CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM142661

Assay name MB002_ATH1_A1-Eland-ch1

GSE experiment GSE6153: Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis

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
262.4 100.0 64.5 At5g59305 836049 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
189.6 100.0 55.9 At4g37970 829953 CAD6 (CINNAMYL ALCOHOL DEHYDROGENASE 6) F:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:oxidation reduction, metabolic process;C:cellular_component unknown;BOPFMAV O.I. C.G. H.G.
159.6 99.9 51.3 At5g03680 831757 PTL (PETAL LOSS) Recessive mutations are defective in organ initiation and orientation in the second whorl. This gene encodes a trihelix transcription factor whose expression is limited to margins of floral and vegetative organs. Overexpression and double mutant analyses suggest that this gene is involved in limiting lateral growth of organs. O.I. C.G. H.G.
139.7 99.9 316.2 At1g14890 838054 enzyme inhibitor/ pectinesterase/ pectinesterase inhibitor F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
135.0 99.9 69.3 At1g78815 844218 LSH7 (LIGHT SENSITIVE HYPOCOTYLS 7) F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PM O.I. C.G. H.G.
121.4 99.9 264.7 At5g65040 836628 senescence-associated protein-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
104.9 99.9 237.9 At1g67750 843100 pectate lyase family protein F:pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFO O.I. C.G. H.G.
103.8 99.9 284.3 At3g54260 824593 unknown protein F:unknown;P:biological_process unknown;C:endomembrane system;PM O.I. C.G. H.G.
103.1 99.9 42.5 At3g04510 819607 LSH2 (LIGHT SENSITIVE HYPOCOTYLS 2) F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PM O.I. C.G. H.G.
103.0 99.9 49.3 At2g37900 818366 proton-dependent oligopeptide transport (POT) family protein F:transporter activity;P:oligopeptide transport;C:membrane;BPMOF O.I. C.G. H.G.
99.3 99.9 68.1 At2g20550 816577 DNAJ chaperone C-terminal domain-containing protein F:unfolded protein binding;P:protein folding;C:cellular_component unknown;BOMFPAV O.I. C.G. H.G.
97.5 99.9 66.6 At5g63580 836477 FLS2 (FLAVONOL SYNTHASE 2) encodes a protein whose sequence is similar to flavonol synthase O.I. C.G. H.G.
96.4 99.9 140.0 At1g62360 842534 STM (SHOOT MERISTEMLESS) Class I knotted-like homeodomain protein that is required for shoot apical meristem (SAM) formation during embryogenesis and for SAM function throughout the lifetime of the plant. Functions by preventing incorporation of cells in the meristem center into differentiating organ primordia. O.I. C.G. H.G.
85.7 99.9 54.4 At5g44350 834461 ethylene-responsive nuclear protein -related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB O.I. C.G. H.G.
82.3 99.9 75.1 At1g46264 841110 AT-HSFB4 member of Heat Stress Transcription Factor (Hsf) family O.I. C.G. H.G.
80.8 99.9 268.0 At4g29080 829029 PAP2 (PHYTOCHROME-ASSOCIATED PROTEIN 2) phytochrome-associated protein 2 (PAP2) O.I. C.G. H.G.
79.7 99.9 53.7 At1g69230 843254 SP1L2 (SPIRAL1-LIKE2) SPIRAL1-LIKE2 belongs to a six-member gene family in Arabidopsis; all members share a high sequence similarity in amino- and carboxy-terminal regions. Regulates cortical microtubule organization. Mutant plants exhibit altered patterns of root and organ growth as a result of defective anisotropic cell expansion. O.I. C.G. H.G.
72.4 99.9 107.8 At3g06130 819786 heavy-metal-associated domain-containing protein F:metal ion binding;P:metal ion transport;C:cell wall;MBOPFVA O.I. C.G. H.G.
69.8 99.9 86.7 At5g11930 831066 glutaredoxin family protein F:electron carrier activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:unknown;PMBO O.I. C.G. H.G.
69.2 99.9 44.0 At3g13810 820593 AtIDD11 (Arabidopsis thaliana Indeterminate(ID)-Domain 11) F:transcription factor activity, zinc ion binding, nucleic acid binding;P:regulation of transcription;C:intracellular;MOPFB O.I. C.G. H.G.
66.2 99.8 234.6 At3g45160 823652 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
62.9 99.8 75.1 At5g66180 836750 - F:unknown;P:unknown;C:cellular_component unknown;BOMAFP O.I. C.G. H.G.
61.2 99.8 124.5 At5g44400 834466 FAD-binding domain-containing protein F:electron carrier activity, oxidoreductase activity, FAD binding, catalytic activity;P:unknown;C:cell wall;BFOPAM O.I. C.G. H.G.
61.0 99.8 129.2 At1g19330 838515 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO O.I. C.G. H.G.
60.2 99.8 61.5 At1g66400 842958 calmodulin-related protein, putative F:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;MFPOBV O.I. C.G. H.G.
