CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM128787

Assay name Somerville_1-10_stem-GH7_Rep1_ATH1

GSE experiment GSE5533: Tissue Type Arrays of Columbia-0

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
202.3 100.0 21.6 At2g35870 - - O.I. C.G. H.G.
139.7 99.9 230.0 At5g60490 836170 FLA12 F:unknown;P:unknown;C:plasma membrane, anchored to membrane;PBOMAF O.I. C.G. H.G.
114.2 99.9 250.8 At1g57750 842150 CYP96A15 (CYTOCHROME P450 96 A1) Encodes a CYP96A15, midchain alkane hydroxylase, involved in cuticular wax biosynthesis. O.I. C.G. H.G.
106.7 99.9 878.3 At5g59310 836050 LTP4 (LIPID TRANSFER PROTEIN 4) Encodes a member of the lipid transfer protein family. Proteins of this family are generally small (~9 kD), basic, expressed abundantly and contain eight Cys residues. The proteins can bind fatty acids and acylCoA esters and can transfer several different phospholipids. They are localized to the cell wall. The mRNA is present in flowers and siliques, and is strongly up-regulated by abscisic acid. 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.
93.1 99.9 31.1 At1g63910 842694 AtMYB103 (myb domain protein 103) member of MYB3R- and R2R3- type MYB- encoding genes O.I. C.G. H.G.
90.9 99.9 197.5 At5g44030 834426 CESA4 (CELLULOSE SYNTHASE A4) Encodes a cellulose synthase involved in secondary cell wall biosynthesis. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. O.I. C.G. H.G.
86.3 99.9 61.8 At3g18660 821397 PGSIP1 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 1) Plants expressing an RNAi construct specifically targeting PGSIP1 was shown to have a dramatically reduced amount of starch. O.I. C.G. H.G.
81.6 99.9 67.8 At5g05390 830421 LAC12 (laccase 12) putative laccase, a member of laccase family of genes (17 members in Arabidopsis). O.I. C.G. H.G.
80.4 99.9 135.9 At4g18780 827612 IRX1 (IRREGULAR XYLEM 1) Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. O.I. C.G. H.G.
65.7 99.8 42.8 At1g19940 838583 AtGH9B5 (Arabidopsis thaliana Glycosyl Hydrolase 9B5) F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOF O.I. C.G. H.G.
62.8 99.8 31.5 At4g39320 830087 microtubule-associated protein-related F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MOFBP O.I. C.G. H.G.
59.9 99.8 160.4 At3g16920 820947 chitinase F:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOF O.I. C.G. H.G.
51.9 99.8 396.7 At5g22580 832321 - F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOF O.I. C.G. H.G.
47.6 99.8 91.2 At4g13340 826964 leucine-rich repeat family protein / extensin family protein F:structural constituent of cell wall, protein binding;P:unknown;C:cell wall, plant-type cell wall;MBPOFVA O.I. C.G. H.G.
44.2 99.8 676.5 At5g59320 836051 LTP3 (LIPID TRANSFER PROTEIN 3) Predicted to encode a PR (pathogenesis-related) protein. Belongs to the lipid transfer protein (PR-14) 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.
37.9 99.8 25.0 At5g03720 831749 AT-HSFA3 Member of Heat Stress Transcription Factor (Hsf) family. Expression is regulated by DREB2A and in turn HSFA3 regulates the expression of hsps Hsp18.1-CI and Hsp26.5-MII35S. Involved in establishing thermotolerence. O.I. C.G. H.G.
37.3 99.7 219.9 At5g42180 834223 peroxidase 64 (PER64) (P64) (PRXR4) F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:plant-type cell wall;PFOBM O.I. C.G. H.G.
36.2 99.7 96.2 At1g22480 838854 plastocyanin-like domain-containing protein F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFO O.I. C.G. H.G.
34.9 99.7 280.1 At3g45970 823740 ATEXLA1 (ARABIDOPSIS THALIANA EXPANSIN-LIKE A1) member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio) O.I. C.G. H.G.
34.2 99.7 55.1 At1g73640 843698 AtRABA6a (Arabidopsis Rab GTPase homolog A6a) F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVA O.I. C.G. H.G.
33.7 99.7 133.0 At5g03170 831914 FLA11 F:unknown;P:unknown;C:anchored to membrane;PBOMAF O.I. C.G. H.G.
33.4 99.7 357.2 At1g75280 843865 isoflavone reductase, putative isoflavone reductase, putative, identical to SP:P52577 Isoflavone reductase homolog P3 (EC 1.3.1.-) {Arabidopsis thaliana}; contains Pfam profile PF02716: isoflavone reductase. Involved in response to oxidative stress. O.I. C.G. H.G.
