Co-expression analysis

Gene ID At5g02480
Gene name -
Module size 62 genes
NF 0.29
%ile 35.2

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
1.00100.01.00At5g02480831883-F:unknown;P:unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.89At3g03380821268DegP7 (DegP protease 7)Encodes a putative DegP protease.O.I.H.G.S.X.
0.4355.30.88At1g15750838144TPL (TOPLESS)Encodes a protein with several WD40 repeats at the C-terminus and predicted protein-protein interaction domains at the N-terminus. Together with the TOPLESS-RELATED PROTEINS (TPRs), it is thought to be involved in transcriptional repression of root-promoting genes in the top half of the embryo during the transition stage of embryogenesis. It can also interact with IAA12 through the EAR domain of IAA12 and the CTLH domain of TPL. The ability of IAA12 to repress transcription is diminished in a tpl-1 mutant background.O.I.H.G.S.X.
0.4050.80.88At2g25430817081epsin N-terminal homology (ENTH) domain-containing proteinF:phospholipid binding, clathrin binding, binding, phosphatidylinositol binding;P:clathrin coat assembly;C:nucleus, plasma membrane;MPOBFAVO.I.H.G.S.X.
0.3846.70.87At2g40940818693ERS1 (ETHYLENE RESPONSE SENSOR 1)Ethylene receptor, subfamily 1. Has histidine kinase activity.O.I.H.G.S.X.
0.3846.70.86At4g24520828554ATR1 (ARABIDOPSIS P450 REDUCTASE 1)Encodes a cyp450 reductase likely to be involved in phenylpropanoid metabolism.O.I.H.G.S.X.
0.3846.70.86At2g38020818380VCL1 (VACUOLELESS 1)necessary for proper vacuole formation and morphogenesis in ArabidopsisO.I.H.G.S.X.
0.3846.70.88At2g18960816413AHA1 (ARABIDOPSIS H+ ATPASE 1)Encodes a plasma membrane proton ATPase. Mutants have a reduced ability to close their stomata in response to drought and are affected in stomatal but not seed responsiveness to ABA.O.I.H.G.S.X.
0.3846.70.87At3g61600825333ATPOB1POZ/BTB containing-protein AtPOB1O.I.H.G.S.X.
0.3643.60.86At3g14010820615CID4 (CTC-Interacting Domain 4)hydroxyproline-rich glycoprotein family protein, similar to Mrs16p (GI:2737884) (Saccharomyces cerevisiae); weak similarity to ataxin-2 related protein (GI:1679686) (Homo sapiens). Included in a family of CTC interacting domain proteins found to interact with PAB2.O.I.H.G.S.X.
0.3643.60.88At1g06390837150GSK1 (GSK3/SHAGGY-LIKE PROTEIN KINASE 1)encodes a GSK3/shaggy-like protein kinase. Gene expression is induced by NaCl and ABA but not KCl, suggesting that this gene may be involved in response to osmotic stress. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X.
0.3643.60.87At5g19330832053armadillo/beta-catenin repeat family protein / BTB/POZ domain-containing proteinF:protein binding, binding;P:unknown;C:plasma membrane;MPOFVBAO.I.H.G.S.X.
0.3643.60.87At1g08680837390ZIGA4 (ARF GAP-like zinc finger-containing protein ZiGA4)A member of ARF GAP domain (AGD), A thaliana has 15 members, grouped into four classes. AGD14 belongs to the class 4, together with AGD15.O.I.H.G.S.X.
0.3541.60.87At5g64270836548splicing factor, putativeF:binding;P:mRNA processing;C:chloroplast;MFOBPAVO.I.H.G.S.X.
0.3541.60.88At4g38640830020choline transporter-relatedF:unknown;P:unknown;C:unknown;MOFPABO.I.H.G.S.X.
0.3541.60.87At5g14430831294dehydration-responsive protein-relatedF:unknown;P:unknown;C:Golgi apparatus, plasma membrane, plant-type cell wall;PBOO.I.H.G.S.X.
0.3439.80.87At1g22610838867C2 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOFO.I.H.G.S.X.
0.3439.80.86At3g13670820572protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MBOPFVAO.I.H.G.S.X.
0.3338.10.88At2g20190816539CLASP (CLIP-ASSOCIATED PROTEIN)Encodes a microtubule-associated protein that is involved in both cell division and cell expansion. It likely promotes microtubule stability.O.I.H.G.S.X.
0.3338.10.87At3g06720819857IMPA-1 (IMPORTIN ALPHA ISOFORM 1)Encodes importin alpha involved in nuclear import. Protein interacts with Agrobacterium proteins VirD2 and VirE2. Is not individually essential for Agrobacterium-mediated root transformation, but when overexpressed can rescue the impa-4 decreased transformation susceptibility phenotype.O.I.H.G.S.X.
0.3338.10.87At1g04140839272transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:chloroplast;MBFOPAO.I.H.G.S.X.
