CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM245918

Assay name wild type dark replicate 3

GSE experiment GSE9728: COP9 signalosome (csn) mutant analysis

Click Gene ID to show a list of GSM assays in which the gene are specifically expressed.

Std2 GX %ile Std GX Gene ID Repr. ID Gene name Functional description O.I. C.G. H.G. Other DB
54.5 99.8 184.6 At5g02020 831782 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P O.I. C.G. H.G.
47.5 99.8 443.4 At1g60740 842368 peroxiredoxin type 2, putative F:oxidoreductase activity, antioxidant activity;P:cell redox homeostasis;C:plasma membrane;OBFPMA O.I. C.G. H.G.
45.6 99.8 239.5 At5g54080 835494 HGO (HOMOGENTISATE 1,2-DIOXYGENASE) homogentisate 1,2-dioxygenase O.I. C.G. H.G.
40.1 99.8 303.5 At1g19530 838540 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P O.I. C.G. H.G.
36.1 99.7 50.1 At5g02580 831095 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. C.G. H.G.
34.2 99.7 213.3 At3g60140 825184 DIN2 (DARK INDUCIBLE 2) Encodes a protein similar to beta-glucosidase and is a member of glycoside hydrolase family 1. Expression is induced after 24 hours of dark treatment, in senescing leaves and treatment with exogenous photosynthesis inhibitor. Induction of gene expression was suppressed in excised leaves supplied with sugar. The authors suggest that the gene's expression pattern is responding to the level of sugar in the cell. O.I. C.G. H.G.
26.9 99.7 181.0 At1g09570 837483 PHYA (PHYTOCHROME A) Light-labile cytoplasmic red/far-red light photoreceptor involved in the regulation of photomorphogenesis. It exists in two inter-convertible forms: Pr and Pfr (active) and functions as a dimer.The N terminus carries a single tetrapyrrole chromophore, and the C terminus is involved in dimerization. It is the sole photoreceptor mediating the FR high irradiance response (HIR). Major regulator in red-light induction of phototropic enhancement. Involved in the regulation of de-etiolation. Involved in gravitropism and phototropism. Requires FHY1 for nuclear accumulation. O.I. C.G. H.G.
24.8 99.6 183.2 At1g73120 843643 unknown protein F:molecular_function unknown;P:response to oxidative stress;C:unknown;P O.I. C.G. H.G.
24.6 99.6 160.3 At1g12080 837760 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPVA O.I. C.G. H.G.
23.4 99.6 102.8 At1g26665 839207 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPO O.I. C.G. H.G.
22.5 99.6 61.4 At1g76410 843974 ATL8 F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV O.I. C.G. H.G.
21.6 99.6 201.9 At5g03240 831899 UBQ3 (POLYUBIQUITIN 3) encodes ubiquitin that is attached to proteins destined for degradation. UBQ3 is most homologous with UBQ4, and is expressed in higher levels in vegetative tissue but lower levels in flowers than UBQ4. UBQ3 encodes different number of ubiquitins in different ecotypes. UBQ3 transcript level is modulated by UV-B and light/dark treatments. O.I. C.G. H.G.
20.4 99.6 147.2 At2g18280 816344 AtTLP2 (TUBBY LIKE PROTEIN 2) Member of TLP family O.I. C.G. H.G.
20.2 99.6 108.9 At2g22860 816817 ATPSK2 (PHYTOSULFOKINE 2 PRECURSOR) Phytosulfokine 2 precursor, coding for a unique plant peptide growth factor. O.I. C.G. H.G.
19.9 99.6 189.3 At2g37750 818352 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
19.3 99.6 98.2 At1g67910 843119 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P O.I. C.G. H.G.
18.7 99.5 57.0 At1g02340 839300 HFR1 (LONG HYPOCOTYL IN FAR-RED) Encodes a light-inducible, nuclear bHLH protein involved in phytochrome signaling. Mutants exhibit a long-hypocotyl phenotype only under far-red light but not under red light and are defective in other phytochrome A-related responses. Mutants also show blue light response defects. HFR1 interacts with COP1, co-localizes to the nuclear specks and is ubiquinated by COP1. O.I. C.G. H.G.
18.6 99.5 21.9 At1g67110 843031 CYP735A2 member of CYP709A O.I. C.G. H.G.
18.3 99.5 229.9 At2g39310 818516 JAL22 (JACALIN-RELATED LECTIN 22) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. C.G. H.G.
18.1 99.5 194.2 At5g18650 831983 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFA O.I. C.G. H.G.
17.8 99.5 262.0 At4g14130 827051 XTR7 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 7) xyloglucan endotransglycosylase-related protein (XTR7) O.I. C.G. H.G.
17.2 99.5 85.7 At2g18050 816317 HIS1-3 (HISTONE H1-3) encodes a structurally divergent linker histone whose gene expression is induced by dehydration and ABA. O.I. C.G. H.G.
16.6 99.5 212.2 At1g28330 839729 DYL1 (DORMANCY-ASSOCIATED PROTEIN-LIKE 1) dormancy-associated protein (DRM1) O.I. C.G. H.G.
16.6 99.5 133.4 At1g10070 837543 ATBCAT-2 (ARABIDOPSIS THALIANA BRANCHED-CHAIN AMINO ACID TRANSAMINASE 2) Encodes a chloroplast branched-chain amino acid aminotransferase. Complements the yeast leu/iso-leu/val auxotrophy mutant. O.I. C.G. H.G.
16.6 99.5 65.1 At1g21400 838739 2-oxoisovalerate dehydrogenase, putative / 3-methyl-2-oxobutanoate dehydrogenase, putative / branched-chain alpha-keto acid dehydrogenase E1 alpha subunit, putative F:oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity;P:metabolic process;C:unknown;BOMFPA O.I. C.G. H.G.
16.2 99.5 797.2 At2g38530 818435 LTP2 (LIPID TRANSFER PROTEIN 2) Involved in lipid transfer between membranes. Belongs to a family of Lipid transfer proteins. Sequence similarity to other plant/Arabidopsis LPT genes but highest similarity to LPT1. Stress and pathogen-inducible motifs found in the upstream region. Expressed in flower, leaves and siliques but absent in roots. Predicted to be a member of PR-14 pathogenesis-related protein family with the following members: At2g38540/LTP1, At2g38530/LTP2, At5g59320/LTP3, At5g59310/LTP4, At3g51600/LTP5, At3g08770/LTP6, At2g15050/LTP7, At2g18370/LTP8, At2g15325/LTP9, At5g01870/LTP10, At4g33355/LTP11, At3g51590/LTP12, At5g44265/LTP13, At5g62065/LTP14, At4g08530/LTP15. O.I. C.G. H.G.