32.2 99.7 19.1 At5g23350 832399 GRAM domain-containing protein / ABA-responsive protein-related F:unknown;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
30.8 99.7 43.5 At3g55420 824708 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
30.2 99.7 58.4 At1g19300 838512 PARVUS (PARVUS) The PARVUS/GLZ1 gene encodes a putative family 8 glycosyl transferase that contributes to xylan biosynthesis. Its gene expression shows good co-variance with the IRX3 gene involved in secondary cell wall synthesis. PARVUS/GLZ1 is predicted to have galacturonosyltransferase activity and may be involved in the formation of the complex oligosaccharide sequence present at the reducing end of xylan. PARVUS is expressed in cells undergoing secondary wall thickening, and parvus mutants have thinner cell walls. O.I. C.G. H.G.
30.2 99.7 47.8 At3g59900 825160 ARGOS (AUXIN-REGULATED GENE INVOLVED IN ORGAN SIZE) Encodes ARGOS (Auxin-Regulated Gene Involved in Organ Size). Inducible by auxin. Involved in lateral organ size control. Transgenic plants expressing sense or antisense ARGOS cDNA display enlarged or reduced aerial organs, respectively. The alteration in organ size is attributable mainly to changes in cell number and the duration of organ growth. O.I. C.G. H.G.
29.4 99.7 56.4 At2g35290 818096 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
26.0 99.7 14.6 At1g09950 837529 transcription factor-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
25.7 99.7 100.4 At3g06070 819780 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. C.G. H.G.
25.6 99.7 91.9 At1g72230 843555 plastocyanin-like domain-containing protein F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;POB O.I. C.G. H.G.
25.1 99.6 53.3 At1g80170 844357 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:plant-type cell wall;FPBOMA O.I. C.G. H.G.
24.5 99.6 70.3 At5g06720 830561 peroxidase, putative F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOMV O.I. C.G. H.G.
23.0 99.6 29.1 At3g15050 820734 IQD10 (IQ-domain 10) F:calmodulin binding;P:biological_process unknown;C:chloroplast;P O.I. C.G. H.G.
22.5 99.6 76.0 At5g17420 831608 IRX3 (IRREGULAR XYLEM 3) Encodes a xylem-specific cellulose synthase that is phosphorylated on one or more serine residues (on either S185 or one of S180 or S181). O.I. C.G. H.G.
21.1 99.6 34.7 At3g45960 823739 ATEXLA3 (arabidopsis thaliana expansin-like a3) member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio) O.I. C.G. H.G.
20.7 99.6 96.1 At3g23730 821955 xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative F:hydrolase activity, acting on glycosyl bonds, hydrolase activity, hydrolyzing O-glycosyl compounds, xyloglucan:xyloglucosyl transferase activity;P:carbohydrate metabolic process, cellular glucan metabolic process;C:endomembrane system, cell wall, apoplast;PFBO O.I. C.G. H.G.
20.5 99.6 54.6 At4g21650 828252 subtilase family protein F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:plant-type cell wall;BPOFAM O.I. C.G. H.G.
20.5 99.6 36.4 At4g38400 829997 ATEXLA2 (ARABIDOPSIS THALIANA EXPANSIN-LIKE A2) member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio) O.I. C.G. H.G.
19.2 99.6 66.8 At2g03200 814849 aspartyl protease family protein F:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;PFMO O.I. C.G. H.G.
18.9 99.5 13.0 At1g09610 837488 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB O.I. C.G. H.G.
18.6 99.5 49.4 At5g15630 831417 IRX6 Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars. O.I. C.G. H.G.
17.9 99.5 46.5 At1g78970 844237 LUP1 (LUPEOL SYNTHASE 1) Lupeol synthase. Converts oxidosqualene to multiple triterpene alcohols and a triterpene diols. This conversion proceeds through the formation of a 17β-dammarenyl cation. O.I. C.G. H.G.
17.7 99.5 37.2 At2g24330 816969 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO O.I. C.G. H.G.
16.7 99.5 76.6 At2g42320 818833 nucleolar protein gar2-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVA O.I. C.G. H.G.
16.5 99.5 644.4 At2g06850 815247 EXGT-A1 (ENDOXYLOGLUCAN TRANSFERASE) endoxyloglucan transferase (EXGT-A1) gene O.I. C.G. H.G.