59.1 99.8 105.5 At1g49320 841355 BURP domain-containing protein F:molecular_function unknown;P:unknown;C:endomembrane system;P O.I. C.G. H.G.
57.5 99.8 32.1 At1g16530 838223 ASL9 (ASYMMETRIC LEAVES 2 LIKE 9) F:unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
57.2 99.8 51.4 At3g25560 822143 NIK2 (NSP-INTERACTING KINASE 2) F:protein binding, protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVA O.I. C.G. H.G.
55.5 99.8 24.3 At2g35700 818139 ERF38 (ERF FAMILY PROTEIN 38) encodes a member of the DREB subfamily A-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 17 members in this subfamily including TINY. Thought to be involved in secondary cell wall metabolism. O.I. C.G. H.G.
55.4 99.8 115.4 At5g10140 830878 FLC (FLOWERING LOCUS C) MADS-box protein encoded by FLOWERING LOCUS C - transcription factor that functions as a repressor of floral transition and contributes to temperature compensation of the circadian clock. Expression is downregulated during cold treatment. Vernalization, FRI and the autonomous pathway all influence the state of FLC chromatin. Both maternal and paternal alleles are reset by vernalization, but their earliest activation differs in timing and location. Histone H3 trimethylation at lysine 4 and histone acetylation are associated with active FLC expression, whereas histone deacetylation and histone H3 dimethylation at lysines 9 and 27 are involved in FLC repression. Expression is also repressed by two small RNAs (30- and 24-nt) complementary to the FLC sense strand 3� to the polyA site. The small RNAs are most likely derived from an antisense transcript of FLC. Interacts with SOC1 and FT chromatin in vivo. Member of a protein complex. O.I. C.G. H.G.
54.6 99.8 152.9 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.
54.5 99.8 18.0 At1g77400 844076 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFBV O.I. C.G. H.G.
54.3 99.8 208.2 At2g42610 818861 LSH10 (LIGHT SENSITIVE HYPOCOTYLS 10) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. C.G. H.G.
53.9 99.8 331.0 At5g48485 834904 DIR1 (DEFECTIVE IN INDUCED RESISTANCE 1) encodes a putative apoplastic lipid transfer protein that is involved in systemic acquired resistance. Mutants in this gene exhibit wild-type local resistance to avirulent and virulent Pseudomonas syringae, but pathogenesis-related gene expression is abolished in uninoculated distant leaves and fail to develop SAR to virulent Pseudomonas or Peronospora parasitica. O.I. C.G. H.G.
53.4 99.8 41.1 At4g22160 828305 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
53.1 99.8 23.1 At3g02500 821065 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
52.6 99.8 43.0 At1g28390 839736 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.
51.8 99.8 141.5 At1g78490 844185 CYP708A3 member of CYP708A O.I. C.G. H.G.
50.6 99.8 89.2 At2g04800 815024 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P O.I. C.G. H.G.
48.8 99.8 37.7 At2g01990 814730 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
48.6 99.8 17.8 At3g62740 825449 BGLU7 (BETA GLUCOSIDASE 7) F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFA O.I. C.G. H.G.
48.3 99.8 115.7 At4g15780 827258 ATVAMP724 member of VAMP72 Gene Family O.I. C.G. H.G.
47.9 99.8 126.6 At4g08150 826364 KNAT1 (KNOTTED-LIKE FROM ARABIDOPSIS THALIANA) A member of class I knotted1-like homeobox gene family (together with KNAT2). Similar to the knotted1 (kn1) homeobox gene of maize. Normally expressed in the peripheral and rib zone of shoot apical meristem but not in the leaf primordia. It is also expressed in the fourth floral whorl, in the region that would become style, particularly in the cell surrounding the transmitting tissue. No expression was detected in the first three floral whorls. Expression is repressed by auxin and AS1 which results in the promotion of leaf fate. O.I. C.G. H.G.
47.2 99.8 47.2 At2g37300 818307 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OFPMB O.I. C.G. H.G.
47.1 99.8 31.9 At1g03620 839448 phagocytosis and cell motility protein ELMO1-related F:molecular_function unknown;P:phagocytosis;C:cytoskeleton;MPOF O.I. C.G. H.G.
46.4 99.8 236.2 At1g27030 839592 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOP O.I. C.G. H.G.
45.6 99.8 24.1 At1g30160 839896 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
44.0 99.8 81.9 At1g60590 842353 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:unknown;FPBMOVA O.I. C.G. H.G.
43.9 99.8 64.6 At3g10190 820181 calmodulin, putative F:calcium ion binding;P:biological_process unknown;C:plasma membrane;MPFOB O.I. C.G. H.G.
43.8 99.8 70.6 At1g10480 837588 ZFP5 (ZINC FINGER PROTEIN 5) Encodes a zinc finger protein containing only a single zinc finger. O.I. C.G. H.G.
43.3 99.8 126.4 At5g65640 836690 bHLH093 (beta HLH protein 93) F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFO O.I. C.G. H.G.