15.9 99.5 140.1 At1g06570 837168 PDS1 (PHYTOENE DESATURATION 1) Mutation of the PDS1 locus disrupts the activity of p-hydroxyphenylpyruvate dioxygenase (HPPDase), the first committed step in the synthesis of both plastoquinone and tocopherols in plants. O.I. C.G. H.G.
15.9 99.5 103.0 At5g43580 834378 serine-type endopeptidase inhibitor Predicted to encode a PR (pathogenesis-related) peptide that belongs to the PR-6 proteinase inhibitor family. Six putative PR-6-type protein encoding genes are found in Arabidopsis: At2g38900, At2g38870, At5g43570, At5g43580, At3g50020 and At3g46860. O.I. C.G. H.G.
15.9 99.5 23.7 At1g72070 843538 DNAJ heat shock N-terminal domain-containing protein F:unfolded protein binding, heat shock protein binding;P:protein folding;C:unknown;BOMPFAV O.I. C.G. H.G.
15.8 99.5 33.2 At4g23870 828486 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
15.7 99.5 198.6 At3g01520 821122 universal stress protein (USP) family protein F:molecular_function unknown;P:N-terminal protein myristoylation, response to stress;C:plasma membrane;BPAMOF O.I. C.G. H.G.
15.7 99.5 130.2 At1g03090 838362 MCCA MCCA is the biotinylated subunit of the dimer MCCase, which is involved in leucine degradation. Both subunits are nuclear coded and the active enzyme is located in the mitochondrion. O.I. C.G. H.G.
15.5 99.5 60.6 At4g04620 825794 ATG8B (autophagy 8b) F:microtubule binding;P:autophagy;C:unknown;MOPFV O.I. C.G. H.G.
15.3 99.4 165.6 At3g49780 824140 ATPSK4 (PHYTOSULFOKINE 4 PRECURSOR) Phytosulfokine 3 precursor, coding for a unique plant peptide growth factor. Plants overexpressing this gene (under a 35S promoter), develop normal cotyledons and hypocotyls but their growth, in particular that of their roots, was faster than that of wildtype. O.I. C.G. H.G.
15.2 99.4 198.4 At1g58030 842170 CAT2 (CATIONIC AMINO ACID TRANSPORTER 2) Encodes a member of the cationic amino acid transporter (CAT) subfamily of amino acid polyamine choline transporters. Localized to the tonoplast. O.I. C.G. H.G.
15.2 99.4 135.2 At5g49450 835005 AtbZIP1 (Arabidopsis thaliana basic leucine-zipper 1) F:transcription factor activity, protein heterodimerization activity, DNA binding;P:anther dehiscence, regulation of transcription, DNA-dependent;C:nucleus, chloroplast;PMO O.I. C.G. H.G.
15.1 99.4 44.4 At2g39705 818554 RTFL8 (ROTUNDIFOLIA LIKE 8) F:molecular_function unknown;P:shoot development;C:chloroplast;P O.I. C.G. H.G.
14.3 99.4 122.8 At4g33150 829452 lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzyme F:unknown;P:unknown;C:unknown;OBFMPA O.I. C.G. H.G.
13.8 99.4 105.9 At5g06370 830525 NC domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PBMO O.I. C.G. H.G.
13.6 99.4 625.2 At5g15230 831375 GASA4 (GAST1 PROTEIN HOMOLOG 4) gibberellin-regulated (GASA4) O.I. C.G. H.G.
13.6 99.4 445.7 At4g35770 829730 SEN1 (SENESCENCE 1) Senescence-associated gene that is strongly induced by phosphate starvation. Transcripts are differentially regulated at the level of mRNA stability at different times of day. mRNAs are targets of the mRNA degradation pathway mediated by the downstream (DST) instability determinant. O.I. C.G. H.G.
13.5 99.4 38.8 At3g20340 821578 - Expression of the gene is downregulated in the presence of paraquat, an inducer of photoxidative stress. O.I. C.G. H.G.
13.4 99.4 293.0 At2g37130 818289 peroxidase 21 (PER21) (P21) (PRXR5) F:electron carrier activity, peroxidase activity, heme binding;P:defense response to fungus;C:endomembrane system;PFO O.I. C.G. H.G.
12.9 99.3 92.4 At4g17730 827494 SYP23 (SYNTAXIN OF PLANTS 23) member of SYP2 Gene Family O.I. C.G. H.G.
12.5 99.3 72.1 At1g80160 844356 lactoylglutathione lyase family protein / glyoxalase I family protein F:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:unknown;BPO O.I. C.G. H.G.
12.2 99.3 249.3 At3g47340 823888 ASN1 (GLUTAMINE-DEPENDENT ASPARAGINE SYNTHASE 1) encodes a glutamine-dependent asparagine synthetase, the predicted ASN1 peptide contains a purF-type glutamine-binding domain, and is expressed predominantly in shoot tissues, where light has a negative effect on its mRNA accumulation. Expression is induced within 3 hours of dark treatment, in senescing leaves and treatment with exogenous photosynthesis inhibitor. Induction of gene expression was suppressed in excised leaves supplied with sugar. The authors suggest that the gene's expression pattern is responding to the level of sugar in the cell. O.I. C.G. H.G.
12.1 99.3 59.8 At2g42890 818890 AML2 (ARABIDOPSIS-MEI2-LIKE 2) A member of mei2-like gene family, predominantly plant-based family of genes encoding RNA binding proteins with characteristic presence of a highly conserved RNA binding motif first described in the mei2 gene of the fission yeast S. pombe. In silico analyses reveal nine mei2 -like genes in A. thaliana. They were grouped into four distinct clades, based on overall sequence similarity and subfamily-specific sequence elements. AML2 is a member of two sister clades of mei2-like gene family, AML1 through AML5, and belongs to the clade named ALM235. AML2 is expressed during early embryo development (heart and torpedo stage) and predominantly in vegetative organs; no significant accumulation was detected in floral apices. O.I. C.G. H.G.