16.5 99.5 11.2 At1g66960 843014 lupeol synthase, putative / 2,3-oxidosqualene-triterpenoid cyclase, putative F:lupeol synthase activity;P:pentacyclic triterpenoid biosynthetic process;C:unknown;BPOFM O.I. C.G. H.G.
16.3 99.5 52.8 At3g62020 825375 GLP10 (GERMIN-LIKE PROTEIN 10) germin-like protein (GLP10) O.I. C.G. H.G.
16.1 99.5 36.5 At5g58310 835943 MES18 (METHYL ESTERASE 18) Encodes a protein shown to have methyl IAA esterase activity in vitro. This protein does not act on methyl JA, MeSA, MeGA4, or MEGA9 in vitro. O.I. C.G. H.G.
15.9 99.5 57.1 At4g27435 828852 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
15.9 99.5 29.3 At5g01360 830298 - F:unknown;P:unknown;C:unknown;PMF O.I. C.G. H.G.
14.5 99.4 85.7 At5g06700 830559 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPVA O.I. C.G. H.G.
13.9 99.4 22.3 At3g50220 824184 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;POB O.I. C.G. H.G.
13.6 99.4 84.8 At1g17620 838339 - F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;P O.I. C.G. H.G.
13.6 99.4 58.5 At3g27960 822420 kinesin light chain-related F:binding;P:biological_process unknown;C:plasma membrane;MBOFPAV O.I. C.G. H.G.
13.6 99.4 45.8 At2g33570 817922 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;PMBOA O.I. C.G. H.G.
13.4 99.4 160.2 At4g19120 827650 ERD3 (early-responsive to dehydration 3) F:unknown;P:response to water deprivation;C:cellular_component unknown;PBOAF O.I. C.G. H.G.
13.1 99.4 33.5 At5g40020 833999 pathogenesis-related thaumatin family protein F:molecular_function unknown;P:response to other organism;C:endomembrane system;PFMBO O.I. C.G. H.G.
12.8 99.3 120.8 At5g11070 830974 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
12.7 99.3 52.9 At2g28760 817426 NAD-dependent epimerase/dehydratase family protein F:coenzyme binding, binding, catalytic activity;P:cellular metabolic process, nucleotide-sugar metabolic process, metabolic process;C:plasma membrane;OBPMAFV O.I. C.G. H.G.
12.4 99.3 41.2 At5g54690 835558 GAUT12 (GALACTURONOSYLTRANSFERASE 12) Encodes a protein with putative galacturonosyltransferase activity. Mutants defective in this gene displayed a notable reduction in xylose (>50%) in the cell walls from stems and roots and a reduction in cellulose (~25%). O.I. C.G. H.G.
12.2 99.3 717.8 At1g55330 841979 AGP21 Encodes a putative arabinogalactan-protein (AGP21). O.I. C.G. H.G.
12.0 99.3 68.4 At2g12400 815712 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POM O.I. C.G. H.G.
11.7 99.3 5.8 At3g61910 825364 ANAC066 (ARABIDOPSIS NAC DOMAIN PROTEIN 66) NAC transcription factor NST2. NST1 and NST2 are redundant in regulating secondary wall thickening in anther walls. NST2 promoter was particularly strong in anther tissue. O.I. C.G. H.G.
11.6 99.3 58.0 At3g12110 820385 ACT11 (actin-11) Encodes an actin that is expressed predominantly during reproductive development. O.I. C.G. H.G.
11.5 99.3 21.4 At1g56720 842128 protein kinase family protein F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA O.I. C.G. H.G.
11.0 99.2 110.9 At2g14900 815979 gibberellin-regulated family protein F:molecular_function unknown;P:response to gibberellin stimulus;C:endomembrane system;P O.I. C.G. H.G.
10.8 99.2 25.6 At5g57000 835802 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFB O.I. C.G. H.G.
10.7 99.2 30.6 At2g37090 818285 IRX9 (IRREGULAR XYLEM 9) The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis. O.I. C.G. H.G.
10.7 99.2 18.8 At2g23360 816868 transport protein-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPAV O.I. C.G. H.G.
10.5 99.2 117.6 At1g02205 837602 CER1 (ECERIFERUM 1) Expression of the CER1 gene associated with production of stem epicuticular wax and pollen fertility. Biochemical studies showed that cer1 mutants are blocked in the conversion of stem wax C30 aldehydes to C29 alkanes, and they also lack the secondary alcohols and ketones. These suggested the CER1 protein is a aldehyde decarbonylase. O.I. C.G. H.G.
10.5 99.2 60.7 At1g43790 840976 TED6 (TRACHEARY ELEMENT DIFFERENTIATION-RELATED 6) F:molecular_function unknown;P:secondary cell wall biogenesis;C:cellular_component unknown;P O.I. C.G. H.G.