43.2 99.8 30.8 At5g48800 834938 phototropic-responsive NPH3 family protein F:protein binding, signal transducer activity;P:response to light stimulus;C:plasma membrane;P O.I. C.G. H.G.
42.5 99.8 74.3 At2g21650 816703 MEE3 (MATERNAL EFFECT EMBRYO ARREST 3) F:transcription factor activity, DNA binding;P:embryonic development ending in seed dormancy, regulation of transcription, DNA-dependent;C:unknown;PMO O.I. C.G. H.G.
40.7 99.8 75.5 At2g18560 816371 UDP-glucoronosyl/UDP-glucosyl transferase family protein F:UDP-glycosyltransferase activity, transferase activity, transferring glycosyl groups;P:metabolic process;C:cellular_component unknown;PMBOVF O.I. C.G. H.G.
40.4 99.8 124.2 At5g13140 831153 - F:molecular_function unknown;P:biological_process unknown;C:unknown;PMO O.I. C.G. H.G.
40.2 99.8 67.9 At4g01390 828075 - F:molecular_function unknown;P:biological_process unknown;C:unknown;PO O.I. C.G. H.G.
40.2 99.8 44.9 At3g23295 - - O.I. C.G. H.G.
39.5 99.8 32.9 At1g03760 839119 prefoldin subunit family protein F:unfolded protein binding;P:protein folding;C:prefoldin complex;MOPAFBV O.I. C.G. H.G.
39.4 99.8 45.8 At1g30840 839967 ATPUP4 Member of a family of proteins related to PUP1, a purine transporter. May be involved in the transport of purine and purine derivatives such as cytokinins, across the plasma membrane. O.I. C.G. H.G.
39.1 99.8 19.5 At5g06510 830539 NF-YA10 (NUCLEAR FACTOR Y, SUBUNIT A10) F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:CCAAT-binding factor complex, nucleus;PMFO O.I. C.G. H.G.
38.8 99.8 89.8 At3g23290 821908 - - O.I. C.G. H.G.
38.3 99.8 127.5 At4g30020 829125 subtilase family protein F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:endomembrane system, cell wall, membrane;BPOFAM O.I. C.G. H.G.
37.9 99.8 40.3 At2g37330 818310 ALS3 (ALUMINUM SENSITIVE 3) Encodes an ABC transporter-like protein, without an ATPase domain, required for aluminum (Al) resistance/tolerance and may function to redistribute accumulated Al away from sensitive tissues in order to protect the growing root from the toxic effects of Al. O.I. C.G. H.G.
37.7 99.7 38.9 At2g31160 817672 LSH3 (LIGHT SENSITIVE HYPOCOTYLS 3) F:molecular_function unknown;P:biological_process unknown;C:unknown;PM O.I. C.G. H.G.
37.2 99.7 82.1 At3g07360 819924 PUB9 (PLANT U-BOX 9) Encodes a protein containing a U-box and an ARM domain. This protein has E3 ubiquitin ligase activity based on in vitro assays. O.I. C.G. H.G.
37.1 99.7 43.7 At4g17880 827511 basic helix-loop-helix (bHLH) family protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFOVB O.I. C.G. H.G.
36.8 99.7 44.9 At3g19370 821471 - F:unknown;P:unknown;C:plasma membrane;MOBFPAV O.I. C.G. H.G.
36.6 99.7 27.4 At3g54430 824609 SRS6 (SHI-RELATED SEQUENCE 6) A member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis. O.I. C.G. H.G.
35.9 99.7 91.0 At4g27654 828878 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
35.9 99.7 36.4 At5g28490 832941 LSH1 (LIGHT-DEPENDENT SHORT HYPOCOTYLS 1) Encodes a nuclear protein that mediates light regulation of seedling development in a phytochrome-dependent manner. O.I. C.G. H.G.
35.8 99.7 9.9 At5g46115 834653 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
35.5 99.7 85.0 At3g49360 824098 glucosamine/galactosamine-6-phosphate isomerase family protein F:6-phosphogluconolactonase activity, catalytic activity;P:pentose-phosphate shunt, carbohydrate metabolic process;C:plasma membrane;BOFMP O.I. C.G. H.G.
35.5 99.7 73.6 At1g47670 841177 amino acid transporter family protein F:amino acid transmembrane transporter activity;P:amino acid transport;C:plasma membrane, membrane;PMFOB O.I. C.G. H.G.
35.5 99.7 70.2 At2g36570 818230 leucine-rich repeat transmembrane protein kinase, putative F:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane;PMOBFVA O.I. C.G. H.G.
35.5 99.7 56.3 At3g21270 821681 ADOF2 Encodes Dof zinc finger protein adof2. O.I. C.G. H.G.
35.2 99.7 20.9 At1g49830 841406 ethylene-responsive protein -related F:transcription regulator activity;P:regulation of transcription;C:nucleus;P O.I. C.G. H.G.