12.0 99.3 394.2 At3g16770 820929 ATEBP (ETHYLENE-RESPONSIVE ELEMENT BINDING PROTEIN) Encodes a member of the ERF (ethylene response factor) subfamily B-2 of the plant specific ERF/AP2 transcription factor family (RAP2.3). The protein contains one AP2 domain. There are 5 members in this subfamily including RAP2.2 AND RAP2.12.It is localized to the nucleus and acts as a transcriptional activator through the GCC-box. It has been identified as a suppressor of Bax-induced cell death by functional screening in yeast and can also suppress Bax-induced cell death in tobacco plants. Overexpression of this gene in tobacco BY-2 cells confers resistance to H2O2 and heat stresses. Overexpression in Arabidopsis causes upregulation of PDF1.2 and GST6. It is part of the ethylene signaling pathway and is predicted to act downstream of EIN2 and CTR1, but not under EIN3. O.I. C.G. H.G.
12.0 99.3 108.1 At4g34030 829549 MCCB (3-METHYLCROTONYL-COA CARBOXYLASE) MCC-B is involved in leucine degradation in mitochondria. The active protein is a dimer of MCC-A and MCC-B. MCC-A is biotinylated whereas MCC-B is not. O.I. C.G. H.G.
11.8 99.3 60.8 At2g45620 819170 nucleotidyltransferase family protein F:nucleotidyltransferase activity;P:biological_process unknown;C:cellular_component unknown;MOFPB O.I. C.G. H.G.
11.7 99.3 72.5 At4g11190 826721 disease resistance-responsive family protein / dirigent family protein F:molecular_function unknown;P:lignan biosynthetic process, defense response;C:endomembrane system;P O.I. C.G. H.G.
11.7 99.3 11.6 At3g29370 822596 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
11.6 99.3 191.1 At1g12780 837834 UGE1 (UDP-D-glucose/UDP-D-galactose 4-epimerase 1) Encodes a UDP-glucose epimerase that catalyzes the interconversion of the sugar nucleotides UDP-glucose UDP-galactose via a UDP-4-keto-hexose intermediate. Responsive to stress. O.I. C.G. H.G.
11.6 99.3 28.8 At1g23120 838920 major latex protein-related / MLP-related F:molecular_function unknown;P:response to biotic stimulus, defense response;C:cellular_component unknown;P O.I. C.G. H.G.
11.5 99.3 30.4 At5g04080 830287 unknown protein F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;PF O.I. C.G. H.G.
11.3 99.3 118.8 At2g38400 818421 AGT3 (ALANINE:GLYOXYLATE AMINOTRANSFERASE 3) alanine:glyoxylate aminotransferase 2 homolog (AGT3) mRNA, O.I. C.G. H.G.
11.2 99.2 658.0 At1g31812 840069 ACBP6 (acyl-CoA-binding protein 6) Acyl-CoA-binding protein. Bind acyl-CoA esters and protect acyl-CoAs from degradation by microsomal acyl-hydrolases. O.I. C.G. H.G.
11.2 99.2 572.9 At2g33830 817950 dormancy/auxin associated family protein F:unknown;P:unknown;C:cellular_component unknown;P O.I. C.G. H.G.
11.2 99.2 285.7 At2g05540 815103 glycine-rich protein F:unknown;P:unknown;C:endomembrane system;MPBOFVA O.I. C.G. H.G.
11.2 99.2 128.7 At1g21770 838781 - F:molecular_function unknown;P:biological_process unknown;C:peroxisome;BPOAM O.I. C.G. H.G.
11.0 99.2 117.6 At4g09830 826572 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
10.9 99.2 180.0 At4g37300 829885 MEE59 (maternal effect embryo arrest 59) F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P O.I. C.G. H.G.
10.8 99.2 23.6 At4g29380 829059 protein kinase family protein / WD-40 repeat family protein F:protein serine/threonine kinase activity, binding, protein kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:CUL4 RING ubiquitin ligase complex;MOFPBVA O.I. C.G. H.G.
10.7 99.2 264.0 At4g11650 826770 ATOSM34 (osmotin 34) osmotin-like protein O.I. C.G. H.G.
10.7 99.2 185.2 At5g63600 836480 FLS5 (FLAVONOL SYNTHASE 5) encodes a protein whose sequence is similar to flavonol synthase O.I. C.G. H.G.
10.7 99.2 172.2 At3g62650 825439 unknown protein F:unknown;P:unknown;C:unknown;P O.I. C.G. H.G.
10.6 99.2 263.7 At4g12550 826868 AIR1 isolated from differential screening of a cDNA library from auxin-treated root culture. encodes a protein that is related to a large family of proteins that consist of a proline-rich or glycine-rich N-terminus and a hydrophobic, possibly membrane spanning C-terminus. O.I. C.G. H.G.
10.6 99.2 25.4 At5g57240 835830 ORP4C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 4C) F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOP O.I. C.G. H.G.
10.4 99.2 10.1 At3g55790 824745 unknown protein F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;MPBOFV O.I. C.G. H.G.
10.3 99.2 276.2 At3g55770 824743 LIM domain-containing protein F:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPF O.I. C.G. H.G.
10.3 99.2 173.8 At3g01470 821138 ATHB-1 (ARABIDOPSIS THALIANA HOMEOBOX 1) Encodes a homeodomain leucine zipper class I (HD-Zip I) transcriptional activator involved in leaf development. O.I. C.G. H.G.
10.3 99.2 130.5 At5g63190 836440 MA3 domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF O.I. C.G. H.G.
10.3 99.2 70.6 At1g10140 837551 - F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;PO O.I. C.G. H.G.
10.3 99.2 44.2 At3g04350 819590 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMBO O.I. C.G. H.G.
10.2 99.2 187.3 At5g16110 831468 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P O.I. C.G. H.G.
10.2 99.2 17.1 At1g54680 841909 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBO O.I. C.G. H.G.
10.1 99.2 137.2 At1g16240 838193 SYP51 (SYNTAXIN OF PLANTS 51) Encodes one of 24 Arabidopsis syntaxins. Its mRNA has been shown to be expressed. O.I. C.G. H.G.
10.1 99.2 114.8 At1g29970 839876 RPL18AA (60S RIBOSOMAL PROTEIN L18A-1) F:unknown;P:unknown;C:unknown;P O.I. C.G. H.G.