10.5 99.2 5.4 At5g46115 834653 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
10.4 99.2 13.6 At1g13670 837928 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
10.2 99.2 565.7 At3g05880 819757 RCI2A (RARE-COLD-INDUCIBLE 2A) Induced by low temperatures, dehydration and salt stress and ABA. Encodes a small (54 amino acids), highly hydrophobic protein that bears two potential transmembrane domains. O.I. C.G. H.G.
10.2 99.2 281.4 At2g14890 815978 AGP9 (ARABINOGALACTAN PROTEIN 9) putative proline-rich protein (At2g14890) mRNA, complete O.I. C.G. H.G.
10.0 99.2 21.5 At5g46330 834676 FLS2 (FLAGELLIN-SENSITIVE 2) Encodes a leucine-rich repeat serine/threonine protein kinase that is expressed ubiquitously. FLS2 is involved in MAP kinase signalling relay involved in innate immunity. Essential in the perception of flagellin, a potent elicitor of the defense response. FLS2 is directed for degradation by the bacterial ubiquitin ligase AvrPtoB. O.I. C.G. H.G.
9.9 99.1 66.1 At4g22590 828355 trehalose-6-phosphate phosphatase, putative F:catalytic activity, trehalose-phosphatase activity;P:trehalose biosynthetic process, metabolic process;C:chloroplast;BPMOFA O.I. C.G. H.G.
9.9 99.1 23.5 At5g06930 830584 - F:unknown;P:unknown;C:chloroplast;OMBFPVA O.I. C.G. H.G.
9.9 99.1 20.3 At2g40480 818643 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPBFV O.I. C.G. H.G.
9.8 99.1 175.1 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.
9.8 99.1 16.1 At1g64760 842784 glycosyl hydrolase family 17 protein F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:anchored to plasma membrane, plasma membrane, anchored to membrane;PFOB O.I. C.G. H.G.
9.8 99.1 11.3 At4g28500 828968 ANAC073 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 73) F:transcription factor activity, transcription activator activity;P:multicellular organismal development, regulation of secondary cell wall thickening;C:nucleus;PO O.I. C.G. H.G.
9.7 99.1 4.0 At3g60940 825265 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMO O.I. C.G. H.G.
9.6 99.1 33.2 At3g59845 825154 NADP-dependent oxidoreductase, putative F:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:response to oxidative stress;C:unknown;BOFMPA O.I. C.G. H.G.
9.5 99.1 36.9 At1g29510 839828 SAUR68 (SMALL AUXIN UPREGULATED 68) F:molecular_function unknown;P:response to auxin stimulus;C:unknown;P O.I. C.G. H.G.
9.3 99.1 12.1 At5g59305 836049 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
9.2 99.1 441.0 At5g20250 832147 DIN10 (DARK INDUCIBLE 10) encodes a member of glycosyl hydrolase family 36. 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.
9.2 99.1 76.6 At4g27720 828886 - F:unknown;P:unknown;C:plasma membrane;BPMOFA O.I. C.G. H.G.
9.1 99.1 93.9 At3g28180 822444 ATCSLC04 (CELLULOSE-SYNTHASE LIKE C4) encodes a gene similar to cellulose synthase O.I. C.G. H.G.
9.0 99.1 25.3 At1g50040 841428 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMBV O.I. C.G. H.G.
9.0 99.1 21.6 At1g26730 839214 EXS family protein / ERD1/XPR1/SYG1 family protein F:unknown;P:unknown;C:integral to membrane, plasma membrane;FMPOB O.I. C.G. H.G.
8.8 99.0 70.0 At5g18670 831985 BMY3 putative beta-amylase BMY3 (BMY3) O.I. C.G. H.G.
8.7 99.0 90.3 At5g53370 835418 PMEPCRF (PECTIN METHYLESTERASE PCR FRAGMENT F) F:pectinesterase activity;P:cell wall modification;C:cell wall;PBFMO 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.
202.3	100.0	21.6	At2g35870		-	-	O.I.	C.G.	H.G.
139.7	99.9	230.0	At5g60490	836170	FLA12	F:unknown;P:unknown;C:plasma membrane, anchored to membrane;PBOMAF	O.I.	C.G.	H.G.
114.2	99.9	250.8	At1g57750	842150	CYP96A15 (CYTOCHROME P450 96 A1)	Encodes a CYP96A15, midchain alkane hydroxylase, involved in cuticular wax biosynthesis.	O.I.	C.G.	H.G.