35.2 99.7 18.4 At5g35450 833508 disease resistance protein (CC-NBS-LRR class), putative F:ATP binding;P:defense response, apoptosis;C:plasma membrane;PBMOFA O.I. C.G. H.G.
35.0 99.7 148.4 At1g80530 844392 nodulin family protein F:molecular_function unknown;P:biological_process unknown;C:nucleus;BPOFMA O.I. C.G. H.G.
35.0 99.7 138.9 At2g33620 817928 DNA-binding family protein / AT-hook protein 1 (AHP1) F:DNA binding;P:unknown;C:cytosol;PBMO O.I. C.G. H.G.
35.0 99.7 26.4 At1g69080 843240 universal stress protein (USP) family protein F:molecular_function unknown;P:response to stress;C:unknown;PM O.I. C.G. H.G.
34.7 99.7 66.1 At1g01070 839550 nodulin MtN21 family protein F:unknown;P:unknown;C:membrane;BPOAFM O.I. C.G. H.G.
34.1 99.7 33.0 At4g35240 829677 unknown protein F:unknown;P:N-terminal protein myristoylation;C:plasma membrane;PMFOBV O.I. C.G. H.G.
33.1 99.7 73.6 At3g13980 820612 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPFBV O.I. C.G. H.G.
32.8 99.7 92.5 At3g24770 822075 CLE41 (CLAVATA3/ESR-RELATED 41) Belongs to a large gene family, called CLE for CLAVATA3/ESR-related, encoding small peptides with conserved carboxyl termini. The C-terminal 12 amino acid sequence of CLE41 is identical to that of a dodeca peptide (TDIF, tracheary element differentiation inhibitory factor) isolated from Arabidopsis and functions as a suppressor of plant stem cell differentiation. TDIF sequence is also identical to the C-terminal 12 amino acids of CLE44 (At4g13195). O.I. C.G. H.G.
32.8 99.7 9.2 At1g05370 837038 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPMO O.I. C.G. H.G.
32.1 99.7 42.8 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.
31.9 99.7 87.1 At2g29970 817547 heat shock protein-related F:unknown;P:unknown;C:cellular_component unknown;BOPFAM O.I. C.G. H.G.
31.6 99.7 36.8 At2g37280 818305 PDR5 (PLEIOTROPIC DRUG RESISTANCE 5) F:ATPase activity, coupled to transmembrane movement of substances;P:multidrug transport;C:plasma membrane;BOMAFPV O.I. C.G. H.G.
31.2 99.7 210.7 At3g22440 821815 hydroxyproline-rich glycoprotein family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOB O.I. C.G. H.G.
31.2 99.7 71.1 At1g01640 839534 speckle-type POZ protein-related F:protein binding;P:biological_process unknown;C:cellular_component unknown;MPOVF O.I. C.G. H.G.
30.9 99.7 106.2 At5g59440 836063 ZEU1 (ZEUS1) Encodes thymidylate kinase which exists in two isoforms in plants. The longer variant of 263 amino acids with a N-terminal extension that is required for localization to the mitochondrion. The second isoform of 224 residues is localized to the cytoplasm and nucleoplasm. Peak of expression occurs during G1/S phase transition. O.I. C.G. H.G.
30.5 99.7 30.2 At1g71960 843527 ABC transporter family protein F:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:membrane;BOMFAPV O.I. C.G. H.G.
30.3 99.7 63.1 At5g05640 830447 nucleoprotein-related F:molecular_function unknown;P:biological_process unknown;C:membrane;VP O.I. C.G. H.G.
30.0 99.7 96.1 At2g43800 818984 formin homology 2 domain-containing protein / FH2 domain-containing protein F:actin binding;P:cellular component organization, actin cytoskeleton organization;C:plasma membrane;MPFOBVA O.I. C.G. H.G.
29.7 99.7 22.6 At1g22490 838855 basic helix-loop-helix (bHLH) family protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFO O.I. C.G. H.G.
29.7 99.7 10.9 At5g66630 836795 DAR5 (DA1-RELATED PROTEIN 5) F:zinc ion binding;P:unknown;C:unknown;PMOBF O.I. C.G. H.G.
29.6 99.7 55.5 At2g32860 817847 BGLU33 (BETA GLUCOSIDASE 33) F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFA O.I. C.G. H.G.
29.5 99.7 110.2 At1g13380 837898 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
29.4 99.7 96.0 At5g54980 835589 integral membrane family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
29.2 99.7 25.5 At5g42060 834211 unknown protein F:unknown;P:unknown;C:cellular_component unknown;P 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.
262.4	100.0	64.5	At5g59305	836049	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
189.6	100.0	55.9	At4g37970	829953	CAD6 (CINNAMYL ALCOHOL DEHYDROGENASE 6)	F:oxidoreductase activity, binding, catalytic activity, zinc ion binding;P:oxidation reduction, metabolic process;C:cellular_component unknown;BOPFMAV	O.I.	C.G.	H.G.