10.1 99.2 31.8 At1g05890 837099 zinc finger protein-related F:protein binding, zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MOFPV O.I. C.G. H.G.
10.1 99.2 8.5 At2g46990 819313 IAA20 (INDOLE-3-ACETIC ACID INDUCIBLE 20) Encodes a member of the Aux/IAA family of proteins implicated in auxin signaling. IAA20 lacks the conserved degron (domain II) found in many family members, and IAA20 fusion proteins are stable in Arabidopsis seedlings. IAA20 transcripts are induced by auxin treatment, and overexpression of IAA20 leads to defects in gravitropism, root development, root meristem maintenance, etiolation, and cotyledon vascular development. O.I. C.G. H.G.
10.0 99.2 28.3 At5g05710 830455 pleckstrin homology (PH) domain-containing protein F:molecular_function unknown;P:unknown;C:cellular_component unknown;MOPFV O.I. C.G. H.G.
9.8 99.1 227.3 At2g01530 814682 MLP329 (MLP-LIKE PROTEIN 329) F:copper ion binding;P:response to biotic stimulus, defense response;C:cellular_component unknown;P O.I. C.G. H.G.
9.5 99.1 340.9 At3g16390 820886 NSP3 (NITRILE SPECIFIER PROTEIN 3) Encodes a nitrile-specifier protein NSP3. NSP3 is one out of five (At3g16400/NSP1, At2g33070/NSP2, At3g16390/NSP3, At3g16410/NSP4 and At5g48180/NSP5) A. thaliana epithiospecifier protein (ESP) homologues that promote simple nitrile, but not epithionitrile or thiocyanate formation. O.I. C.G. H.G.
9.5 99.1 48.5 At1g78290 844164 - - O.I. C.G. H.G.
9.4 99.1 288.2 At3g16450 820893 jacalin lectin family protein F:molecular_function unknown;P:response to cold;C:nucleus;PO O.I. C.G. H.G.
9.4 99.1 78.8 At1g64660 842774 ATMGL (ARABIDOPSIS THALIANA METHIONINE GAMMA-LYASE) Encodes a functional methionine gamma-lyase, a cytosolic enzyme catalyzes the degradation of methionine into methanethiol, alpha-ketobutyrate and ammonia. The catabolism of excess methionine is important to methionine homeostasis. O.I. C.G. H.G.
9.3 99.1 404.4 At5g41700 834173 UBC8 (UBIQUITIN CONJUGATING ENZYME 8) One of the polypeptides that constitute the ubiquitin-conjugating enzyme E2 O.I. C.G. H.G.
9.3 99.1 274.0 At5g49360 834996 BXL1 (BETA-XYLOSIDASE 1) Encodes a bifunctional {beta}-D-xylosidase/{alpha}-L-arabinofuranosidase required for pectic arabinan modification. Located in the extracellular matrix. Gene is expressed specifically in tissues undergoing secondary wall thickening. This is a member of glycosyl hydrolase family 3 and has six other closely related members. O.I. C.G. H.G.
9.3 99.1 43.1 At1g23870 838998 ATTPS9 Encodes an enzyme putatively involved in trehalose biosynthesis. The protein has a trehalose synthase (TPS)-like domain that may or may not be active as well as a trehalose phosphatase (TPP)-like domain. O.I. C.G. H.G.
9.1 99.1 71.6 At1g07040 837215 unknown protein F:unknown;P:biological_process unknown;C:chloroplast;BOP O.I. C.G. H.G.
9.1 99.1 49.5 At3g24100 821996 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO O.I. C.G. H.G.
9.0 99.1 229.5 At3g48740 824035 nodulin MtN3 family protein F:unknown;P:biological_process unknown;C:endomembrane system, integral to membrane, membrane;PMOB O.I. C.G. H.G.
8.9 99.0 153.4 At2g36320 818205 zinc finger (AN1-like) family protein F:DNA binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MPOVF O.I. C.G. H.G.
8.9 99.0 21.8 At4g35720 829724 unknown protein F:unknown;P:unknown;C:unknown;PO O.I. C.G. H.G.
8.8 99.0 257.4 At3g29240 822579 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid lumen, chloroplast;BOP O.I. C.G. H.G.
8.8 99.0 158.3 At1g80440 844383 kelch repeat-containing F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOFA O.I. C.G. H.G.
8.8 99.0 25.1 At5g18640 831982 lipase class 3 family protein F:triacylglycerol lipase activity;P:lipid metabolic process;C:endomembrane system;POFBMV O.I. C.G. H.G.
8.7 99.0 130.8 At4g32150 829347 ATVAMP711 (ARABIDOPSIS THALIANA VESICLE-ASSOCIATED MEMBRANE PROTEIN 711) AtVAMP711 is a member of Synaptobrevin-like AtVAMP7C, v-SNARE (soluble N-ethyl-maleimide sensitive factor attachment protein receptors) protein family. SNAREs have been divided into four subgroups: Qa-, Qb-, Qc- and R-SNAREs. R-SNAREs are classified into three groups, the Sec22-, YKT6- and VAMP7-like R-SNAREs. One R-SNARE and three Q-SNAREs (one of each subgroup) form the trans-SNARE complex, which governs specific membrane fusions. VAMP7 proteins consist of three distinct domain, the N-terminal longin-domain (LD), the SNARE motif (SNM) and a transmembrane domain. In spite of the high similarities among the VAMP7 proteins, they show different subcellular localizations. VAMP7C is vacuolar-localized and its LD is essential for the correct localization. Generally, it is suggested that the complete LD is the determinant of subcellular sorting in both animal and plant R-SNAREs. O.I. C.G. H.G.
8.7 99.0 126.3 At4g39675 830122 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
8.7 99.0 118.1 At1g28580 839758 GDSL-motif lipase, putative F:lipase activity, hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:vacuole;PBOFM O.I. C.G. H.G.

Std2 GX	%ile	Std GX	Gene ID	Repr. ID	Gene name	Functional description	O.I.	C.G.	H.G.
54.5	99.8	184.6	At5g02020	831782	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P	O.I.	C.G.	H.G.
47.5	99.8	443.4	At1g60740	842368	peroxiredoxin type 2, putative	F:oxidoreductase activity, antioxidant activity;P:cell redox homeostasis;C:plasma membrane;OBFPMA	O.I.	C.G.	H.G.