0.3338.10.88At1g70570843394anthranilate phosphoribosyltransferase, putativeF:anthranilate phosphoribosyltransferase activity, transferase activity, transferring glycosyl groups;P:tryptophan biosynthetic process, metabolic process;C:chloroplast;BOAPO.I.H.G.S.X.
0.3235.70.86At3g47000823853glycosyl hydrolase family 3 proteinF:hydrolase activity, hydrolyzing O-glycosyl compounds;P:carbohydrate metabolic process;C:cellular_component unknown;BOFPAMO.I.H.G.S.X.
0.3235.70.87At4g38520830009protein phosphatase 2C family protein / PP2C family proteinF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVO.I.H.G.S.X.
0.3235.70.88At1g79090844250unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.3133.80.87At3g04740819634SWP (STRUWWELPETER)encodes a protein with similarities to subunits of the Mediator complex, required for RNA polymerase II recruitment at target promoters in response to specific activators. Lines carrying loss of function mutations in the gene have reduced cell numbers in aerial organs. On the other hand, lines overexpressing the gene have increased number of small cells in clusters, suggesting cell division is more unsynchronized in the overexpressors.O.I.H.G.S.X.
0.3133.80.87At2g23460816878XLG1 (EXTRA-LARGE G-PROTEIN 1)encodes a novel G-alpha protein that shares similarity to plant, yeast, and animal G-alpha proteins at the C-terminus. It contains an N-terminus that is as large as the C-terminus, is a member of a small family, and is expressed in all tissues examined, including roots, leaves, stems, flowers, and fruits.O.I.H.G.S.X.
0.3133.80.87At3g57410824908VLN3 (VILLIN 3)Encodes a protein with high homology to animal villin.O.I.H.G.S.X.
0.3133.80.87At2g39940818581COI1 (CORONATINE INSENSITIVE 1)Encodes a protein containing Leu-rich repeats and a degenerate F-box motif. Associates with AtCUL1, AtRbx1, and the Skp1-like proteins ASK1 and ASK2 to assemble SCF COI1 ubiquitin-ligase complexes in planta. A single amino acid substitution in the F-box motif of COI1 abolishes the formation of the SCF(COI1) complexes and results in loss of the JA response. Required for wound- and jasmonates-induced transcriptional regulation.O.I.H.G.S.X.
0.3032.10.88At3g13290820529VCR (VARICOSE-RELATED)F:nucleotide binding;P:unknown;C:cellular_component unknown;MBOFPAO.I.H.G.S.X.
0.3032.10.86At2g22125816747bindingF:binding;P:biological_process unknown;C:plasma membrane;PMFOBAO.I.H.G.S.X.
0.3032.10.87At1g01960839301EDA10 (embryo sac development arrest 10)F:binding, ARF guanyl-nucleotide exchange factor activity, guanyl-nucleotide exchange factor activity;P:megagametogenesis;C:cytosol, nucleus;MFOPBO.I.H.G.S.X.
0.2930.30.87At1g28440839742HSL1 (HAESA-Like 1)F:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:unknown;MPOBFVAO.I.H.G.S.X.
0.2930.30.87At3g05090819671transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.2930.30.87At3g10380820201SEC8 (SUBUNIT OF EXOCYST COMPLEX 8)Subunit of the Putative Arabidopsis Exocyst ComplexO.I.H.G.S.X.
0.2930.30.88At1g50200841442ALATS (ALANYL-TRNA SYNTHETASE)F:alanine-tRNA ligase activity, ligase activity, forming aminoacyl-tRNA and related compounds, nucleotide binding, nucleic acid binding, ATP binding;P:alanyl-tRNA aminoacylation, response to cadmium ion;C:mitochondrion, chloroplast;OBMAFPO.I.H.G.S.X.
0.2930.30.86At4g05420825890DDB1A (DAMAGED DNA BINDING PROTEIN 1A)Structurally similar to damaged DNA binding proteins.DDB1a is part of a 350 KDa nuclear localized DET1 protein complex. This complex may physically interact with histone tails and while bound to chromatin- repress transcription of genes involved in photomorphogenesis.O.I.H.G.S.X.
0.2726.20.88At5g05700830454ATE1 (ARGININE-TRNA PROTEIN TRANSFERASE 1)Encodes an arginyl-tRNA:protein transferase (ATE1), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination. Mutants of ATE1 also display delayed leaf senescence.O.I.H.G.S.X.
0.2726.20.88At1g25280839112AtTLP10 (TUBBY LIKE PROTEIN 10)Member of TLP familyO.I.H.G.S.X.
0.2726.20.87At5g47780834829GAUT4 (Galacturonosyltransferase 4)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.2726.20.87At4g03560825655ATTPC1 (TWO-PORE CHANNEL 1)Encodes a depolarization-activated Ca(2+) channel. Anti-sense experiments with this gene as well as Sucrose-H(+) symporters and complementation of yeast sucrose uptake mutant cch1 suggest that this protein mediates a voltage-activated Ca(2+ )influx. Mutants lack detectable SV channel activity suggesting TPC1 is essential component of the SV channel. Patch clamp analysis of loss of function mutation indicates TPC1 does not affect Ca2+ signaling in response to abiotic and biotic stress.O.I.H.G.S.X.