159.6	99.9	51.3	At5g03680	831757	PTL (PETAL LOSS)	Recessive mutations are defective in organ initiation and orientation in the second whorl. This gene encodes a trihelix transcription factor whose expression is limited to margins of floral and vegetative organs. Overexpression and double mutant analyses suggest that this gene is involved in limiting lateral growth of organs.	O.I.	C.G.	H.G.
139.7	99.9	316.2	At1g14890	838054	enzyme inhibitor/ pectinesterase/ pectinesterase inhibitor	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
135.0	99.9	69.3	At1g78815	844218	LSH7 (LIGHT SENSITIVE HYPOCOTYLS 7)	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PM	O.I.	C.G.	H.G.
121.4	99.9	264.7	At5g65040	836628	senescence-associated protein-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
104.9	99.9	237.9	At1g67750	843100	pectate lyase family protein	F:pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFO	O.I.	C.G.	H.G.
103.8	99.9	284.3	At3g54260	824593	unknown protein	F:unknown;P:biological_process unknown;C:endomembrane system;PM	O.I.	C.G.	H.G.
103.1	99.9	42.5	At3g04510	819607	LSH2 (LIGHT SENSITIVE HYPOCOTYLS 2)	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PM	O.I.	C.G.	H.G.
103.0	99.9	49.3	At2g37900	818366	proton-dependent oligopeptide transport (POT) family protein	F:transporter activity;P:oligopeptide transport;C:membrane;BPMOF	O.I.	C.G.	H.G.
99.3	99.9	68.1	At2g20550	816577	DNAJ chaperone C-terminal domain-containing protein	F:unfolded protein binding;P:protein folding;C:cellular_component unknown;BOMFPAV	O.I.	C.G.	H.G.
97.5	99.9	66.6	At5g63580	836477	FLS2 (FLAVONOL SYNTHASE 2)	encodes a protein whose sequence is similar to flavonol synthase	O.I.	C.G.	H.G.
96.4	99.9	140.0	At1g62360	842534	STM (SHOOT MERISTEMLESS)	Class I knotted-like homeodomain protein that is required for shoot apical meristem (SAM) formation during embryogenesis and for SAM function throughout the lifetime of the plant. Functions by preventing incorporation of cells in the meristem center into differentiating organ primordia.	O.I.	C.G.	H.G.
85.7	99.9	54.4	At5g44350	834461	ethylene-responsive nuclear protein -related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB	O.I.	C.G.	H.G.
82.3	99.9	75.1	At1g46264	841110	AT-HSFB4	member of Heat Stress Transcription Factor (Hsf) family	O.I.	C.G.	H.G.
80.8	99.9	268.0	At4g29080	829029	PAP2 (PHYTOCHROME-ASSOCIATED PROTEIN 2)	phytochrome-associated protein 2 (PAP2)	O.I.	C.G.	H.G.
79.7	99.9	53.7	At1g69230	843254	SP1L2 (SPIRAL1-LIKE2)	SPIRAL1-LIKE2 belongs to a six-member gene family in Arabidopsis; all members share a high sequence similarity in amino- and carboxy-terminal regions. Regulates cortical microtubule organization. Mutant plants exhibit altered patterns of root and organ growth as a result of defective anisotropic cell expansion.	O.I.	C.G.	H.G.
72.4	99.9	107.8	At3g06130	819786	heavy-metal-associated domain-containing protein	F:metal ion binding;P:metal ion transport;C:cell wall;MBOPFVA	O.I.	C.G.	H.G.
69.8	99.9	86.7	At5g11930	831066	glutaredoxin family protein	F:electron carrier activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:unknown;PMBO	O.I.	C.G.	H.G.
69.2	99.9	44.0	At3g13810	820593	AtIDD11 (Arabidopsis thaliana Indeterminate(ID)-Domain 11)	F:transcription factor activity, zinc ion binding, nucleic acid binding;P:regulation of transcription;C:intracellular;MOPFB	O.I.	C.G.	H.G.
66.2	99.8	234.6	At3g45160	823652	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
62.9	99.8	75.1	At5g66180	836750	-	F:unknown;P:unknown;C:cellular_component unknown;BOMAFP	O.I.	C.G.	H.G.
61.2	99.8	124.5	At5g44400	834466	FAD-binding domain-containing protein	F:electron carrier activity, oxidoreductase activity, FAD binding, catalytic activity;P:unknown;C:cell wall;BFOPAM	O.I.	C.G.	H.G.
61.0	99.8	129.2	At1g19330	838515	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	C.G.	H.G.
60.2	99.8	61.5	At1g66400	842958	calmodulin-related protein, putative	F:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;MFPOBV	O.I.	C.G.	H.G.
59.1	99.8	105.5	At1g49320	841355	BURP domain-containing protein	F:molecular_function unknown;P:unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
57.5	99.8	32.1	At1g16530	838223	ASL9 (ASYMMETRIC LEAVES 2 LIKE 9)	F:unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
57.2	99.8	51.4	At3g25560	822143	NIK2 (NSP-INTERACTING KINASE 2)	F:protein binding, protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVA	O.I.	C.G.	H.G.