45.6	99.8	239.5	At5g54080	835494	HGO (HOMOGENTISATE 1,2-DIOXYGENASE)	homogentisate 1,2-dioxygenase	O.I.	C.G.	H.G.
40.1	99.8	303.5	At1g19530	838540	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P	O.I.	C.G.	H.G.
36.1	99.7	50.1	At5g02580	831095	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	C.G.	H.G.
34.2	99.7	213.3	At3g60140	825184	DIN2 (DARK INDUCIBLE 2)	Encodes a protein similar to beta-glucosidase and is a member of glycoside hydrolase family 1. Expression is induced after 24 hours of dark treatment, in senescing leaves and treatment with exogenous photosynthesis inhibitor. Induction of gene expression was suppressed in excised leaves supplied with sugar. The authors suggest that the gene's expression pattern is responding to the level of sugar in the cell.	O.I.	C.G.	H.G.
26.9	99.7	181.0	At1g09570	837483	PHYA (PHYTOCHROME A)	Light-labile cytoplasmic red/far-red light photoreceptor involved in the regulation of photomorphogenesis. It exists in two inter-convertible forms: Pr and Pfr (active) and functions as a dimer.The N terminus carries a single tetrapyrrole chromophore, and the C terminus is involved in dimerization. It is the sole photoreceptor mediating the FR high irradiance response (HIR). Major regulator in red-light induction of phototropic enhancement. Involved in the regulation of de-etiolation. Involved in gravitropism and phototropism. Requires FHY1 for nuclear accumulation.	O.I.	C.G.	H.G.
24.8	99.6	183.2	At1g73120	843643	unknown protein	F:molecular_function unknown;P:response to oxidative stress;C:unknown;P	O.I.	C.G.	H.G.
24.6	99.6	160.3	At1g12080	837760	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPVA	O.I.	C.G.	H.G.
23.4	99.6	102.8	At1g26665	839207	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	C.G.	H.G.
22.5	99.6	61.4	At1g76410	843974	ATL8	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV	O.I.	C.G.	H.G.
21.6	99.6	201.9	At5g03240	831899	UBQ3 (POLYUBIQUITIN 3)	encodes ubiquitin that is attached to proteins destined for degradation. UBQ3 is most homologous with UBQ4, and is expressed in higher levels in vegetative tissue but lower levels in flowers than UBQ4. UBQ3 encodes different number of ubiquitins in different ecotypes. UBQ3 transcript level is modulated by UV-B and light/dark treatments.	O.I.	C.G.	H.G.
20.4	99.6	147.2	At2g18280	816344	AtTLP2 (TUBBY LIKE PROTEIN 2)	Member of TLP family	O.I.	C.G.	H.G.
20.2	99.6	108.9	At2g22860	816817	ATPSK2 (PHYTOSULFOKINE 2 PRECURSOR)	Phytosulfokine 2 precursor, coding for a unique plant peptide growth factor.	O.I.	C.G.	H.G.
19.9	99.6	189.3	At2g37750	818352	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
19.3	99.6	98.2	At1g67910	843119	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P	O.I.	C.G.	H.G.
18.7	99.5	57.0	At1g02340	839300	HFR1 (LONG HYPOCOTYL IN FAR-RED)	Encodes a light-inducible, nuclear bHLH protein involved in phytochrome signaling. Mutants exhibit a long-hypocotyl phenotype only under far-red light but not under red light and are defective in other phytochrome A-related responses. Mutants also show blue light response defects. HFR1 interacts with COP1, co-localizes to the nuclear specks and is ubiquinated by COP1.	O.I.	C.G.	H.G.
18.6	99.5	21.9	At1g67110	843031	CYP735A2	member of CYP709A	O.I.	C.G.	H.G.
18.3	99.5	229.9	At2g39310	818516	JAL22 (JACALIN-RELATED LECTIN 22)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	C.G.	H.G.
18.1	99.5	194.2	At5g18650	831983	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFA	O.I.	C.G.	H.G.
17.8	99.5	262.0	At4g14130	827051	XTR7 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 7)	xyloglucan endotransglycosylase-related protein (XTR7)	O.I.	C.G.	H.G.
17.2	99.5	85.7	At2g18050	816317	HIS1-3 (HISTONE H1-3)	encodes a structurally divergent linker histone whose gene expression is induced by dehydration and ABA.	O.I.	C.G.	H.G.
16.6	99.5	212.2	At1g28330	839729	DYL1 (DORMANCY-ASSOCIATED PROTEIN-LIKE 1)	dormancy-associated protein (DRM1)	O.I.	C.G.	H.G.
16.6	99.5	133.4	At1g10070	837543	ATBCAT-2 (ARABIDOPSIS THALIANA BRANCHED-CHAIN AMINO ACID TRANSAMINASE 2)	Encodes a chloroplast branched-chain amino acid aminotransferase. Complements the yeast leu/iso-leu/val auxotrophy mutant.	O.I.	C.G.	H.G.
16.6	99.5	65.1	At1g21400	838739	2-oxoisovalerate dehydrogenase, putative / 3-methyl-2-oxobutanoate dehydrogenase, putative / branched-chain alpha-keto acid dehydrogenase E1 alpha subunit, putative	F:oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity;P:metabolic process;C:unknown;BOMFPA	O.I.	C.G.	H.G.
16.2	99.5	797.2	At2g38530	818435	LTP2 (LIPID TRANSFER PROTEIN 2)	Involved in lipid transfer between membranes. Belongs to a family of Lipid transfer proteins. Sequence similarity to other plant/Arabidopsis LPT genes but highest similarity to LPT1. Stress and pathogen-inducible motifs found in the upstream region. Expressed in flower, leaves and siliques but absent in roots. Predicted to be a member of PR-14 pathogenesis-related protein family with the following members: At2g38540/LTP1, At2g38530/LTP2, At5g59320/LTP3, At5g59310/LTP4, At3g51600/LTP5, At3g08770/LTP6, At2g15050/LTP7, At2g18370/LTP8, At2g15325/LTP9, At5g01870/LTP10, At4g33355/LTP11, At3g51590/LTP12, At5g44265/LTP13, At5g62065/LTP14, At4g08530/LTP15.	O.I.	C.G.	H.G.
15.9	99.5	140.1	At1g06570	837168	PDS1 (PHYTOENE DESATURATION 1)	Mutation of the PDS1 locus disrupts the activity of p-hydroxyphenylpyruvate dioxygenase (HPPDase), the first committed step in the synthesis of both plastoquinone and tocopherols in plants.	O.I.	C.G.	H.G.
15.9	99.5	103.0	At5g43580	834378	serine-type endopeptidase inhibitor	Predicted to encode a PR (pathogenesis-related) peptide that belongs to the PR-6 proteinase inhibitor family. Six putative PR-6-type protein encoding genes are found in Arabidopsis: At2g38900, At2g38870, At5g43570, At5g43580, At3g50020 and At3g46860.	O.I.	C.G.	H.G.
15.9	99.5	23.7	At1g72070	843538	DNAJ heat shock N-terminal domain-containing protein	F:unfolded protein binding, heat shock protein binding;P:protein folding;C:unknown;BOMPFAV	O.I.	C.G.	H.G.
15.8	99.5	33.2	At4g23870	828486	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
15.7	99.5	198.6	At3g01520	821122	universal stress protein (USP) family protein	F:molecular_function unknown;P:N-terminal protein myristoylation, response to stress;C:plasma membrane;BPAMOF	O.I.	C.G.	H.G.
15.7	99.5	130.2	At1g03090	838362	MCCA	MCCA is the biotinylated subunit of the dimer MCCase, which is involved in leucine degradation. Both subunits are nuclear coded and the active enzyme is located in the mitochondrion.	O.I.	C.G.	H.G.
15.5	99.5	60.6	At4g04620	825794	ATG8B (autophagy 8b)	F:microtubule binding;P:autophagy;C:unknown;MOPFV	O.I.	C.G.	H.G.
15.3	99.4	165.6	At3g49780	824140	ATPSK4 (PHYTOSULFOKINE 4 PRECURSOR)	Phytosulfokine 3 precursor, coding for a unique plant peptide growth factor. Plants overexpressing this gene (under a 35S promoter), develop normal cotyledons and hypocotyls but their growth, in particular that of their roots, was faster than that of wildtype.	O.I.	C.G.	H.G.
15.2	99.4	198.4	At1g58030	842170	CAT2 (CATIONIC AMINO ACID TRANSPORTER 2)	Encodes a member of the cationic amino acid transporter (CAT) subfamily of amino acid polyamine choline transporters. Localized to the tonoplast.	O.I.	C.G.	H.G.
15.2	99.4	135.2	At5g49450	835005	AtbZIP1 (Arabidopsis thaliana basic leucine-zipper 1)	F:transcription factor activity, protein heterodimerization activity, DNA binding;P:anther dehiscence, regulation of transcription, DNA-dependent;C:nucleus, chloroplast;PMO	O.I.	C.G.	H.G.
15.1	99.4	44.4	At2g39705	818554	RTFL8 (ROTUNDIFOLIA LIKE 8)	F:molecular_function unknown;P:shoot development;C:chloroplast;P	O.I.	C.G.	H.G.
14.3	99.4	122.8	At4g33150	829452	lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzyme	F:unknown;P:unknown;C:unknown;OBFMPA	O.I.	C.G.	H.G.
13.8	99.4	105.9	At5g06370	830525	NC domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PBMO	O.I.	C.G.	H.G.
13.6	99.4	625.2	At5g15230	831375	GASA4 (GAST1 PROTEIN HOMOLOG 4)	gibberellin-regulated (GASA4)	O.I.	C.G.	H.G.
13.6	99.4	445.7	At4g35770	829730	SEN1 (SENESCENCE 1)	Senescence-associated gene that is strongly induced by phosphate starvation. Transcripts are differentially regulated at the level of mRNA stability at different times of day. mRNAs are targets of the mRNA degradation pathway mediated by the downstream (DST) instability determinant.	O.I.	C.G.	H.G.
13.5	99.4	38.8	At3g20340	821578	-	Expression of the gene is downregulated in the presence of paraquat, an inducer of photoxidative stress.	O.I.	C.G.	H.G.
13.4	99.4	293.0	At2g37130	818289	peroxidase 21 (PER21) (P21) (PRXR5)	F:electron carrier activity, peroxidase activity, heme binding;P:defense response to fungus;C:endomembrane system;PFO	O.I.	C.G.	H.G.
12.9	99.3	92.4	At4g17730	827494	SYP23 (SYNTAXIN OF PLANTS 23)	member of SYP2 Gene Family	O.I.	C.G.	H.G.
12.5	99.3	72.1	At1g80160	844356	lactoylglutathione lyase family protein / glyoxalase I family protein	F:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:unknown;BPO	O.I.	C.G.	H.G.
12.2	99.3	249.3	At3g47340	823888	ASN1 (GLUTAMINE-DEPENDENT ASPARAGINE SYNTHASE 1)	encodes a glutamine-dependent asparagine synthetase, the predicted ASN1 peptide contains a purF-type glutamine-binding domain, and is expressed predominantly in shoot tissues, where light has a negative effect on its mRNA accumulation. Expression is induced within 3 hours of dark treatment, in senescing leaves and treatment with exogenous photosynthesis inhibitor. Induction of gene expression was suppressed in excised leaves supplied with sugar. The authors suggest that the gene's expression pattern is responding to the level of sugar in the cell.	O.I.	C.G.	H.G.
12.1	99.3	59.8	At2g42890	818890	AML2 (ARABIDOPSIS-MEI2-LIKE 2)	A member of mei2-like gene family, predominantly plant-based family of genes encoding RNA binding proteins with characteristic presence of a highly conserved RNA binding motif first described in the mei2 gene of the fission yeast S. pombe. In silico analyses reveal nine mei2 -like genes in A. thaliana. They were grouped into four distinct clades, based on overall sequence similarity and subfamily-specific sequence elements. AML2 is a member of two sister clades of mei2-like gene family, AML1 through AML5, and belongs to the clade named ALM235. AML2 is expressed during early embryo development (heart and torpedo stage) and predominantly in vegetative organs; no significant accumulation was detected in floral apices.	O.I.	C.G.	H.G.