106.7	99.9	878.3	At5g59310	836050	LTP4 (LIPID TRANSFER PROTEIN 4)	Encodes a member of the lipid transfer protein family. Proteins of this family are generally small (~9 kD), basic, expressed abundantly and contain eight Cys residues. The proteins can bind fatty acids and acylCoA esters and can transfer several different phospholipids. They are localized to the cell wall. The mRNA is present in flowers and siliques, and is strongly up-regulated by abscisic acid. 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.
93.1	99.9	31.1	At1g63910	842694	AtMYB103 (myb domain protein 103)	member of MYB3R- and R2R3- type MYB- encoding genes	O.I.	C.G.	H.G.
90.9	99.9	197.5	At5g44030	834426	CESA4 (CELLULOSE SYNTHASE A4)	Encodes a cellulose synthase involved in secondary cell wall biosynthesis. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.	O.I.	C.G.	H.G.
86.3	99.9	61.8	At3g18660	821397	PGSIP1 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 1)	Plants expressing an RNAi construct specifically targeting PGSIP1 was shown to have a dramatically reduced amount of starch.	O.I.	C.G.	H.G.
81.6	99.9	67.8	At5g05390	830421	LAC12 (laccase 12)	putative laccase, a member of laccase family of genes (17 members in Arabidopsis).	O.I.	C.G.	H.G.
80.4	99.9	135.9	At4g18780	827612	IRX1 (IRREGULAR XYLEM 1)	Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.	O.I.	C.G.	H.G.
65.7	99.8	42.8	At1g19940	838583	AtGH9B5 (Arabidopsis thaliana Glycosyl Hydrolase 9B5)	F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOF	O.I.	C.G.	H.G.
62.8	99.8	31.5	At4g39320	830087	microtubule-associated protein-related	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MOFBP	O.I.	C.G.	H.G.
59.9	99.8	160.4	At3g16920	820947	chitinase	F:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOF	O.I.	C.G.	H.G.
51.9	99.8	396.7	At5g22580	832321	-	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOF	O.I.	C.G.	H.G.
47.6	99.8	91.2	At4g13340	826964	leucine-rich repeat family protein / extensin family protein	F:structural constituent of cell wall, protein binding;P:unknown;C:cell wall, plant-type cell wall;MBPOFVA	O.I.	C.G.	H.G.
44.2	99.8	676.5	At5g59320	836051	LTP3 (LIPID TRANSFER PROTEIN 3)	Predicted to encode a PR (pathogenesis-related) protein. Belongs to the lipid transfer protein (PR-14) 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.
37.9	99.8	25.0	At5g03720	831749	AT-HSFA3	Member of Heat Stress Transcription Factor (Hsf) family. Expression is regulated by DREB2A and in turn HSFA3 regulates the expression of hsps Hsp18.1-CI and Hsp26.5-MII35S. Involved in establishing thermotolerence.	O.I.	C.G.	H.G.
37.3	99.7	219.9	At5g42180	834223	peroxidase 64 (PER64) (P64) (PRXR4)	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:plant-type cell wall;PFOBM	O.I.	C.G.	H.G.
36.2	99.7	96.2	At1g22480	838854	plastocyanin-like domain-containing protein	F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFO	O.I.	C.G.	H.G.
34.9	99.7	280.1	At3g45970	823740	ATEXLA1 (ARABIDOPSIS THALIANA EXPANSIN-LIKE A1)	member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)	O.I.	C.G.	H.G.
34.2	99.7	55.1	At1g73640	843698	AtRABA6a (Arabidopsis Rab GTPase homolog A6a)	F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVA	O.I.	C.G.	H.G.
33.7	99.7	133.0	At5g03170	831914	FLA11	F:unknown;P:unknown;C:anchored to membrane;PBOMAF	O.I.	C.G.	H.G.
33.4	99.7	357.2	At1g75280	843865	isoflavone reductase, putative	isoflavone reductase, putative, identical to SP:P52577 Isoflavone reductase homolog P3 (EC 1.3.1.-) {Arabidopsis thaliana}; contains Pfam profile PF02716: isoflavone reductase. Involved in response to oxidative stress.	O.I.	C.G.	H.G.
32.2	99.7	19.1	At5g23350	832399	GRAM domain-containing protein / ABA-responsive protein-related	F:unknown;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
30.8	99.7	43.5	At3g55420	824708	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
30.2	99.7	58.4	At1g19300	838512	PARVUS (PARVUS)	The PARVUS/GLZ1 gene encodes a putative family 8 glycosyl transferase that contributes to xylan biosynthesis. Its gene expression shows good co-variance with the IRX3 gene involved in secondary cell wall synthesis. PARVUS/GLZ1 is predicted to have galacturonosyltransferase activity and may be involved in the formation of the complex oligosaccharide sequence present at the reducing end of xylan. PARVUS is expressed in cells undergoing secondary wall thickening, and parvus mutants have thinner cell walls.	O.I.	C.G.	H.G.
