI: 5881963; contains Pfam profiles PF00198: 2-oxo acid dehydrogenases acyltransferase (catalytic domain), PF00364: Biotin-
requiring enzyme, PF02817: e3 binding domain (68414.m04277)
1414Not regulatedNC-NC-NC261173_atAt1g04830RabGAP/TBC domain-containing protein low similarity to SP|Q08484 GTPase-activating protein GYP1 {Saccharomyces
cerevisiae}; contains Pfam profile PF00566: TBC domain (68414.m00479)
1415Not regulatedNC-NC-NC261176_atAt1g04780ankyrin repeat family protein contains Pfam PF00023: Ankyrin repeat (68414.m00474)
1416Not regulatedNC-NC-NC261177_atAt1g04770male stenlity MS5 family protein similar to male sterility MS5 [Arabidopsis thaliana] GI: 3859112; contains Pfam profile PF00515
TPR Domain (68414.m00473)
1417Not regulatedNC-NC-NC261153_atAt1g04850ubiquitin-associated (UBA)/TS-N domain-containing protein weak similarity to SP|P45974 Ubiquitin carboxyl-terminal hydrolase 5
(EC 3.1.2.15) {Homo sapiens}; contains Pfam profile PF00627 UBA/TS-N domain (68414.m00481)
1418Not regulatedNC-NC-NC261154_atAt1g04970lipid-binding serum glycoprotein family protein low similarity to SP|P17213 Bactericidal permeability-increasing protein precursor
(BPI) {Homo sapiens}; contains Pfam profile PF02886: LBP/BPI/CETP family, C-terminal domain (68414.m00495)
1419Not regulatedNC-NC-NC261155_atAt1g04960expressed protein (68414.m00494)
1420Not regulatedNC-NC-NC261126_atAt1g04950TATA box-binding protein-associated factor (TAF) family protein contains Pfam profile: PF02969 TATA box binding protein
associated factor (68414.m00492)
1421Not regulatedNC-NC-NC261128_atAt1g04860ubiquitin-specific protease 2 (UBP2) identical to GI: 11993463 (68414.m00482)
1422Not regulatedNC-NC-NC261130_atAt1g04870protein arginine N-methyltransferase family protein similar to SP|Q96LAB Protein arginine N-methyltransferase 6 (EC 2.1.1.—)
{Homo sapiens} (68414.m00483)
1423Not regulatedNC-NC-NC261132_atAt1g19800expressed protein contains Pfam PF02405: Domain of unknown function DUF140; similar to TOLUENE TOLERANCE PROTEIN
TTG2B {Brucella melitensis 16M} (GI: 17982923) (68414.m02477)
1424Not regulatedNC-NC-NC261136_atAt1g19600pfkB-type carbohydrate kinase family protein contains Pfam profile: PF00294 pfkB family carbohydrate kinase (68414.m02441)
1425Not regulatedNC-NC-NC261149_s_atAt1g19570dehydroascorbate reductase, putative similar to GB: BAA90672 from (Oryza sativa) (68414.m02437)
1426Not regulatedNC-NC-NC261105_atAt1g63000expressed protein (68414.m07114)
1427Not regulatedNC-NC-NC261107_atAt1g63010SPX (SYG1/Pho81/XPR1) domain-containing protein contains Pfam profile PF03105: SPX domain (68414.m07115)
1428Not regulatedNC-NC-NC261110_atAt1g75440ubiquitin-conjugating enzyme 16 (UBC16) E2; identical to gi: 2801444, GB: AAC39325 from [Arabidopsis thaliana] (Plant Mol. Biol.
23 (2), 387-396 (1993)) (68414.m08763)
1429Not regulatedNC-NC-NC261119_atAt1g75350ribosomal protein L31 family protein similar to SP: O46917 from [Guillardia theta] (68414.m08752)
1430Not regulatedNC-NC-NC261120_atAt1g75410BEL1-like homeodomain 3 protein (BLH3) identical to BEL1-like homeodomain 3 (GI: 13877515) [Arabidopsis thaliana]
(68414.m08760)
1431Not regulatedNC-NC-NC261122_atAt1g75330ornithine carbamoyltransferase, chloroplast/ornithine transcarbamylase/OTCase (OTC) identical to SP|O50039 Ornithine
carbamoyltransferase, chloroplast precursor (EC 2.1.3.3) (OTCase) (Ornithine transcarbamylase) {Arabidopsis thaliana}
(68414.m08750)
1432Not regulatedNC-NC-NC261089_atAt1g07570protein kinase (APK1a) identical to Protein kinase APK1A from [Arabidopsis thaliana] SWISS-PROT: Q06548 (68414.m00610)
1433Not regulatedNC-NC-NC261064_atAt1g07510FtsH protease, putative similar to AAA-metalloprotease FtsH [Pisum sativum] GI: 15021761; contains Pfam profiles PF01434:
Peptidase family M41, PF00004: ATPase AAA family (68414.m00804)
1434Not regulatedNC-NC-NC261070_atAt1g07390leucine-rich repeat family protein contains leucine rid-repeat (LRR) domains Pfam: PF00560, INTERPRO: IPR001611; contains
similarity to Hcr2-5D [Lycopersicon esculentum] gi|3894393|gb|AAC78596 (68414.m00786)
1435Not regulatedNC-NC-NC261075_atAt1g07280expressed protein (68414.m00774)
1436Not regulatedNC-NC-NC261078_atAt1g0732050S ribosomal protein L4, chloroplast (CL4) identical to SP: O50061 from [Arabidopsis thaliana] (68414.m00779)
1437Not regulatedNC-NC-NC261079_s_atAt1g07470transcription factor IIA large subunit, putative/TFIIA large subunit, putative nearly identical to transcription factor IIA large subunit
GI: 2826884 from [Arabidopsis thaliana]; contains Pfam profile: PF03153 transcription factor IIA, alpha/beta subunit
(68414.m00797)
1438Not regulatedNC-NC-NC261083_atAt1g07310C2 domain-containing protein contains similarity to shock protein SRC2 [Glycine max] gi|2055230|dbj|BAA19769; contains Pfam
profile PF00168: C2 domain (68414.m00778)
1439Not regulatedNC-NC-NC261084_atAt1g07440tropinone reductase, putative/tropine dehydrogenase, putative similar to tropinone reductase SP: P50165 from [Datura
stramonium] (68414.m00794)
1440Not regulatedNC-NC-NC261060_atAt1g17340phosphoinositide phosphatase family protein contains similarity to phosphoinositide phosphatase SAC1 [Rattus norvegicus]
gi|11095248|gb|AAG29810; contains Pfam domain, PF02383: Sacl homology domain; identical to cDNA SAC domain protein 5
(SAC5) GI: 31415726 (68414.m02113)