12.0	99.3	394.2	At3g16770	820929	ATEBP (ETHYLENE-RESPONSIVE ELEMENT BINDING PROTEIN)	Encodes a member of the ERF (ethylene response factor) subfamily B-2 of the plant specific ERF/AP2 transcription factor family (RAP2.3). The protein contains one AP2 domain. There are 5 members in this subfamily including RAP2.2 AND RAP2.12.It is localized to the nucleus and acts as a transcriptional activator through the GCC-box. It has been identified as a suppressor of Bax-induced cell death by functional screening in yeast and can also suppress Bax-induced cell death in tobacco plants. Overexpression of this gene in tobacco BY-2 cells confers resistance to H2O2 and heat stresses. Overexpression in Arabidopsis causes upregulation of PDF1.2 and GST6. It is part of the ethylene signaling pathway and is predicted to act downstream of EIN2 and CTR1, but not under EIN3.	O.I.	C.G.	H.G.
12.0	99.3	108.1	At4g34030	829549	MCCB (3-METHYLCROTONYL-COA CARBOXYLASE)	MCC-B is involved in leucine degradation in mitochondria. The active protein is a dimer of MCC-A and MCC-B. MCC-A is biotinylated whereas MCC-B is not.	O.I.	C.G.	H.G.
11.8	99.3	60.8	At2g45620	819170	nucleotidyltransferase family protein	F:nucleotidyltransferase activity;P:biological_process unknown;C:cellular_component unknown;MOFPB	O.I.	C.G.	H.G.
11.7	99.3	72.5	At4g11190	826721	disease resistance-responsive family protein / dirigent family protein	F:molecular_function unknown;P:lignan biosynthetic process, defense response;C:endomembrane system;P	O.I.	C.G.	H.G.
11.7	99.3	11.6	At3g29370	822596	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
11.6	99.3	191.1	At1g12780	837834	UGE1 (UDP-D-glucose/UDP-D-galactose 4-epimerase 1)	Encodes a UDP-glucose epimerase that catalyzes the interconversion of the sugar nucleotides UDP-glucose UDP-galactose via a UDP-4-keto-hexose intermediate. Responsive to stress.	O.I.	C.G.	H.G.
11.6	99.3	28.8	At1g23120	838920	major latex protein-related / MLP-related	F:molecular_function unknown;P:response to biotic stimulus, defense response;C:cellular_component unknown;P	O.I.	C.G.	H.G.
11.5	99.3	30.4	At5g04080	830287	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;PF	O.I.	C.G.	H.G.
11.3	99.3	118.8	At2g38400	818421	AGT3 (ALANINE:GLYOXYLATE AMINOTRANSFERASE 3)	alanine:glyoxylate aminotransferase 2 homolog (AGT3) mRNA,	O.I.	C.G.	H.G.
11.2	99.2	658.0	At1g31812	840069	ACBP6 (acyl-CoA-binding protein 6)	Acyl-CoA-binding protein. Bind acyl-CoA esters and protect acyl-CoAs from degradation by microsomal acyl-hydrolases.	O.I.	C.G.	H.G.
11.2	99.2	572.9	At2g33830	817950	dormancy/auxin associated family protein	F:unknown;P:unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
11.2	99.2	285.7	At2g05540	815103	glycine-rich protein	F:unknown;P:unknown;C:endomembrane system;MPBOFVA	O.I.	C.G.	H.G.
11.2	99.2	128.7	At1g21770	838781	-	F:molecular_function unknown;P:biological_process unknown;C:peroxisome;BPOAM	O.I.	C.G.	H.G.
11.0	99.2	117.6	At4g09830	826572	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.9	99.2	180.0	At4g37300	829885	MEE59 (maternal effect embryo arrest 59)	F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.8	99.2	23.6	At4g29380	829059	protein kinase family protein / WD-40 repeat family protein	F:protein serine/threonine kinase activity, binding, protein kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:CUL4 RING ubiquitin ligase complex;MOFPBVA	O.I.	C.G.	H.G.
10.7	99.2	264.0	At4g11650	826770	ATOSM34 (osmotin 34)	osmotin-like protein	O.I.	C.G.	H.G.
10.7	99.2	185.2	At5g63600	836480	FLS5 (FLAVONOL SYNTHASE 5)	encodes a protein whose sequence is similar to flavonol synthase	O.I.	C.G.	H.G.
10.7	99.2	172.2	At3g62650	825439	unknown protein	F:unknown;P:unknown;C:unknown;P	O.I.	C.G.	H.G.
10.6	99.2	263.7	At4g12550	826868	AIR1	isolated from differential screening of a cDNA library from auxin-treated root culture. encodes a protein that is related to a large family of proteins that consist of a proline-rich or glycine-rich N-terminus and a hydrophobic, possibly membrane spanning C-terminus.	O.I.	C.G.	H.G.
10.6	99.2	25.4	At5g57240	835830	ORP4C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 4C)	F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOP	O.I.	C.G.	H.G.
10.4	99.2	10.1	At3g55790	824745	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;MPBOFV	O.I.	C.G.	H.G.
10.3	99.2	276.2	At3g55770	824743	LIM domain-containing protein	F:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPF	O.I.	C.G.	H.G.
10.3	99.2	173.8	At3g01470	821138	ATHB-1 (ARABIDOPSIS THALIANA HOMEOBOX 1)	Encodes a homeodomain leucine zipper class I (HD-Zip I) transcriptional activator involved in leaf development.	O.I.	C.G.	H.G.
10.3	99.2	130.5	At5g63190	836440	MA3 domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF	O.I.	C.G.	H.G.
10.3	99.2	70.6	At1g10140	837551	-	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;PO	O.I.	C.G.	H.G.
10.3	99.2	44.2	At3g04350	819590	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMBO	O.I.	C.G.	H.G.
10.2	99.2	187.3	At5g16110	831468	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P	O.I.	C.G.	H.G.
10.2	99.2	17.1	At1g54680	841909	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PBO	O.I.	C.G.	H.G.
10.1	99.2	137.2	At1g16240	838193	SYP51 (SYNTAXIN OF PLANTS 51)	Encodes one of 24 Arabidopsis syntaxins. Its mRNA has been shown to be expressed.	O.I.	C.G.	H.G.
10.1	99.2	114.8	At1g29970	839876	RPL18AA (60S RIBOSOMAL PROTEIN L18A-1)	F:unknown;P:unknown;C:unknown;P	O.I.	C.G.	H.G.
10.1	99.2	31.8	At1g05890	837099	zinc finger protein-related	F:protein binding, zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MOFPV	O.I.	C.G.	H.G.