0.2726.20.87At4g14160827055transport protein, putativeF:protein binding, transporter activity, zinc ion binding;P:intracellular protein transport, transport, ER to Golgi vesicle-mediated transport;C:COPII vesicle coat;MFOPO.I.H.G.S.X.
0.2624.40.86At3g18215821349unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOO.I.H.G.S.X.
0.2624.40.86At5g35980833590protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol;MOPFBVAO.I.H.G.S.X.
0.2624.40.87At4g00710828025BSK3 (BR-SIGNALING KINASE 3)Encodes BR-signaling kinase 3 (BSK3), one of the three homologous BR-signaling kinases (BSK1, AT4G35230; BSK2, AT5G46570; BSK3, AT4G00710). Mediates signal transduction from receptor kinase BRI1 by functioning as the substrate of BRI1. Plasma membrane localized.O.I.H.G.S.X.
0.2624.40.86At1g59610842251ADL3 (ARABIDOPSIS DYNAMIN-LIKE 3)A high molecular weight GTPase whose GTP-binding domain shows a low homology to those of other plant dynamin-like proteins.Contains a pleckstrin homologous domain.O.I.H.G.S.X.
0.2624.40.86At4g23640828464TRH1 (TINY ROOT HAIR 1)Functions as a potassium transporter and is required for the establishment of root tip growth.O.I.H.G.S.X.
0.2420.70.87At2g13560815842malate oxidoreductase, putativeF:oxidoreductase activity, acting on NADH or NADPH, NAD or NADP as acceptor, malic enzyme activity, ATP binding;P:response to salt stress, malate metabolic process;C:mitochondrion, chloroplast;BOMPFAO.I.H.G.S.X.
0.2420.70.86At3g06670819852bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVO.I.H.G.S.X.
0.2420.70.88At4g00660828042DEAD/DEAH box helicase, putativeF:helicase activity, nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.2217.50.86At5g61140836235DEAD box RNA helicase, putativeEncodes a predicted protein with 30% identity with MER3/RCK.O.I.H.G.S.X.
0.2217.50.86At1g71860843516PTP1 (PROTEIN TYROSINE PHOSPHATASE 1)Encodes a protein with tyrosine phosphatase activity that is downregulated in response to cold and upregulated in response to salt stress.O.I.H.G.S.X.
0.2217.50.86At1g12820837838AFB3 (AUXIN SIGNALING F-BOX 3)F:auxin binding, ubiquitin-protein ligase activity;P:stamen development, pollen maturation, response to molecule of bacterial origin;C:cellular_component unknown;PMFOBO.I.H.G.S.X.
0.2217.50.87At1g16010838171magnesium transporter CorA-like family protein (MRS2-1)F:metal ion transmembrane transporter activity;P:metal ion transport;C:vacuole, membrane;PFOMBAO.I.H.G.S.X.
0.2115.80.86At2g41960818796unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.2014.40.87At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.I.H.G.S.X.
0.2014.40.87At5g65950836725unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1912.70.86At2g32950817857COP1 (CONSTITUTIVE PHOTOMORPHOGENIC 1)Represses photomorphogenesis and induces skotomorphogenesis in the dark. Contains a ring finger zinc-binding motif, a coiled-coil domain, and several WD-40 repeats, similar to G-beta proteins. The C-terminus has homology to TAFII80, a subunit of the TFIID component of the RNA polymerase II of Drosophila. Nuclear localization in the dark and cytoplasmic in the light.O.I.H.G.S.X.
0.1811.40.86At4g37880829944protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1710.20.86At5g61230836244ankyrin repeat family proteinF:protein binding;P:biological_process unknown;C:unknown;MOFBPVAO.I.H.G.S.X. (Arabidopsis SHAGGY-related protein kinase dZeta)Encodes a GSK3-like protein kinase. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X. the catalytic subunit of a Type 1 phosphoprotein Ser/Thr phosphatase, expressed in roots, shoots and flowers.O.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
74.799.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
66.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.999.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.099.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.599.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.899.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.099.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.399.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.099.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.699.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.899.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.199.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.899.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.599.1GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0693GO:0010119Any process that modulates the frequency, rate or extent of stomatal movement.Link to AmiGO
0.0683GO:0009742A series of molecular signals mediated by the detection of brassinosteroid.Link to AmiGO
0.0602GO:0032880Any process that modulates the frequency, rate or extent of any process by which a protein is transported to, or maintained in, a specific location.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.025204120Ubiquitin mediated proteolysisLink to KEGG PATHWAY
0.024100460Cyanoamino acid metabolismLink to KEGG PATHWAY
0.018100970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.

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