55.5	99.8	24.3	At2g35700	818139	ERF38 (ERF FAMILY PROTEIN 38)	encodes a member of the DREB subfamily A-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 17 members in this subfamily including TINY. Thought to be involved in secondary cell wall metabolism.	O.I.	C.G.	H.G.
55.4	99.8	115.4	At5g10140	830878	FLC (FLOWERING LOCUS C)	MADS-box protein encoded by FLOWERING LOCUS C - transcription factor that functions as a repressor of floral transition and contributes to temperature compensation of the circadian clock. Expression is downregulated during cold treatment. Vernalization, FRI and the autonomous pathway all influence the state of FLC chromatin. Both maternal and paternal alleles are reset by vernalization, but their earliest activation differs in timing and location. Histone H3 trimethylation at lysine 4 and histone acetylation are associated with active FLC expression, whereas histone deacetylation and histone H3 dimethylation at lysines 9 and 27 are involved in FLC repression. Expression is also repressed by two small RNAs (30- and 24-nt) complementary to the FLC sense strand 3� to the polyA site. The small RNAs are most likely derived from an antisense transcript of FLC. Interacts with SOC1 and FT chromatin in vivo. Member of a protein complex.	O.I.	C.G.	H.G.
54.6	99.8	152.9	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.
54.5	99.8	18.0	At1g77400	844076	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFBV	O.I.	C.G.	H.G.
54.3	99.8	208.2	At2g42610	818861	LSH10 (LIGHT SENSITIVE HYPOCOTYLS 10)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	C.G.	H.G.
53.9	99.8	331.0	At5g48485	834904	DIR1 (DEFECTIVE IN INDUCED RESISTANCE 1)	encodes a putative apoplastic lipid transfer protein that is involved in systemic acquired resistance. Mutants in this gene exhibit wild-type local resistance to avirulent and virulent Pseudomonas syringae, but pathogenesis-related gene expression is abolished in uninoculated distant leaves and fail to develop SAR to virulent Pseudomonas or Peronospora parasitica.	O.I.	C.G.	H.G.
53.4	99.8	41.1	At4g22160	828305	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
53.1	99.8	23.1	At3g02500	821065	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
52.6	99.8	43.0	At1g28390	839736	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.
51.8	99.8	141.5	At1g78490	844185	CYP708A3	member of CYP708A	O.I.	C.G.	H.G.
50.6	99.8	89.2	At2g04800	815024	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P	O.I.	C.G.	H.G.
48.8	99.8	37.7	At2g01990	814730	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
48.6	99.8	17.8	At3g62740	825449	BGLU7 (BETA GLUCOSIDASE 7)	F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFA	O.I.	C.G.	H.G.
48.3	99.8	115.7	At4g15780	827258	ATVAMP724	member of VAMP72 Gene Family	O.I.	C.G.	H.G.
47.9	99.8	126.6	At4g08150	826364	KNAT1 (KNOTTED-LIKE FROM ARABIDOPSIS THALIANA)	A member of class I knotted1-like homeobox gene family (together with KNAT2). Similar to the knotted1 (kn1) homeobox gene of maize. Normally expressed in the peripheral and rib zone of shoot apical meristem but not in the leaf primordia. It is also expressed in the fourth floral whorl, in the region that would become style, particularly in the cell surrounding the transmitting tissue. No expression was detected in the first three floral whorls. Expression is repressed by auxin and AS1 which results in the promotion of leaf fate.	O.I.	C.G.	H.G.
47.2	99.8	47.2	At2g37300	818307	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OFPMB	O.I.	C.G.	H.G.
47.1	99.8	31.9	At1g03620	839448	phagocytosis and cell motility protein ELMO1-related	F:molecular_function unknown;P:phagocytosis;C:cytoskeleton;MPOF	O.I.	C.G.	H.G.
46.4	99.8	236.2	At1g27030	839592	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOP	O.I.	C.G.	H.G.
45.6	99.8	24.1	At1g30160	839896	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
44.0	99.8	81.9	At1g60590	842353	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:unknown;FPBMOVA	O.I.	C.G.	H.G.
43.9	99.8	64.6	At3g10190	820181	calmodulin, putative	F:calcium ion binding;P:biological_process unknown;C:plasma membrane;MPFOB	O.I.	C.G.	H.G.
43.8	99.8	70.6	At1g10480	837588	ZFP5 (ZINC FINGER PROTEIN 5)	Encodes a zinc finger protein containing only a single zinc finger.	O.I.	C.G.	H.G.
43.3	99.8	126.4	At5g65640	836690	bHLH093 (beta HLH protein 93)	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFO	O.I.	C.G.	H.G.
43.2	99.8	30.8	At5g48800	834938	phototropic-responsive NPH3 family protein	F:protein binding, signal transducer activity;P:response to light stimulus;C:plasma membrane;P	O.I.	C.G.	H.G.