30.2	99.7	47.8	At3g59900	825160	ARGOS (AUXIN-REGULATED GENE INVOLVED IN ORGAN SIZE)	Encodes ARGOS (Auxin-Regulated Gene Involved in Organ Size). Inducible by auxin. Involved in lateral organ size control. Transgenic plants expressing sense or antisense ARGOS cDNA display enlarged or reduced aerial organs, respectively. The alteration in organ size is attributable mainly to changes in cell number and the duration of organ growth.	O.I.	C.G.	H.G.
29.4	99.7	56.4	At2g35290	818096	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
26.0	99.7	14.6	At1g09950	837529	transcription factor-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
25.7	99.7	100.4	At3g06070	819780	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	C.G.	H.G.
25.6	99.7	91.9	At1g72230	843555	plastocyanin-like domain-containing protein	F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;POB	O.I.	C.G.	H.G.
25.1	99.6	53.3	At1g80170	844357	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:plant-type cell wall;FPBOMA	O.I.	C.G.	H.G.
24.5	99.6	70.3	At5g06720	830561	peroxidase, putative	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOMV	O.I.	C.G.	H.G.
23.0	99.6	29.1	At3g15050	820734	IQD10 (IQ-domain 10)	F:calmodulin binding;P:biological_process unknown;C:chloroplast;P	O.I.	C.G.	H.G.
22.5	99.6	76.0	At5g17420	831608	IRX3 (IRREGULAR XYLEM 3)	Encodes a xylem-specific cellulose synthase that is phosphorylated on one or more serine residues (on either S185 or one of S180 or S181).	O.I.	C.G.	H.G.
21.1	99.6	34.7	At3g45960	823739	ATEXLA3 (arabidopsis thaliana expansin-like a3)	member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)	O.I.	C.G.	H.G.
20.7	99.6	96.1	At3g23730	821955	xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative	F:hydrolase activity, acting on glycosyl bonds, hydrolase activity, hydrolyzing O-glycosyl compounds, xyloglucan:xyloglucosyl transferase activity;P:carbohydrate metabolic process, cellular glucan metabolic process;C:endomembrane system, cell wall, apoplast;PFBO	O.I.	C.G.	H.G.
20.5	99.6	54.6	At4g21650	828252	subtilase family protein	F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:plant-type cell wall;BPOFAM	O.I.	C.G.	H.G.
20.5	99.6	36.4	At4g38400	829997	ATEXLA2 (ARABIDOPSIS THALIANA EXPANSIN-LIKE A2)	member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)	O.I.	C.G.	H.G.
19.2	99.6	66.8	At2g03200	814849	aspartyl protease family protein	F:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;PFMO	O.I.	C.G.	H.G.
18.9	99.5	13.0	At1g09610	837488	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB	O.I.	C.G.	H.G.
18.6	99.5	49.4	At5g15630	831417	IRX6	Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars.	O.I.	C.G.	H.G.
17.9	99.5	46.5	At1g78970	844237	LUP1 (LUPEOL SYNTHASE 1)	Lupeol synthase. Converts oxidosqualene to multiple triterpene alcohols and a triterpene diols. This conversion proceeds through the formation of a 17β-dammarenyl cation.	O.I.	C.G.	H.G.
17.7	99.5	37.2	At2g24330	816969	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO	O.I.	C.G.	H.G.
16.7	99.5	76.6	At2g42320	818833	nucleolar protein gar2-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVA	O.I.	C.G.	H.G.
16.5	99.5	644.4	At2g06850	815247	EXGT-A1 (ENDOXYLOGLUCAN TRANSFERASE)	endoxyloglucan transferase (EXGT-A1) gene	O.I.	C.G.	H.G.
16.5	99.5	11.2	At1g66960	843014	lupeol synthase, putative / 2,3-oxidosqualene-triterpenoid cyclase, putative	F:lupeol synthase activity;P:pentacyclic triterpenoid biosynthetic process;C:unknown;BPOFM	O.I.	C.G.	H.G.
16.3	99.5	52.8	At3g62020	825375	GLP10 (GERMIN-LIKE PROTEIN 10)	germin-like protein (GLP10)	O.I.	C.G.	H.G.
16.1	99.5	36.5	At5g58310	835943	MES18 (METHYL ESTERASE 18)	Encodes a protein shown to have methyl IAA esterase activity in vitro. This protein does not act on methyl JA, MeSA, MeGA4, or MEGA9 in vitro.	O.I.	C.G.	H.G.
15.9	99.5	57.1	At4g27435	828852	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
15.9	99.5	29.3	At5g01360	830298	-	F:unknown;P:unknown;C:unknown;PMF	O.I.	C.G.	H.G.
14.5	99.4	85.7	At5g06700	830559	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPVA	O.I.	C.G.	H.G.
13.9	99.4	22.3	At3g50220	824184	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;POB	O.I.	C.G.	H.G.
13.6	99.4	84.8	At1g17620	838339	-	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;P	O.I.	C.G.	H.G.
13.6	99.4	58.5	At3g27960	822420	kinesin light chain-related	F:binding;P:biological_process unknown;C:plasma membrane;MBOFPAV	O.I.	C.G.	H.G.
13.6	99.4	45.8	At2g33570	817922	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;PMBOA	O.I.	C.G.	H.G.
13.4	99.4	160.2	At4g19120	827650	ERD3 (early-responsive to dehydration 3)	F:unknown;P:response to water deprivation;C:cellular_component unknown;PBOAF	O.I.	C.G.	H.G.
13.1	99.4	33.5	At5g40020	833999	pathogenesis-related thaumatin family protein	F:molecular_function unknown;P:response to other organism;C:endomembrane system;PFMBO	O.I.	C.G.	H.G.
12.8	99.3	120.8	At5g11070	830974	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
12.7	99.3	52.9	At2g28760	817426	NAD-dependent epimerase/dehydratase family protein	F:coenzyme binding, binding, catalytic activity;P:cellular metabolic process, nucleotide-sugar metabolic process, metabolic process;C:plasma membrane;OBPMAFV	O.I.	C.G.	H.G.
12.4	99.3	41.2	At5g54690	835558	GAUT12 (GALACTURONOSYLTRANSFERASE 12)	Encodes a protein with putative galacturonosyltransferase activity. Mutants defective in this gene displayed a notable reduction in xylose (>50%) in the cell walls from stems and roots and a reduction in cellulose (~25%).	O.I.	C.G.	H.G.
12.2	99.3	717.8	At1g55330	841979	AGP21	Encodes a putative arabinogalactan-protein (AGP21).	O.I.	C.G.	H.G.
12.0	99.3	68.4	At2g12400	815712	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POM	O.I.	C.G.	H.G.
11.7	99.3	5.8	At3g61910	825364	ANAC066 (ARABIDOPSIS NAC DOMAIN PROTEIN 66)	NAC transcription factor NST2. NST1 and NST2 are redundant in regulating secondary wall thickening in anther walls. NST2 promoter was particularly strong in anther tissue.	O.I.	C.G.	H.G.
11.6	99.3	58.0	At3g12110	820385	ACT11 (actin-11)	Encodes an actin that is expressed predominantly during reproductive development.	O.I.	C.G.	H.G.
11.5	99.3	21.4	At1g56720	842128	protein kinase family protein	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA	O.I.	C.G.	H.G.
11.0	99.2	110.9	At2g14900	815979	gibberellin-regulated family protein	F:molecular_function unknown;P:response to gibberellin stimulus;C:endomembrane system;P	O.I.	C.G.	H.G.
10.8	99.2	25.6	At5g57000	835802	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFB	O.I.	C.G.	H.G.
10.7	99.2	30.6	At2g37090	818285	IRX9 (IRREGULAR XYLEM 9)	The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis.	O.I.	C.G.	H.G.
10.7	99.2	18.8	At2g23360	816868	transport protein-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPAV	O.I.	C.G.	H.G.
10.5	99.2	117.6	At1g02205	837602	CER1 (ECERIFERUM 1)	Expression of the CER1 gene associated with production of stem epicuticular wax and pollen fertility. Biochemical studies showed that cer1 mutants are blocked in the conversion of stem wax C30 aldehydes to C29 alkanes, and they also lack the secondary alcohols and ketones. These suggested the CER1 protein is a aldehyde decarbonylase.	O.I.	C.G.	H.G.
10.5	99.2	60.7	At1g43790	840976	TED6 (TRACHEARY ELEMENT DIFFERENTIATION-RELATED 6)	F:molecular_function unknown;P:secondary cell wall biogenesis;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.5	99.2	5.4	At5g46115	834653	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.4	99.2	13.6	At1g13670	837928	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.2	99.2	565.7	At3g05880	819757	RCI2A (RARE-COLD-INDUCIBLE 2A)	Induced by low temperatures, dehydration and salt stress and ABA. Encodes a small (54 amino acids), highly hydrophobic protein that bears two potential transmembrane domains.	O.I.	C.G.	H.G.