1441Not regulatedNC-NC-NC261031_atAt1g17360COP1-interacting protein-related similar to COP1-Interacting Protein 7 (CIP7) (GI: 3327870) [Arabidopsis thaliana] (68414.m02116)
1442Not regulatedNC-NC-NC261036_atAt1g17470developmentally regulated GTP-binding protein (DRG1) identical to developmentally regulated GTP binding protein (DRG1)
[Arabidopsis thaliana] GI: 2345150 (68414.m02143)
1443Not regulatedNC-NC-NC261038_atAt1g17490expressed protein (68414.m02147)
1444Not regulatedNC-NC-NC261040_atAt1g17370oligouridylate-binding protein, putative similar to oligouridylate binding protein [Nicotiana plumbaginifolia] GI: 6996560; contains
InterPro entry IPR000504: RNA-binding region RNP-1 (RNA recognition motif) (RRM) (68414.m02118)
1445Not regulatedNC-NC-NC261048_atAt1g01420UDP-glucoronosyt/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
transferase (68414.m00057)
1446Not regulatedNC-NC-NC261026_atAt1g01240expressed protein (68414.m00039)
1447Not regulatedNC-NC-NC261027_atAt1g01340cyclic nucleotide-regulated ion channel (CNGC10) (ACBK1) almost identical to CaM-regulated potassium ion channel (ACBK1)
GI: 8515883 from [Arabidopsis thaliana]; contains Pfam domain, PF00520: Ion transport protein (68414.m00049)
1448Not regulatedNC-NC-NC261017_atAt1g26570UDP-glucose 6-dehydrogenase, putative strong similarity to SP|Q96558 UDP-glucose 6-dehydrogenase (EC 1.1.1.22) (UDP-Glc
dehydrogenase) (UDP-GlcDH) (UDPGDH) {Glycine max}; contains Pfam profiles PF03721: UDP-glucase/GDP-mannose
dehydrogenase family NAD binding domain, PF00984: UDP-glucose/GDP-mannose dehydrogenase family central domain,
PF03720: UDP-glucose/GDP-mannose dehydrogenase family UDP binding domain (68414.m03237)
1449Not regulatedNC-NC-NC261018_atAt1g26550peptidyl-prolyl cis-trans isomerase PPIC-type family protein similar to SP|Q9Y237 Peptidyl-prolyl cis-trans isomerase NIMA-
interacting 4 (EC 5.2.1.8) (Rotamase Pin4) (PPlase Pin4) (Parvulin 14) {Homo sapiens}; contains Pfam profile PF00639: PPIC-type
PPIASE domain (68414.m03235)
1450Not regulatedNC-NC-NC261023_atAt1g12200flavin-containing monooxygenase family protein/FMO family protein low similarity to FMO2 from Homo sapiens [SP|Q99518];
contains Pfam profile: PF00743 Flavin-binding monooxygenase-like (68414.m01412)
1451Not regulatedNC-NC-NC260993_atAt1g12140flavin-containing monooxygenase family protein/FMO family protein similar to flavin-containing monooxygenase [Cavia porcellus]
GI: 191259; contains Pfam profile PF00743: Flavin-binding monooxygenase-like (68414.m01406)
1452Not regulatedNC-NC-NC260968_atAt1g12250thylakoid lumenal protein-related weak similarity to SP|O22160 Thylakoid lumenal 15 kDa protein, chloroplast precursor (p15)
{Arabidopsis thaliana}; contains Pfam profile PF00805: Pentapeptide repeats (8 copies) (68414.m01417)
1453Not regulatedNC-NC-NC260975_atAt1g53430leucine-rich repeat family protein/protein kinase family protein contains Pfam domains PF00560: Leucine Rich Repeat and
PF00069: Protein kinase domain (68414.m06056)
1454Not regulatedNC-NC-NC260979_atAt1g53510mitogen-activated protein kinase, putative/MAPK, putative (MPK18) mitogen-activated protein kinase (MAPK)(AtMPK18),
PMID: 12119167 (68414.m06068)
1455Not regulatedNC-NC-NC260981_atAt1g53460expressed protein (68414.m06060)
1456Not regulatedNC-NC-NC260982_atAt1g53520chalcone-flavanone isomerase-related low similarity to GI: 499036 (Vitis vinifera) (68414.m06070)
1457Not regulatedNC-NC-NC260988_atAt1g53570mitogen-activated protein kinase kinase kinase (MAPKKK), putative (MAP3Ka) identical to MEK kinase (MAP3Ka)[Arabidopsis
thaliana] gi|4204912|gb|AAD10848 (68414.m06080)
1458Not regulatedNC-NC-NC260964_atAt1g45050ubiquitin-conjugating enzyme 15 (UBC15) E2; identical to ubiquitin-conjugating enzyme 15 GI: 2801442 from [Arabidopsis thaliana]
(68414.m05165)
1459Not regulatedNC-NC-NC260938_atAt1g45170expressed protein contains similarity to vacuolating cytotoxin (vacA) GI: 6634155 from [Helicobacter pylori] (68414.m05179)
1460Not regulatedNC-NC-NC260940_atAt1g4500026S proteasome regulatory complex subunit p42D, putative similar to 26S proteasome regulatory complex subunit p42D
[Drosophila melanogaster] gi|6434958|gb|AAF08391 (68414.m05158)
1461Not regulatedNC-NC-NC260944_atAt1g45130beta-galactosidase, putative/lactase, putative similar to beta-galactosidase [Lycopersicon esculentum] GI: 7939619, beta-
galactosidase BG1 GI: 15081596 from [Vitis vinifera]; contains Pfam profile PF01301: Glycosyl hydrolases family 35
(68414.m05173)
1462Not regulatedNC-NC-NC260946_atAt1g06010expressed protein (68414.m00629)
1463Not regulatedNC-NC-NC260949_atAt1g06110F-box family protein contains similarity to F-box protein FBX3 GI: 6103643 from [Homo sapiens]; similar to SKP1 interacting partner
2 (SKIP2) TIGR_Ath1: At5g67250 (68414.m00640)
1464Not regulatedNC-NC-NC260953_atAt1g06070bZIP transcription factor, putative (bZIP69) similar to transcriptional activator RF2a GB: AF005492 GI: 2253277 from [Oryza sativa];
contains Pfam profile PF00170: bZIP transcription factor (68414.m00636)
1465Not regulatedNC-NC-NC260956_atAt1g06040zinc finger (B-box type) family protein/salt-tolerance protein (STO) identical to SP|Q96288 Salt-tolerance protein [Arabidopsis
thaliana]; contains Pfam profile PF00643: B-box zinc finger (68414.m00632)