10.1	99.2	8.5	At2g46990	819313	IAA20 (INDOLE-3-ACETIC ACID INDUCIBLE 20)	Encodes a member of the Aux/IAA family of proteins implicated in auxin signaling. IAA20 lacks the conserved degron (domain II) found in many family members, and IAA20 fusion proteins are stable in Arabidopsis seedlings. IAA20 transcripts are induced by auxin treatment, and overexpression of IAA20 leads to defects in gravitropism, root development, root meristem maintenance, etiolation, and cotyledon vascular development.	O.I.	C.G.	H.G.
10.0	99.2	28.3	At5g05710	830455	pleckstrin homology (PH) domain-containing protein	F:molecular_function unknown;P:unknown;C:cellular_component unknown;MOPFV	O.I.	C.G.	H.G.
9.8	99.1	227.3	At2g01530	814682	MLP329 (MLP-LIKE PROTEIN 329)	F:copper ion binding;P:response to biotic stimulus, defense response;C:cellular_component unknown;P	O.I.	C.G.	H.G.
9.5	99.1	340.9	At3g16390	820886	NSP3 (NITRILE SPECIFIER PROTEIN 3)	Encodes a nitrile-specifier protein NSP3. NSP3 is one out of five (At3g16400/NSP1, At2g33070/NSP2, At3g16390/NSP3, At3g16410/NSP4 and At5g48180/NSP5) A. thaliana epithiospecifier protein (ESP) homologues that promote simple nitrile, but not epithionitrile or thiocyanate formation.	O.I.	C.G.	H.G.
9.5	99.1	48.5	At1g78290	844164	-	-	O.I.	C.G.	H.G.
9.4	99.1	288.2	At3g16450	820893	jacalin lectin family protein	F:molecular_function unknown;P:response to cold;C:nucleus;PO	O.I.	C.G.	H.G.
9.4	99.1	78.8	At1g64660	842774	ATMGL (ARABIDOPSIS THALIANA METHIONINE GAMMA-LYASE)	Encodes a functional methionine gamma-lyase, a cytosolic enzyme catalyzes the degradation of methionine into methanethiol, alpha-ketobutyrate and ammonia. The catabolism of excess methionine is important to methionine homeostasis.	O.I.	C.G.	H.G.
9.3	99.1	404.4	At5g41700	834173	UBC8 (UBIQUITIN CONJUGATING ENZYME 8)	One of the polypeptides that constitute the ubiquitin-conjugating enzyme E2	O.I.	C.G.	H.G.
9.3	99.1	274.0	At5g49360	834996	BXL1 (BETA-XYLOSIDASE 1)	Encodes a bifunctional {beta}-D-xylosidase/{alpha}-L-arabinofuranosidase required for pectic arabinan modification. Located in the extracellular matrix. Gene is expressed specifically in tissues undergoing secondary wall thickening. This is a member of glycosyl hydrolase family 3 and has six other closely related members.	O.I.	C.G.	H.G.
9.3	99.1	43.1	At1g23870	838998	ATTPS9	Encodes an enzyme putatively involved in trehalose biosynthesis. The protein has a trehalose synthase (TPS)-like domain that may or may not be active as well as a trehalose phosphatase (TPP)-like domain.	O.I.	C.G.	H.G.
9.1	99.1	71.6	At1g07040	837215	unknown protein	F:unknown;P:biological_process unknown;C:chloroplast;BOP	O.I.	C.G.	H.G.
9.1	99.1	49.5	At3g24100	821996	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO	O.I.	C.G.	H.G.
9.0	99.1	229.5	At3g48740	824035	nodulin MtN3 family protein	F:unknown;P:biological_process unknown;C:endomembrane system, integral to membrane, membrane;PMOB	O.I.	C.G.	H.G.
8.9	99.0	153.4	At2g36320	818205	zinc finger (AN1-like) family protein	F:DNA binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MPOVF	O.I.	C.G.	H.G.
8.9	99.0	21.8	At4g35720	829724	unknown protein	F:unknown;P:unknown;C:unknown;PO	O.I.	C.G.	H.G.
8.8	99.0	257.4	At3g29240	822579	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid lumen, chloroplast;BOP	O.I.	C.G.	H.G.
8.8	99.0	158.3	At1g80440	844383	kelch repeat-containing F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOFA	O.I.	C.G.	H.G.
8.8	99.0	25.1	At5g18640	831982	lipase class 3 family protein	F:triacylglycerol lipase activity;P:lipid metabolic process;C:endomembrane system;POFBMV	O.I.	C.G.	H.G.
8.7	99.0	130.8	At4g32150	829347	ATVAMP711 (ARABIDOPSIS THALIANA VESICLE-ASSOCIATED MEMBRANE PROTEIN 711)	AtVAMP711 is a member of Synaptobrevin-like AtVAMP7C, v-SNARE (soluble N-ethyl-maleimide sensitive factor attachment protein receptors) protein family. SNAREs have been divided into four subgroups: Qa-, Qb-, Qc- and R-SNAREs. R-SNAREs are classified into three groups, the Sec22-, YKT6- and VAMP7-like R-SNAREs. One R-SNARE and three Q-SNAREs (one of each subgroup) form the trans-SNARE complex, which governs specific membrane fusions. VAMP7 proteins consist of three distinct domain, the N-terminal longin-domain (LD), the SNARE motif (SNM) and a transmembrane domain. In spite of the high similarities among the VAMP7 proteins, they show different subcellular localizations. VAMP7C is vacuolar-localized and its LD is essential for the correct localization. Generally, it is suggested that the complete LD is the determinant of subcellular sorting in both animal and plant R-SNAREs.	O.I.	C.G.	H.G.
8.7	99.0	126.3	At4g39675	830122	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
8.7	99.0	118.1	At1g28580	839758	GDSL-motif lipase, putative	F:lipase activity, hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:vacuole;PBOFM	O.I.	C.G.	H.G.

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GSM ID	GSM245918
Assay name	wild type dark replicate 3
GSE experiment	GSE9728: COP9 signalosome (csn) mutant analysis

Microarray experiments to specifically-expressed genes

GSM ID GSM245918 Assay name wild type dark replicate 3 GSE experiment GSE9728: COP9 signalosome (csn) mutant analysis

GSM ID GSM245918

Assay name wild type dark replicate 3

GSE experiment GSE9728: COP9 signalosome (csn) mutant analysis