10.2	99.2	281.4	At2g14890	815978	AGP9 (ARABINOGALACTAN PROTEIN 9)	putative proline-rich protein (At2g14890) mRNA, complete	O.I.	C.G.	H.G.
10.0	99.2	21.5	At5g46330	834676	FLS2 (FLAGELLIN-SENSITIVE 2)	Encodes a leucine-rich repeat serine/threonine protein kinase that is expressed ubiquitously. FLS2 is involved in MAP kinase signalling relay involved in innate immunity. Essential in the perception of flagellin, a potent elicitor of the defense response. FLS2 is directed for degradation by the bacterial ubiquitin ligase AvrPtoB.	O.I.	C.G.	H.G.
9.9	99.1	66.1	At4g22590	828355	trehalose-6-phosphate phosphatase, putative	F:catalytic activity, trehalose-phosphatase activity;P:trehalose biosynthetic process, metabolic process;C:chloroplast;BPMOFA	O.I.	C.G.	H.G.
9.9	99.1	23.5	At5g06930	830584	-	F:unknown;P:unknown;C:chloroplast;OMBFPVA	O.I.	C.G.	H.G.
9.9	99.1	20.3	At2g40480	818643	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPBFV	O.I.	C.G.	H.G.
9.8	99.1	175.1	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.
9.8	99.1	16.1	At1g64760	842784	glycosyl hydrolase family 17 protein	F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:anchored to plasma membrane, plasma membrane, anchored to membrane;PFOB	O.I.	C.G.	H.G.
9.8	99.1	11.3	At4g28500	828968	ANAC073 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 73)	F:transcription factor activity, transcription activator activity;P:multicellular organismal development, regulation of secondary cell wall thickening;C:nucleus;PO	O.I.	C.G.	H.G.
9.7	99.1	4.0	At3g60940	825265	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMO	O.I.	C.G.	H.G.
9.6	99.1	33.2	At3g59845	825154	NADP-dependent oxidoreductase, putative	F:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:response to oxidative stress;C:unknown;BOFMPA	O.I.	C.G.	H.G.
9.5	99.1	36.9	At1g29510	839828	SAUR68 (SMALL AUXIN UPREGULATED 68)	F:molecular_function unknown;P:response to auxin stimulus;C:unknown;P	O.I.	C.G.	H.G.
9.3	99.1	12.1	At5g59305	836049	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
9.2	99.1	441.0	At5g20250	832147	DIN10 (DARK INDUCIBLE 10)	encodes a member of glycosyl hydrolase family 36. 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.
9.2	99.1	76.6	At4g27720	828886	-	F:unknown;P:unknown;C:plasma membrane;BPMOFA	O.I.	C.G.	H.G.
9.1	99.1	93.9	At3g28180	822444	ATCSLC04 (CELLULOSE-SYNTHASE LIKE C4)	encodes a gene similar to cellulose synthase	O.I.	C.G.	H.G.
9.0	99.1	25.3	At1g50040	841428	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMBV	O.I.	C.G.	H.G.
9.0	99.1	21.6	At1g26730	839214	EXS family protein / ERD1/XPR1/SYG1 family protein	F:unknown;P:unknown;C:integral to membrane, plasma membrane;FMPOB	O.I.	C.G.	H.G.
8.8	99.0	70.0	At5g18670	831985	BMY3	putative beta-amylase BMY3 (BMY3)	O.I.	C.G.	H.G.
8.7	99.0	90.3	At5g53370	835418	PMEPCRF (PECTIN METHYLESTERASE PCR FRAGMENT F)	F:pectinesterase activity;P:cell wall modification;C:cell wall;PBFMO	O.I.	C.G.	H.G.

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GSM ID	GSM128787
Assay name	Somerville_1-10_stem-GH7_Rep1_ATH1
GSE experiment	GSE5533: Tissue Type Arrays of Columbia-0

Microarray experiments to specifically-expressed genes

GSM ID GSM128787 Assay name Somerville_1-10_stem-GH7_Rep1_ATH1 GSE experiment GSE5533: Tissue Type Arrays of Columbia-0

GSM ID GSM128787

Assay name Somerville_1-10_stem-GH7_Rep1_ATH1

GSE experiment GSE5533: Tissue Type Arrays of Columbia-0