1466Not regulatedNC-NC-NC260958_atAt1g06060RanBPM-related similar to RANBPM {GI: 13194576}[Homo sapiens] (68414.m00635)
1467Not regulatedNC-NC-NC260959_atAt1g06050expressed protein (68414.m00634)
1468Not regulatedNC-NC-NC260927_atAt1g05940amino acid permease family protein low similarity to SP|P30823 High-affinity cationic amino acid transporter-1 (CAT-1) {Rattus
norvegicus}; contains Pfam profile PF00324: Amino acid permease (68414.m00623)
1469Not regulatedNC-NC-NC260912_atAt1g02560ATP-dependent Clp protease proteolytic subunit (ClpP1) identical to nClpP1 GB: BAA82065 GI: 5360579 from [Arabidopsis
thaliana]; contains Pfam profile PF00574: Clp protease; contains TIGRfam profile TIGR00493: ATP-dependent Clp protease,
proteolytic subunit ClpP (68414.m00207)
1470Not regulatedNC-NC-NC260914_atAt1g02640glycosyl hydrolase family 3 protein similar to beta-xylosidase GB: Z84377 GI: 2102655 from [Aspergillus niger] (68414.m00214)
1471Not regulatedNC-NC-NC260915_atAt1g02660lipase class 3 family protein contains Pfam profile PF01764: Lipase (68414.m00216)
1472Not regulatedNC-NC-NC260916_atAt1g02475expressed protein (68414.m00198)
1473Not regulatedNC-NC-NC260919_atAt1g21520expressed protein (68414.m02691)
1474Not regulatedNC-NC-NC260923_atAt1g21570zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc finger C-x8-C-x5-C-x3-H type (and similar)
(68414.m02697)
1475Not regulatedNC-NC-NC260924_atAt1g21590protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68414.m02699)
1476Not regulatedNC-NC-NC260899_atAt1g21370expressed protein (68414.m02673)
1477Not regulatedNC-NC-NC260902_atAt1g21440mutase family protein similar to carboxyvinyl-carboxyphosphonate phosphorylmutase GB: O49290 from [Arabidopsis thaliana];
similar to carboxyphosphonoenolpyruvate mutase (GI: 47149) [Streptomyces hygroscopicus]; contains Prosite PS00161: Isocitrate
lyase signature (68414.m02681)
1478Not regulatedNC-NC-NC260872_atAt1g21350expressed protein (68414.m02669)
1479Not regulatedNC-NC-NC260877_atAt1g21500expressed protein (68414.m02689)
1480Not regulatedNC-NC-NC260878_atAt1g21450scarecrow-like transcription factor 1 (SCL1) identical to scarecrow-like 1 GB: AAF21043 GI: 6644390 from [Arabidopsis thaliana]
(68414.m02682)
1481Not regulatedNC-NC-NC260889_atAt1g29130
1482Not regulatedNC-NC-NC260894_atAt1g29220transcriptional regulator family protein similar to Transcriptional regulator protein HCNGP (Swiss-Prot: Q02614) [Mus musculus]
(68414.m03574)
1483Not regulatedNC-NC-NC260897_atAt1g29330ER lumen protein retaining receptor (ERD2)/HDEL receptor identical to SP: P35402 ER lumen protein retaining receptor (HDEL
receptor) {Arabidopsis thaliana} (68414.m03585)
1484Not regulatedNC-NC-NC260898_atAt1g29070ribosomal protein L34 family protein similar to plastid ribosomal protein L34 precursor GB: AAF64157 GI: 7578860 from [Spinacia
oleracea] (68414.m03558)
1485Not regulatedNC-NC-NC260871_atAt1g29040expressed protein (68414.m03554)
1486Not regulatedNC-NC-NC260840_atAt1g29050expressed protein similar to hypothetical protein GB: AAB67625 GI: 2342727 from [Arabidopsis thaliana] (68414.m03556)
1487Not regulatedNC-NC-NC260842_atAt1g2915026S proteasome regulatory subunit, putative (RPN6) similar to 19S proteosome subunit 9 GB: AAC34120 GI: 3450889 from
[Arabidopsis thaliana] (68414.m03567)
1488Not regulatedNC-NC-NC260843_atAt1g29060expressed protein (681414.m03557)
1489Not regulatedNC-NC-NC260844_atAt1g29260peroxisomal targeting signal type 2 receptor (PEX7) identical to peroxisomal targeting signal type 2 receptor (Pex7p) (GI: 9502414)
[Arabidopsis thaliana]; WD-40 repeat protein family member, contains 6 WD-40 repeats (PF00400); similar to peroxismal targeting
signal 2 receptor (PTS2R) (Peroxin-7) (PEX7)(SP: O00628) [Homo sapiens] (68414.m03578)
1490Not regulatedNC-NC-NC260855_atAt1g21920MORN (Membrane Occupation and Recognition Nexus) repeat-containing protein/phosphatidylinositol-4-phosphate 5-kinase-
related similar to phosphatidylinositol-phosphate 5-kinase AtPIP5K1 [Arabidopsis thaliana] GI: 3702691; contains Pfam profile
PF02493: MORN repeat (68414.m02743)
1491Not regulatedNC-NC-NC260856_atAt1g21910AP2 domain-containing transcription factor family protein similar to TINY GB: CAA64359 GI: 1246403 from [Arabidopsis thaliana]
(68414.m02742)
1492Not regulatedNC-NC-NC260868_atAt1g43860expressed protein (68414.m05053)
1493Not regulatedNC-NC-NC260813_atAt1g43700VirE2-interacting protein (VIP1) identical to VirE2-interacting protein VIP1 GB: AAF37279 GI: 7258340 from [Arabidopsis thaliana]
(68414.m05020)
1494Not regulatedNC-NC-NC260814_atAt1g43710serine decarboxylase identical to serine decarboxylase [Arabidopsis thaliana] GI: 15011302; contains Pfam profile PF00282:
Pyridoxal-dependent decarboxylase conserved domain (68414.m05021)
1495Not regulatedNC-NC-NC260817_atAt1g06900peptidase M16 family protein/insulinase family protein contains Pfam domain, PF05193: Peptidase M16 inactive domain; similar to
insulin-degrading enzyme (Insulysin, Inulinase, Insulin protease) [Mouse] SWISS-PROT: Q9JHR7 (68414.m00733)
1496Not regulatedNC-NC-NC260818_atAt1g06890transporter-related low similarity to SP|Q9NTN3 UDP-glucuronic acid/UDP-N-acetylgalactosamine transporter {Homo sapiens},
SP|Q95YI5 UDP-sugar transporter UST74c {Drosophila melanogaster}, SP|Q18779 UDP-sugar transporter sqv-7 {Caenorhabditis