42.5	99.8	74.3	At2g21650	816703	MEE3 (MATERNAL EFFECT EMBRYO ARREST 3)	F:transcription factor activity, DNA binding;P:embryonic development ending in seed dormancy, regulation of transcription, DNA-dependent;C:unknown;PMO	O.I.	C.G.	H.G.
40.7	99.8	75.5	At2g18560	816371	UDP-glucoronosyl/UDP-glucosyl transferase family protein	F:UDP-glycosyltransferase activity, transferase activity, transferring glycosyl groups;P:metabolic process;C:cellular_component unknown;PMBOVF	O.I.	C.G.	H.G.
40.4	99.8	124.2	At5g13140	831153	-	F:molecular_function unknown;P:biological_process unknown;C:unknown;PMO	O.I.	C.G.	H.G.
40.2	99.8	67.9	At4g01390	828075	-	F:molecular_function unknown;P:biological_process unknown;C:unknown;PO	O.I.	C.G.	H.G.
40.2	99.8	44.9	At3g23295		-	-	O.I.	C.G.	H.G.
39.5	99.8	32.9	At1g03760	839119	prefoldin subunit family protein	F:unfolded protein binding;P:protein folding;C:prefoldin complex;MOPAFBV	O.I.	C.G.	H.G.
39.4	99.8	45.8	At1g30840	839967	ATPUP4	Member of a family of proteins related to PUP1, a purine transporter. May be involved in the transport of purine and purine derivatives such as cytokinins, across the plasma membrane.	O.I.	C.G.	H.G.
39.1	99.8	19.5	At5g06510	830539	NF-YA10 (NUCLEAR FACTOR Y, SUBUNIT A10)	F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:CCAAT-binding factor complex, nucleus;PMFO	O.I.	C.G.	H.G.
38.8	99.8	89.8	At3g23290	821908	-	-	O.I.	C.G.	H.G.
38.3	99.8	127.5	At4g30020	829125	subtilase family protein	F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:endomembrane system, cell wall, membrane;BPOFAM	O.I.	C.G.	H.G.
37.9	99.8	40.3	At2g37330	818310	ALS3 (ALUMINUM SENSITIVE 3)	Encodes an ABC transporter-like protein, without an ATPase domain, required for aluminum (Al) resistance/tolerance and may function to redistribute accumulated Al away from sensitive tissues in order to protect the growing root from the toxic effects of Al.	O.I.	C.G.	H.G.
37.7	99.7	38.9	At2g31160	817672	LSH3 (LIGHT SENSITIVE HYPOCOTYLS 3)	F:molecular_function unknown;P:biological_process unknown;C:unknown;PM	O.I.	C.G.	H.G.
37.2	99.7	82.1	At3g07360	819924	PUB9 (PLANT U-BOX 9)	Encodes a protein containing a U-box and an ARM domain. This protein has E3 ubiquitin ligase activity based on in vitro assays.	O.I.	C.G.	H.G.
37.1	99.7	43.7	At4g17880	827511	basic helix-loop-helix (bHLH) family protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFOVB	O.I.	C.G.	H.G.
36.8	99.7	44.9	At3g19370	821471	-	F:unknown;P:unknown;C:plasma membrane;MOBFPAV	O.I.	C.G.	H.G.
36.6	99.7	27.4	At3g54430	824609	SRS6 (SHI-RELATED SEQUENCE 6)	A member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis.	O.I.	C.G.	H.G.
35.9	99.7	91.0	At4g27654	828878	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
35.9	99.7	36.4	At5g28490	832941	LSH1 (LIGHT-DEPENDENT SHORT HYPOCOTYLS 1)	Encodes a nuclear protein that mediates light regulation of seedling development in a phytochrome-dependent manner.	O.I.	C.G.	H.G.
35.8	99.7	9.9	At5g46115	834653	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
35.5	99.7	85.0	At3g49360	824098	glucosamine/galactosamine-6-phosphate isomerase family protein	F:6-phosphogluconolactonase activity, catalytic activity;P:pentose-phosphate shunt, carbohydrate metabolic process;C:plasma membrane;BOFMP	O.I.	C.G.	H.G.
35.5	99.7	73.6	At1g47670	841177	amino acid transporter family protein	F:amino acid transmembrane transporter activity;P:amino acid transport;C:plasma membrane, membrane;PMFOB	O.I.	C.G.	H.G.
35.5	99.7	70.2	At2g36570	818230	leucine-rich repeat transmembrane protein kinase, putative	F:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane;PMOBFVA	O.I.	C.G.	H.G.
35.5	99.7	56.3	At3g21270	821681	ADOF2	Encodes Dof zinc finger protein adof2.	O.I.	C.G.	H.G.
35.2	99.7	20.9	At1g49830	841406	ethylene-responsive protein -related	F:transcription regulator activity;P:regulation of transcription;C:nucleus;P	O.I.	C.G.	H.G.
35.2	99.7	18.4	At5g35450	833508	disease resistance protein (CC-NBS-LRR class), putative	F:ATP binding;P:defense response, apoptosis;C:plasma membrane;PBMOFA	O.I.	C.G.	H.G.
