Co-expression analysis

Gene ID At5g02540
Gene name short-chain dehydrogenase/reductase (SDR) family protein
Module size 53 genes
NF 0.14
%ile 10.3



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
1.00100.01.00At5g02540831913short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:unknown;BOMFPAO.I.H.G.S.X.
0.4761.20.62At1g78170844153unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4152.40.63At5g13400831181proton-dependent oligopeptide transport (POT) family proteinF:transporter activity;P:oligopeptide transport;C:membrane;PBMOFO.I.H.G.S.X.
0.3541.60.66At1g17840838363WBC11 (WHITE-BROWN COMPLEX HOMOLOG PROTEIN 11)Encodes a plasma membrane-localized ATP-binding cassette transporter, that is required for cutin transport to the extracellular matrix.O.I.H.G.S.X.
0.3235.70.64At4g24510828553CER2 (ECERIFERUM 2)Involved in C28 to C30 fatty acid elongation.O.I.H.G.S.X.
0.3235.70.64At4g25960828702PGP2 (P-GLYCOPROTEIN 2)F:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:membrane;BOMAFPVO.I.H.G.S.X.
0.3133.80.67At5g14410831292unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3032.10.61At2g46720819284KCS13 (3-KETOACYL-COA SYNTHASE 13)Encodes KCS13, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids).O.I.H.G.S.X.
0.3032.10.62At1g64670842775BDG1 (BODYGUARD1)Encodes a epidermally expressed extracellular protein that likely functions as an alpha-beta hydrolase and is required for normal cuticle formation. Homozygous mutant plants are dwarfed and have abnormal leaves, collapsed cells, reduced numbers of trichomes. The specific role of BDG is unclear: it may function in cutin biosynthesis or as a cross-linking enzyme in the cell wall itself.O.I.H.G.S.X.
0.2830.30.66At2g26250817165KCS10 (3-KETOACYL-COA SYNTHASE 10)epidermis-specific, encodes KCS10, a putative 3-ketoacyl-CoA synthase. probably involved in the synthesis of long-chain lipids found in the cuticle.O.I.H.G.S.X.
0.2522.60.62At2g26910817232PDR4 (PLEIOTROPIC DRUG RESISTANCE 4)F:ATPase activity, coupled to transmembrane movement of substances;P:multidrug transport;C:membrane;BOMFAPVO.I.H.G.S.X.
0.2420.70.61At1g17200838291integral membrane family proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.2319.30.62At4g36250829782ALDH3F1 (Aldehyde Dehydrogenase 3F1)Encodes a putative aldehyde dehydrogenase. The gene is not responsive to osmotic stress and is expressed constitutively at a low level in plantlets and root cultures.O.I.H.G.S.X.
0.2217.50.66At1g07570837271APK1AProtein kinase capable of phosphorylating tyrosine, serine, and threonine residuesO.I.H.G.S.X.
0.2217.50.60At1g12460837803leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.1811.40.62At3g57800825530basic helix-loop-helix (bHLH) family proteinF:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFBO.I.H.G.S.X.
0.1811.40.61At5g63140836435ATPAP29 (ARABIDOPSIS THALIANA PURPLE ACID PHOSPHATASE 29)F:protein serine/threonine phosphatase activity, acid phosphatase activity;P:unknown;C:endomembrane system;FBPOO.I.H.G.S.X.
0.1710.20.61At1g62030842498DC1 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.168.80.61At2g35760818148integral membrane family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.146.80.62At1g61900842486unknown proteinF:molecular_function unknown;P:biological_process unknown;C:anchored to plasma membrane, plasma membrane, anchored to membrane;PO.I.H.G.S.X.
0.135.80.60At4g23820828482glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family proteinF:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAO.I.H.G.S.X.
0.124.90.62At3g47600823914ATMYB94 (MYB DOMAIN PROTEIN 94)Encodes a putative transcription factor (MYB94).O.I.H.G.S.X.
0.124.90.61At1g16750838246-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMOFO.I.H.G.S.X.
0.124.90.61At5g01090831840legume lectin family proteinF:carbohydrate binding, sugar binding;P:biological_process unknown;C:endomembrane system;PBO.I.H.G.S.X.
0.114.10.62At5g10480830912PAS2 (PASTICCINO 2)Protein tyrosine phosphatase-like involved in cell division and differentiation. Interacts with CDKA;1 only in its phosphorylated form, preventing dephosphorylation. Overexpression slowed down cell division in suspension cell cultures at the G2-to-M transition and early mitosis and inhibited Arabidopsis seedling growth. Localized in the cytoplasm of dividing cells but moved into the nucleus upon cell differentiation. Based on complementation of yeast mutant PAS2 has acyl-CoA dehydratase activity. It interacts with CER10, a component of the microsomal fatty acid elongase complex, suggesting a role in synthesis of VLCFAs (very long chain fatty acids).O.I.H.G.S.X.
0.114.10.60At1g06080837117ADS1 (DELTA 9 DESATURASE 1)homologous to delta 9 acyl-lipid desaturases of cyanobacteria and acyl-CoA desaturases of yeast and mammals. expression down-regulated by cold temperature.O.I.H.G.S.X.
0.114.10.61At4g22190828310unknown proteinF:unknown;P:unknown;C:unknown;OMPFBO.I.H.G.S.X.
0.103.40.61At3g11600820333unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.103.40.60At4g39010830056AtGH9B18 (Arabidopsis thaliana glycosyl hydrolase 9B18)F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOFO.I.H.G.S.X.
0.103.40.60At5g19290832049esterase/lipase/thioesterase family proteinF:catalytic activity;P:unknown;C:cellular_component unknown;BPOMFVAO.I.H.G.S.X.
0.103.40.61At5g43700834390ATAUX2-11 (AUXIN INDUCIBLE 2-11)Auxin inducible protein similar to transcription factors.O.I.H.G.S.X.
0.092.80.62At2g22670816798IAA8IAA8 (IAA8) gene is auxin inducible.O.I.H.G.S.X.
0.092.80.62At3g21310821685unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.092.80.60At2g46225819230ABIL1 (Abi-1-like 1)Encodes a subunit of the WAVE complex. The WAVE complex is required for activation of ARP2/3 complex which functions in actin microfilament nucleation and branching.O.I.H.G.S.X.
0.082.30.61At1g21830838785unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.082.30.62At3g17100820967transcription factorF:transcription factor activity;P:regulation of transcription;C:nucleus, chloroplast;PMO.I.H.G.S.X.
0.071.90.60At3g56130824779biotin/lipoyl attachment domain-containing proteinF:binding;P:unknown;C:chloroplast;BOPAFO.I.H.G.S.X.
0.071.90.62At1g03590839447catalytic/ protein serine/threonine phosphataseF:protein serine/threonine phosphatase activity, catalytic activity;P:N-terminal protein myristoylation;C:plasma membrane;PMOFVO.I.H.G.S.X.
0.071.90.60At5g05690830453CPD (CONSTITUTIVE PHOTOMORPHOGENIC DWARF)Encodes a member of the CP90A family, a cytochrome P450 monooxygenase which converts 6-deoxocathasterone to 6-deoxoteasterone in the late C6 oxidation pathway and cathasterone to teasterone in the early C6 oxidation pathway of brassinolide biosynthesis. Expressed in cotyledons and leaves. Mutants display de-etiolation and derepression of light-induced genes in the dark, dwarfism, male sterility and activation of stress-regulated genes in the light. The expression of the gene using a CPD promoter:LUC fusion construct was shown to be under circadian and light control. Additionally, the circadian regulation was shown to be independent of BR levels as it remains unchanged in bri1 mutant lines. CPD appears to be involved in the autonomous pathway that regulates the transition to flowering, primarily through a BRI1-mediated signaling pathway that affects FLC expression levels, as uncovered by double mutant analyses.O.I.H.G.S.X.
0.061.40.63At4g28760828997unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPOMFO.I.H.G.S.X.
0.061.40.60At3g06650819845ACLB-1One of the two genes encoding subunit B of the trimeric enzyme ATP Citrate lyaseO.I.H.G.S.X.
0.061.40.60At1g05540837056unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.H.G.S.X.
0.051.10.60At3g11620820334unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.051.10.62At3g02540821195RAD23-3 (PUTATIVE DNA REPAIR PROTEIN RAD23-3)F:damaged DNA binding;P:protein modification process, proteasomal ubiquitin-dependent protein catabolic process, nucleotide-excision repair;C:nucleus;MBOPFVAO.I.H.G.S.X.
0.051.10.61At4g33180829455hydrolase, alpha/beta fold family proteinF:catalytic activity;P:unknown;C:unknown;BOPMFAO.I.H.G.S.X.
0.040.90.61At3g60510825222enoyl-CoA hydratase/isomerase family proteinF:catalytic activity;P:metabolic process;C:unknown;BOMFPAO.I.H.G.S.X.
0.040.90.62At5g62880836408ARAC10A member of ROP GTPase gene family.O.I.H.G.S.X.
0.040.90.61At5g28300832914trihelix DNA-binding protein, putativeF:transcription factor activity;P:regulation of transcription;C:chloroplast;OMPFBVAO.I.H.G.S.X.
0.040.90.61At1g22060838811-F:unknown;P:unknown;C:vacuole;MOBFPAVO.I.H.G.S.X.
0.040.90.60At3g60340825205palmitoyl protein thioesterase family proteinF:palmitoyl-(protein) hydrolase activity;P:protein modification process;C:vacuole;MPFOO.I.H.G.S.X.
0.040.90.60At5g27710832833unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.030.60.60At5g47780834829GAUT4 (Galacturonosyltransferase 4)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.030.60.60At5g44250834448unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
78.999.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
68.699.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
59.199.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
51.399.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.999.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.999.7GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
34.199.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.299.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.899.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.099.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.699.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
29.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
28.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.099.6GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
24.899.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
24.399.6GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
23.799.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.699.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.799.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.499.6E-MEXP-1443-raw-cel-1581869515
20.299.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.999.5GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
16.599.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.299.4GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.099.3GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
11.499.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2GSM269825T8 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
9.899.1E-ATMX-1-raw-cel-1112746154
9.799.1GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0582GO:0000038The chemical reactions and pathways involving fatty acids with a chain length of C18 or greater.Link to AmiGO
0.0582GO:0042335The chemical reactions and pathways resulting in the formation of a cuticle, the outer layer of some animals and plants, which acts to prevent water loss.Link to AmiGO
0.0371GO:0006081The chemical reactions and pathways involving aldehydes, any organic compound with the formula R-CH=O, as carried out by individual cells.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.025101040Biosynthesis of unsaturated fatty acidsLink to KEGG PATHWAY
0.019103420Nucleotide excision repairLink to KEGG PATHWAY
0.018100020Citrate cycle (TCA cycle)Link to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



Back to the CoP portal site

Back to the KAGIANA project homepage