elegans}; contains 8 predicted transmembrane domains (68414.m00732)
1497Not regulatedNC-NC-NC260822_atAt1g06790RNA polymerase Rpb7 N-terminal domain-containing protein similar to SP|P35718 DNA-directed RNA polymerase III 25 kDa
polypeptide (EC 2.7.7.6) {Saccharomyces cerevisiae}; contains Pfam profile PF03876: RNA polymerase Rpb7, N-terminal domain
(68414.m00722)
1498Not regulatedNC-NC-NC260832_atAt1g06780glycosyl transferase family 8 protein contains Pfam profile: PF01501 glycosyl transferase family 8 (68414.m00721)
1499Not regulatedNC-NC-NC260835_atAt1g06700serine/threorine protein kinase, putative similar to Pto kinase interactor 1 (Pti1)[Lycopersicon esculentum]
gi|3668069|gb|AAC61805 (68414.m00712)
1500Not regulatedNC-NC-NC260780_atAt1g14610valyl-tRNA synthetase/valine-tRNA ligase (VALRS) nearly identical to SP|P93736 Valyl-tRNA synthetase (EC 6.1.1.9) (Valine-
tRNA ligase) (ValRS) {Arabidopsis thaliana} (68414.m01737)
1501Not regulatedNC-NC-NC260781_atAt1g14620expressed protein (68414.m01738)
1502Not regulatedNC-NC-NC260782_atAt1g14570UBX domain-containing protein contains Pfam profiles PF00789: UBX domain, PF02809: Ubiquitin interaction motif
(68414.m01732)
1503Not regulatedNC-NC-NC260784_atAt1g06180myb family transcription factor identical to GB: CAA90748 GI: 1263093 from [Arabidopsis thaliana]; contains PFAM profile: PF00249
(68414.m00650)
1504Not regulatedNC-NC-NC260785_atAt1g06200expressed protein (68414.m00652)
1505Not regulatedNC-NC-NC260793_atAt1g06190expressed protein (68414.m00651)
1506Not regulatedNC-NC-NC260794_atAt1g06210VHS domain-containing protein/GAT domain-containing protein weak similarity to SP|Q9UJY5 ADP-ribosylation factor binding
protein GGA1 {Homo sapiens}; contains Pfam profiles PF00790: VHS domain, PF03127: GAT domain (68414.m00653)
1507Not regulatedNC-NC-NC260803_atAt1g78340glutathione S-transferase, putative similar to glutathione transferase GI: 2853218 from [Carica papaya] (68414.m09129)
1508Not regulatedNC-NC-NC260807_atAt1g78310VQ motif-containing protein contains PF05678: VQ motif (68414.m09126)
1509Not regulatedNC-NC-NC260775_atAt1g7830014-3-3 protein GF14 omega (GRF2) identical to GF14omega isoform GI: 487791 from [Arabidopsis thaliana] (68414.m09125)
1510Not regulatedNC-NC-NC260747_atAt1g78420expressed protein (68414.m09138)
1511Not regulatedNC-NC-NC260751_atAt1g49040stomatal cytokinesis defective/SCD1 protein (SCD1) contains Pfam PF02141: DENN (AEX-3) domain: contains Pfam PF00400:
WD domain, G-beta repeat (8 copies); identical to stomatal cytokinesis defective [Arabidopsis thaliana] GI: 19743728; supporting
cDNA gi|19743727|gb|AY082605.1|; PMID 12874123 (68414.m05498)
1512Not regulatedNC-NC-NC260756_atAt1g48970eukaryotic translation initiation factor 2B family protein/eIF-2B family protein similar to guanine nucleotide exchange factor, eIF-2B,
delta subunit [Mus musculus] GI: 529428; contains Pfam profile PF01008: Initiation factor 2 subunit family (68414.m05489)
1513Not regulatedNC-NC-NC260766_atAt1g48960universal stress protein (USP) family protein contains Pfam PF00582: universal stress protein family; similar to hypothetical protein
GI: 7770340 from [Arabidopsis thaliana] (68414.m05487)
1514Not regulatedNC-NC-NC260767_s_atAt1g49140NADH-ubiquinone oxidoreductase-related similar to NADH-ubiquinone oxidoreductase 12 kDa subunit, mitochondrial precursor (EC
1.6.5.3) (EC 1.6.99.3) (Complex I-12KD) (CI-12KD) (Swiss-Prot: Q03015)[Neurospora crassa] (68414.m05509)
1515Not regulatedNC-NC-NC260769_atAt1g49010myb family transcription factor contains Pfam profile: PF00249 myb-tike DNA-binding domain (68414.m05495)
1516Not regulatedNC-NC-NC260772_atAt1g49050aspartyl protease family protein contains Pfam PF00026: Eukaryotic aspartyl protease; contains similarity to nucellin GI: 2290203
from [Hordeum vulgare] (68414.m05500)
1517Not regulatedNC-NC-NC260714_atAt1g1498010 kDa chaperonin (CPN10) identical to SP: P34893 from [Arabidopsis thaliana] (68414.m01790)
1518Not regulatedNC-NC-NC260718_atAt1g48110expressed protein contains Pfam profile PF04146: YT521-B-like family (68414.m05359)
1519Not regulatedNC-NC-NC260724_atAt1g48140dolichol-phosphate mannosyltransferase-related contains weak similarity to Swiss-Prot: Q9P2X0 dolichol-phosphate
mannosyltransferase subunit 3 (Dolichol-phosphate mannose synthase subunit 3, Dolichyl-phosphate beta-D-mannosyltransferase
subunit 3, Mannose-P-dolichol synthase subunit 3, MPD synthase subunit 3, DPM synthase complex subunit 3, Prostin 1 [Homo
sapiens] (68414.m05372)
1520Not regulatedNC-NC-NC260730_atAt1g48030dihydrolipoamide dehydrogenase 1, mitochondrial/lipoamide dehydrogenase 1 (MTLPD1) identical to GB: AAF34795
[gi: 12704696] from [Arabidopsis thaliana] (68414.m05350)
1521Not regulatedNC-NC-NC260711_atAt1g17580myosin, putative similar to myosin GI: 433663 from (Arabidopsis thaliana) (68414.m02165)
1522Not regulatedNC-NC-NC260682_atAt1g17510expressed protein (68414.m02151)
1523Not regulatedNC-NC-NC260696_atAt1g32520expressed protein (68414.m04013)
1524Not regulatedNC-NC-NC260700_atAt1g32260expressed protein identical to hypothetical protein GB: AAF81322 GI: 8920600 from [Arabidopsis thaliana] (68414.m03969)
1525Not regulatedNC-NC-NC260704_atAt1g32470glycine cleavage system H protein, mitochondrial, putative similar to SP|P25855 Glycine cleavage system H protein 1.
mitochondrial precursor {Arabidopsis thaliana}; contains Pfam profile PF01597: Glycine cleavage H-protein (68414.m04007)
1526Not regulatedNC-NC-NC260705_atAt1g32400senescence-associated family protein contains Pfam profile PF03335: Tetraspanin family (68414.m03997)
1527Not regulatedNC-NC-NC260707_s_atAt1g32410vacuolar protein sorting 55 family protein/VPS55 family protein contains Pfam domain PF04133: Vacuolar protein sorting 55
(68414.m03999)
1528Not regulatedNC-NC-NC260709_atAt1g32500ATP-binding-cassette transporter, putative similar to ATP-binding-cassette transporter (ABC1) described in PMID; 11156608
(68414.m04010)
1529Not regulatedNC-NC-NC260652_atAt1g32360zinc finger (CCCH-type) family protein contains Pfam domain, PF00642: Zinc finger C-x8-C-x5-C-x3-H type (and similar)
(68414.m03989)
1530Not regulatedNC-NC-NC260653_atAt1g32440pyruvate kinase, putative similar to pyruvate kinase isozyme G, chloroplast precursor [Nicotiana tabacum] SWISS-PROT: Q40546
(68414.m04004)
1531Not regulatedNC-NC-NC260665_atAt1g19360expressed protein (68414.m02409)
1532Not regulatedNC-NC-NC260667_atAt1g19440very-long-chain fatty acid condensing enzyme, putative similar to GB: AAD37122 from [Arabidopsis thaliana] (68414.m02422)
1533Not regulatedNC-NC-NC260671_atAt1g19310zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)
(68414.m02401)
1534Not regulatedNC-NC-NC260676_atAt1g19450integral membrane protein, putative/sugar transporter family protein similar to GB: U43629 GI: 1209756 integral membrane protein
from [Beta vulgaris]; contains Pfam profile PF00083: major facilitator superfamily protein; contains TIGRfam TIGR00879: Sugar
transporter (68414.m02423)
1535Not regulatedNC-NC-NC260619_atAt1g08110lactoylglutathione lyase, putative/glyoxalase I, putative similar to lactoylglutathione lyase SP: O04885 from [Brassica juncea]
(68414.m00888)
1536Not regulatedNC-NC-NC260626_atAt1g08040expressed protein contains Pfam profile PF05212: Protein of unknown function (DUF707) (68414.m00878)
1537Not regulatedNC-NC-NC260635_atAt1g62420expressed protein contains Pfam profile PF04720: Protein of unknown function (DUF506) (68414.m07042)
1538Not regulatedNC-NC-NC260638_atAt1g62390octicosapeptide/Phox/Bem1p (PB1) domain-containing protein/tetratricopeptide repeat (TPR)-containing protein contains Pfam
profiles PF00564: PB1 domain, PF00515: TPR Domain (68414.m07039)
1539Not regulatedNC-NC-NC260644_atAt1g53290galactosyltransferase family protein contains Pram profile: PF01762 galactosyltransferase; contains similarity to Avr9 elicitor
response protein GI: 4138265 from [Nicotiana tabacum] (68414.m06040)
1540Not regulatedNC-NC-NC260616_atAt1g53280DJ-1 family protein similar to DJ-1 protein [Homo sapiens] GI: 1780755; similar to DJ-1 beta (GI: 18642508) [Drosophila
melanogaster]; contains Pfam profile: PF01965 ThiJ/PfpI family; TIGRFAM TIGR01383: DJ-1 family protein (68414.m06038)
1541Not regulatedNC-NC-NC260587_atAt1g53210sodium/calcium exchanger family protein/calcium-binding EF hand family protein contains Pfam profiles: PF01699 sodium/calcium
exchanger protein, PF00036 EF hand (68414.m06031)
1542Not regulatedNC-NC-NC260588_atAt1g53320F-box family protein/tubby family protein (TULP7) similar to Tubby related protein 2 (Tubby-like protein 2) (P4-6 protein)
(Fragment) (SP: P46686) [Mus musculus]; similar to phosphodiesterase (GI: 467578) [Mus musculus]; similar to Tubby protein
homolog 1. (Swiss-Prot: Q09306) [Caenorhabditis elegants] contains Pfam profile: PF01167: Tub family: contains Pfam PF00648: F-
box domain (68414.m06043)
1543Not regulatedNC-NC-NC260595_atAt1g55890pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68414.m06410)
1544Not regulatedNC-NC-NC260603_atAt1g55960expressed protein weak similarity to SP|P53808 Phosphatidylcholine transfer protein (PC-TP) {Mus musculus} (68414.m06418)
1545Not regulatedNC-NC-NC260604_atAt1g55840SEC14 cytosolic factor (SEC14)/phosphoglyceride transfer protein similar to polyphosphoinositide binding protein SEC14 homolog
Ssh1p (GB: AAB94598) [Glycine max]; identified in Eur J Biochem 1998 Dec 1; 258(2): 402-10 as AtSEC14, characterized by
functional complementation in S. cerevisiae. (68414.m06404)
1546Not regulatedNC-NC-NC260605_atAt2g43780expressed protein (68415.m05442)
1547Not regulatedNC-NC-NC260606_atAt2g43770transducin family protein/WD-40 repeat family protein contains 7 WD-40 repeats (PF00400); similar to U5 snRNP-specific 40 kDa
protein (GI: 3820594) (Homo sapiens) (68415.m05441)
1548Not regulatedNC-NC-NC260586_atAt2g43630expressed protein (68415.m05423)
1549Not regulatedNC-NC-NC260582_atAt2g43850ankyrin protein kinase, putative (APK1) similar to ankyrin-kinase [Medicago truncatula] gi|18700701|gb|AAL78674; contains Pfam
profile PF00069: Protein kinase domain; contains Pfam profile PF00023: Ankyrin repeat (68415.m05451)
1550Not regulatedNC-NC-NC260566_atAt2g43750cysteine synthase, chloroplast/O-acetylserine (thiol)-lyase/O-acetylserine sulfhydrylase/cpACS1 (OASB) identical to SP|P47999
Cysteine synthase, chloroplast precursor (EC 4.2.99.8) (O-acetylserine sulfhydrylase) (O-acetylserine (Thiol)-lyase) (cpACS1)
{Arabidopsis thaliana}; identical to cDNA O-acetylserine lyase (At.OAS.7-4) GI: 6983575 (68415.m05439)
1551Not regulatedNC-NC-NC260571_atAt2g43790mitogen-activated protein kinase, putative/MAPK, putative (MPK6) identical to mitogen-activated protein kinase homolog 6
(AtMPK6)[Arabidopsis thaliana] SWISS-PROT: Q39028; PMID: 12119167 (68415.m05443)
1552Not regulatedNC-NC-NC260572_atAt2g43760molybdopterin biosynthesis MoaE family protein contains Pfam profile: PF02391 molybdopterin converting factor, subunit 2
(68415.m05440)
1553Not regulatedNC-NC-NC260578_atAt2g47350PAPA-1-like family protein/zinc finger (HIT type) family protein contains Pfam domains, PF04795: PAPA-1-like conserved region
and PF04438: HIT zinc finger (68415.m05910)
1554Not regulatedNC-NC-NC260579_atAt2g47380cytochrome c oxidase subunit Vc family protein/COX5C family protein contains Pfam profile: PF05799 cytochrome c oxidase
subunit Vc (COX5C) (68415.m05914)
1555Not regulatedNC-NC-NC260525_atAt2g47250RNA helicase, putative similar to SP|P53131 Pre-mRNA splicing factor RNA helices. PRP43 (Helicase JA1) (Saccharomyces
cerevisiae); contains Pfam profiles PF04406: Helicase associated domain (HA2), PF00271: Helicase conserved C-terminal domain
(68415.m05900)
1556Not regulatedNC-NC-NC260529_atAt2g47400CP12 domain-containing protein contains Pfam profile: PF02672 CP12 domain (68415.m05916)
1557Not regulatedNC-NC-NC260532_atAt2g47330DEAD/DEAH box helicase, putative similar to RNA helicase [Rattus norvegicus] GI: 897915; contains Pfam profiles PF00270:
DEAD/DEAH box helicase, PF00271: Helicase conserved C-terminal domain (68415.m05908)
1558Not regulatedNC-NC-NC260538_atAt2g4346060S ribosomal protein L38 (RPL38A) (68415.m05401)
1559Not regulatedNC-NC-NC260542_atAt2g43560immunophilin/FKBP-type peptidyl-prolyl cis-trans isomerase family protein identical to Probable FKBP-type peptidyl-prolyl cis-trans
isomerase 2, chloroplast precursor (Ppiase) (Rotamase) (SP: O22870)[Arabidopsis thaliana]; contains Pfam PF00254: peptidyl-
protyl cis-trans isomerase, FKBP-type (68415.m05412)
1560Not regulatedNC-NC-NC260543_atAt2g43330sugar transporter family protein similar to SP|Q96QE2 Proton myo-inositol co-transporter (Hmit) [Homo sapiens], SP|Q01440
Membrane transporter D1 {Leishmania donovani}; contains Pfam profile PF00083: major facilitator superfamily protein
(68415.m05388)
1561Not regulatedNC-NC-NC260544_atAt2g43540expressed protein (68415.m05410)
1562Not regulatedNC-NC-NC260545_atAt2g43350glutathione peroxidase, putative (68415.m05390)
1563Not regulatedNC-NC-NC260546_atAt2g43520trypsin inhibitor, putative similar to SP|P26780 Trypsin inhibitor 2 precursor (MTI-2) {Sinapis alba} (68415.m05411)
1564Not regulatedNC-NC-NC260547_atAt2g43550trypsin inhibitor, putative similar to SP|P26780 Trypsin inhibitor 2 precursor (MTI-2) {Sinapis alba} (68415.m05411)
1565Not regulatedNC-NC-NC260548_atAt2g43360biotin synthase (BioB) (BIO2) identical to SP|P54967 Pfam profile PF04055: radical SAM domain protein (68415.m05391)
1566Not regulatedNC-NC-NC260549_atAt2g43535trypsin inhibitor, putative similar to SP|P26780 Trypsin inhibitor 2 precursor (MTI-2) {Sinapis alba} (68415.m05409)
1567Not regulatedNC-NC-NC260550_atAt2g434203-beta hydroxysteroid dehydrogenase/isomerase family protein contains Pfam profile PF01073 3-beta hydroxysteroid
dehydrogenase/isomerase domain; similar to NAD(P)-dependent steroid dehydrogenase from Homo sapiens [SP|Q15738], Mus
musculus [SP|Q9R1J0] (68415.m05396)
1568Not regulatedNC-NC-NC260552_atAt2g43430hydroxyacylglutathione hydrolase, mitochondrial/glyoxalase II (GLX2-1) identical to SP|O24495 Hydroxyacylglutathione hydrolase,
mitochondrial precursor (EC 3.1.2.6) (Glyoxalase II) (Glx II) {Arabidopsis thaliana} (68415.m05397)
1569Not regulatedNC-NC-NC260553_atAt2g41800expressed protein contains Pfam profile PF04862: Protein of unknown function, DUF642 (68415.m05166)
1570Not regulatedNC-NC-NC260554_atAt2g41790peptidase M16 family protein/insulinase family protein contains Pfam domain, PF05193: Peptidase M16 inactive domain; similar to
insulin-degrading enzyme (Insulysin, Insulinase, Insulin protease) [Mouse] SWISS-PROT: Q9JHR7 (68415.m05165)
1571Not regulatedNC-NC-NC260523_atAt2g41720pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68415.m05156)
1572Not regulatedNC-NC-NC260497_atAt2g4184040S ribosomal protein S2 (RPS2C) (68415.m05171)
1573Not regulatedNC-NC-NC260498_atAt2g41710ovule development protein, putative similar to ovule development protein AINTEGUMENTA (GI: 1209099) [Arabidopsis
thaliana]; Pfam domain (PF00847) (68415.m05154)
1574Not regulatedNC-NC-NC260499_atAt2g41760expressed protein (68415.m05162)
1575Not regulatedNC-NC-NC260502_atAt1g47270F-box family protein/tubby family protein contains Pfam profiles: PF00646 F-box domain, PF01167 Tub family; similar to Chain A,
C-Terminal Domain Of Mouse Brain Tubby Protein Length(GI: 6730158) [Mus musculus]; similar to phosphodiesterase (GI: 467578)
[Mus musculus]; similar to Tubby protein homolog (Swiss-Prot: O88808) [Rattus norvegicus] (68414.m05233)
1576Not regulatedNC-NC-NC260503_atAt1g4725020S proteasome alpha subunit F2 (PAF2) (PRC2B) (PRS1) identical to GB: AAC32063 from [Arabidopsis thaliana] (Genetics 149
(2), 677-692 (1998)); identical to cDNA proteasome subunit prc2b GI: 2511585 (68414.m05231)
1577Not regulatedNC-NC-NC260507_atAt1g47200MFP1 attachment factor, putative contains similarity to MFP1 attachment factor 1 GI: 7546725 from [Lycopersicon esculentum]
similar to MFP1 attachment factor 1 [Glycine max] gi|7546729|gb|AAF63659 (68414.m05223)
1578Not regulatedNC-NC-NC260508_atAt1g47260bacterial transferase hexapeptide repeat-containing protein contains Pfam profile PF00132: Bacterial transferase hexapeptide (four
repeats) (68414.m05232)
1579Not regulatedNC-NC-NC260509_atAt1g47240NRAMP metal ion transporter 2, putative (NRAMP2) similar to metal transporter Nramp3 [Arabidopsis thaliana]
gi|6468012|gb|AAF13278; member of the natural resistance-associated macrophage protein (NRAMP) metal transporter family,
PMID: 11500563 (68414.m05230)
1580Not regulatedNC-NC-NC260511_atAt1g51570C2 domain-containing protein contains INTERPRO: IPR000008 C2 domain (68414.m05804)
1581Not regulatedNC-NC-NC260517_atAt1g51420sucrose-phosphatase, putative similar to sucrose-phosphatase (SPP1) [Arabidopsis thaliana] GI: 11127757; contains Pfam profile
PF05116: Sucrose-6F-phosphate phosphohydrolase (68414.m05788)
1582Not regulatedNC-NC-NC260519_atAt1g51540ketch repeat-containing protein contains Pfam profile PF01344: Kelch motif (68414.m05801)
1583Not regulatedNC-NC-NC260465_atAt1g10910pentatricopeptide (PPR) repeat-containing protein contains Pfam profile PF01535: PPR repeat (68414.m01253)
1584Not regulatedNC-NC-NC260466_atAt1g10900phosphatidylinositol-4-phosphate 5-kinase family protein similar to phosphatidylinositol-4-phosphate 5-kinase AtPIP5K1
[Arabidopsis thaliana] GI: 3702891; contains Pfam profiles PF01504: Phosphatidylinositol-4-phosphate 5-Kinase, PF02493: MORN
repeat (68414.m01252)
1585Not regulatedNC-NC-NC260476_atAt1g11060expressed protein (68414.m01267)
1586Not regulatedNC-NC-NC260482_atAt1g10950endomembrane protein 70, putative (68414.m01257)
1587Not regulatedNC-NC-NC260442_atAt1g68220expressed protein (68414.m07793)
1588Not regulatedNC-NC-NC260443_atAt1g68185ubiquitin-related similar to ubiquitin-like protein smt3/pmt3 SP: O13351 from [Fission yeast] (68414.m07789)
1589Not regulatedNC-NC-NC260444_atAt1g68300universal stress protein (USP) family protein similar to ER6 protein [Lycopersicon esculentum] GI: 5669654; contains Pfam profile
PF00582: universal stress protein family (68414.m07802)
1590Not regulatedNC-NC-NC260426_atAt1g7237040S ribosomal protein SA (RPSaA) identical to laminin receptor-like protein GB: U01955 [Arabidopsis thaliana]; identical to cDNA
laminin receptor homologue GI: 16379 (68414.m08371)
1591Not regulatedNC-NC-NC260428_atAt1g72340eukaryotic translation initiation factor 2B family protein/eIF-2B family protein similar to SP|Q64270 Translation initiation factor eIF-
2B alpha subunit (Rattus norvegicus); contains Pfam profile PF01008: Initiation factor 2 subunit family (68414.m08368)
1592Not regulatedNC-NC-NC260403_atAt1g69810WRKY family transcription factor (68414.m08032)
1593Not regulatedNC-NC-NC260409_atAt1g69935expressed protein (68414.m08048)
1594Not regulatedNC-NC-NC260413_atAt1g69800CBS domain-containing protein low similarity to SP|Q9UGI9 5′-AMP-activated protein kinase, gamma-3 subunit (AMPK gamma-3
chain) (AMPK gamma3) {Homo sapiens}; contains Pfam profile PF00571: CBS domain (68414.m08031)
1595Not regulatedNC-NC-NC260418_s_atAt1g69750cox19 family protein contains Pfam profile PF05490: Cox19 protein (68414.m08026)
1596Not regulatedNC-NC-NC260419_atAt1g69730protein kinase family protein contains Pfam profile: PF00069 Eukaryotic protein kinase domain (68414.m08024)
1597Not regulatedNC-NC-NC260421_atAt1g69640acid phosphatase, putative similar to GI: 5360721 from [Lupinus albus] (68414.m08012)
1598Not regulatedNC-NC-NC260395_atAt1g69780homeobox-leucine zipper protein 13 (HB-13)/HD-ZIP transcription factor 13 identical to homeobox gene 13 protein (GP: 12325190)
[Arabidopsis thaliana] (68414.m08029)
1599Not regulatedNC-NC-NC260368_atAt1g69700ABA-responsive protein (HVA22c) identical to AIHVA22c [Arabidopsis thaliana] GI: 4884936 (68414.m08021)
1600Not regulatedNC-NC-NC260369_atAt1g6962060S ribosomal protein L34 (RPL34B) similar to SP: Q42351 from [Arabidopsis thaliana] (68414.m08008)
1601Not regulatedNC-NC-NC260370_atAt1g69740porphobilinogen synthase, putative/delta-aminolevulinic acid dehydratase, putative similar to delta-aminolevulinic acid
dehydratase (Alad) GI: 493019 [SP|P43210] from Glycine max, SP|P24493 from Spinacia olerecea, SP|P30124 from Pisum sativum
(68414.m08025)
1602Not regulatedNC-NC-NC260371_atAt1g69690TCP family transcription factor, putative similar to PCF1 (GI: 2580438) and PCF2 [(GI: 2580440) Oryza sativa] (68414.m08020)
1603Not regulatedNC-NC-NC260374_atAt1g73960expressed protein similar to TATA binding protein associated factor (GI: 2827282) [Homo sapiens]; similar to Transcription initiation
factor TFIID 150 kDa subunit (TAFII-150) (TAFII150) (Swiss-Prot: Q24325) [Drosophila melanogaster] (68414.m08565)
1604Not regulatedNC-NC-NC260379_atAt1g73880UDP-glucoronosyl/UDP-glucosyl transferase family protein contains Pfam profile: PF00201 UDP-glucoronosyl and UDP-glucosyl
transferase (68414.m08556)
1605Not regulatedNC-NC-NC260383_s_atAt1g7406060S ribosomal protein L6 (RPL6B) similar to 60S ribosomal protein L6 (YL 16 like) GB: CAB57309 from [Cyanophora paradoxa]
(68414.m08578)
1606Not regulatedNC-NC-NC280390_atAt1g73940expressed protein (68414.m08563)
1607Not regulatedNC-NC-NC260391_atAt1g74020strictosidine synthase family protein similar to strictosidine synthase [Rauvolfia serpentina][SP|P15324]; contains strictosidine
synthase domain PF03088 (68414.m08572)
1608Not regulatedNC-NC-NC260393_atAt1g73920lipase family protein similar to lipase GB: CAA74737 [SP|O46108] from [Drosophila melanogaster] (68414.m08560)
1609Not regulatedNC-NC-NC260336_atAt1g73990peptidase U7 family protein similar to protease IV GB: AAA57008 from [Escherichia coli]; contains Pfam profile PF01343: Peptidase
family U7 (68414.m08569)
1610Not regulatedNC-NC-NC260338_atAt1g69250nuclear transport factor 2 (NTF2) family protein/RNA recognition motif (RRM)-containing protein contains Pfam profiles PF02136:
Nuclear transport factor 2 (NTF2) domain, PF00076: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain) (68414.m07935)
1611Not regulatedNC-NC-NC260339_atAt1g69220serine/threonine protein kinase, putative identical to serine/threonine kinase [Arabidopsis thaliana] gi|2352084|gb|AAB68776
(68414.m07925)
1612Not regulatedNC-NC-NC260345_atAt1g69270leucine-rich repeat family protein/protein kinase family protein contains Pfam domains PF00560: Leucine Rich Repeat end
PF00069: Protein kinase domain (68414.m07941)
1613Not regulatedNC-NC-NC260350_atAt1g69410eukaryotic translation initiation factor 5A, putative/eIF-5A, putative strong similarity to eukaryotic initiation factor 5A (2) (Nicotiana
plumbaginifolia) GI: 19702, SP|Q9AXQ6| Eukaryotic translation initiation factor 5A-1 (eIF-5A 1) {Lycopersicon esculentum}
(68414.m07972)
1614Not regulatedNC-NC-NC260352_atAt1g69295beta-1,3-glucanase-related low similarity to elicitor inducible beta-1,3-glucanase NtEIG-E76 [Nicotiana tabacum] GI: 11071974
(68414.m07947)
1615Not regulatedNC-NC-NC260356_atAt1g69390chloroplast division protein, putative (MinE1) identical to chloroplast division protein homolog MinE1 GI: 17511220 from [Arabidopsis
thaliana] (68414.m07966)
1616Not regulatedNC-NC-NC260358_atAt1g69340appr-1-p processing enzyme family protein contains Pfam domain PF01661: Appr-1-p processing enzyme family (68414.m07956)
1617Not regulatedNC-NC-NC260360_atAt1g69370chorismate mutase, putative similar to gi: 5732016 and SP|P42738; contains Pfam profile: PF01817: Chorismate mutase
(68414.m07962)
1618Not regulatedNC-NC-NC260362_atAt1g70530protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68414.m08117)
1619Not regulatedNC-NC-NC260303_atAt1g70520protein kinase family protein contains Pfam domain, PF00069: Protein kinase domain (68414.m08116)
1620Not regulatedNC-NC-NC260304_atAt1g70480expressed protein contains Pfam profile PF02713: Domain of unknown function DUF220 (68414.m08109)
1621Not regulatedNC-NC-NC260305_atAt1g70490ADP-ribosylation factor, putative nearly identical to ADP-ribosylation factor 1 GB: P36397 [Arabidopsis thaliana], ADP-ribosylation
factor GI: 166586 [Arabidopsis thaliana] (68414.m08110)
1622Not regulatedNC-NC-NC260308_atAt1g70610ABC transporter (TAP1) contains Pfam profile: PF00005 ABC transporters; similar to TAP1 protein (transporter of processed
antigen) GB: AAD53033 (Oncorhynchus mykiss); identical to cDNA transporter associated with antigen processing-like protein
(TAP1) GI: 19335721 (68414.m08135)
1623Not regulatedNC-NC-NC260309_atAt1g70580glutamate:glyoxylate aminotransferase 2 (GGT2) identical to glutamate:glyoxylate aminotransferase 2 [Arabidopsis thaliana]
GI: 24461829; similar to alanine aminotransferase from Panicum miliaceum [SP|P34106], GI: 4730884 from Oryza sativa; contains
Pfam profile PF00155: aminotransferase, classes I and II (68414.m08127)
1624Not regulatedNC-NC-NC260310_atAt1g70590F-box family protein contains Pf