35.0	99.7	148.4	At1g80530	844392	nodulin family protein	F:molecular_function unknown;P:biological_process unknown;C:nucleus;BPOFMA	O.I.	C.G.	H.G.
35.0	99.7	138.9	At2g33620	817928	DNA-binding family protein / AT-hook protein 1 (AHP1)	F:DNA binding;P:unknown;C:cytosol;PBMO	O.I.	C.G.	H.G.
35.0	99.7	26.4	At1g69080	843240	universal stress protein (USP) family protein	F:molecular_function unknown;P:response to stress;C:unknown;PM	O.I.	C.G.	H.G.
34.7	99.7	66.1	At1g01070	839550	nodulin MtN21 family protein	F:unknown;P:unknown;C:membrane;BPOAFM	O.I.	C.G.	H.G.
34.1	99.7	33.0	At4g35240	829677	unknown protein	F:unknown;P:N-terminal protein myristoylation;C:plasma membrane;PMFOBV	O.I.	C.G.	H.G.
33.1	99.7	73.6	At3g13980	820612	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPFBV	O.I.	C.G.	H.G.
32.8	99.7	92.5	At3g24770	822075	CLE41 (CLAVATA3/ESR-RELATED 41)	Belongs to a large gene family, called CLE for CLAVATA3/ESR-related, encoding small peptides with conserved carboxyl termini. The C-terminal 12 amino acid sequence of CLE41 is identical to that of a dodeca peptide (TDIF, tracheary element differentiation inhibitory factor) isolated from Arabidopsis and functions as a suppressor of plant stem cell differentiation. TDIF sequence is also identical to the C-terminal 12 amino acids of CLE44 (At4g13195).	O.I.	C.G.	H.G.
32.8	99.7	9.2	At1g05370	837038	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPMO	O.I.	C.G.	H.G.
32.1	99.7	42.8	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.
31.9	99.7	87.1	At2g29970	817547	heat shock protein-related	F:unknown;P:unknown;C:cellular_component unknown;BOPFAM	O.I.	C.G.	H.G.
31.6	99.7	36.8	At2g37280	818305	PDR5 (PLEIOTROPIC DRUG RESISTANCE 5)	F:ATPase activity, coupled to transmembrane movement of substances;P:multidrug transport;C:plasma membrane;BOMAFPV	O.I.	C.G.	H.G.
31.2	99.7	210.7	At3g22440	821815	hydroxyproline-rich glycoprotein family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOB	O.I.	C.G.	H.G.
31.2	99.7	71.1	At1g01640	839534	speckle-type POZ protein-related	F:protein binding;P:biological_process unknown;C:cellular_component unknown;MPOVF	O.I.	C.G.	H.G.
30.9	99.7	106.2	At5g59440	836063	ZEU1 (ZEUS1)	Encodes thymidylate kinase which exists in two isoforms in plants. The longer variant of 263 amino acids with a N-terminal extension that is required for localization to the mitochondrion. The second isoform of 224 residues is localized to the cytoplasm and nucleoplasm. Peak of expression occurs during G1/S phase transition.	O.I.	C.G.	H.G.
30.5	99.7	30.2	At1g71960	843527	ABC transporter family protein	F:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:membrane;BOMFAPV	O.I.	C.G.	H.G.
30.3	99.7	63.1	At5g05640	830447	nucleoprotein-related	F:molecular_function unknown;P:biological_process unknown;C:membrane;VP	O.I.	C.G.	H.G.
30.0	99.7	96.1	At2g43800	818984	formin homology 2 domain-containing protein / FH2 domain-containing protein	F:actin binding;P:cellular component organization, actin cytoskeleton organization;C:plasma membrane;MPFOBVA	O.I.	C.G.	H.G.
29.7	99.7	22.6	At1g22490	838855	basic helix-loop-helix (bHLH) family protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFO	O.I.	C.G.	H.G.
29.7	99.7	10.9	At5g66630	836795	DAR5 (DA1-RELATED PROTEIN 5)	F:zinc ion binding;P:unknown;C:unknown;PMOBF	O.I.	C.G.	H.G.
29.6	99.7	55.5	At2g32860	817847	BGLU33 (BETA GLUCOSIDASE 33)	F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;BOPMFA	O.I.	C.G.	H.G.
29.5	99.7	110.2	At1g13380	837898	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
29.4	99.7	96.0	At5g54980	835589	integral membrane family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
29.2	99.7	25.5	At5g42060	834211	unknown protein	F:unknown;P:unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.

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GSM ID	GSM142661
Assay name	MB002_ATH1_A1-Eland-ch1
GSE experiment	GSE6153: Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis

Microarray experiments to specifically-expressed genes

GSM ID GSM142661 Assay name MB002_ATH1_A1-Eland-ch1 GSE experiment GSE6153: Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis

GSM ID GSM142661

Assay name MB002_ATH1_A1-Eland-ch1

GSE experiment GSE6153: Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis