Co-expression analysis

Gene ID At2g25820
Gene name transcription factor
Module size 80 genes
NF 0.42
%ile 59.3



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
1.00100.01.00At2g25820817124transcription factorencodes 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.O.I.H.G.S.X.
0.5974.70.67At5g51900835265cytochrome P450 familyF:electron carrier activity, monooxygenase activity, iron ion binding, oxygen binding, heme binding;P:unknown;C:unknown;PFBMOAO.I.H.G.S.X.
0.5873.80.67At2g355703768501-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5873.80.65At5g12990831139CLE40 (CLAVATA3/ESR-RELATED 40)Member of a large family of putative ligands homologous to the Clavata3 gene. Consists of a single exon.O.I.H.G.S.X.
0.5773.80.68At2g28170817363ATCHX7member of Putative Na+/H+ antiporter familyO.I.H.G.S.X.
0.5469.50.68At1g65740842885F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5368.60.67At1g61440842438S-locus protein kinase, putativeF:in 7 functions;P:protein amino acid phosphorylation, recognition of pollen;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.5368.60.66At4g31960829326unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5267.40.66At3g60110825181DNA bindingF:DNA binding;P:unknown;C:unknown;MOBFPVAO.I.H.G.S.X.
0.5166.30.66At1g19040838486transcription factorF:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.5166.30.67At1g33070840203sequence-specific DNA binding / transcription factorF:transcription factor activity, sequence-specific DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PO.I.H.G.S.X.
0.5065.30.66At1g01700839250ROPGEF2Encodes a member of KPP-like gene family, homolog of KPP (kinase partner protein) gene in tomato. Also a member of the RopGEF (guanine nucleotide exchange factor) family, containing the novel PRONE domain (plant-specific Rop nucleotide exchanger), which is exclusively active towards members of the Rop subfamily.O.I.H.G.S.X.
0.5065.30.69At5g37640833742UBQ9polyubiquitin gene with 4 ubiquitin repeats. The first ubiquitin repeat has 16 amino acid replacements.O.I.H.G.S.X.
0.4963.50.68At1g76780844012-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.4963.50.66At5g09940830855unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4862.50.70At1g50760841498unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4862.50.66At3g45490823689-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO.I.H.G.S.X.
0.4862.50.65At1g50680841490AP2 domain-containing transcription factor, putativeF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;POVO.I.H.G.S.X.
0.4862.50.67At1g65210842828-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO.I.H.G.S.X.
0.4862.50.65At2g28610817410PRS (PRESSED FLOWER)Encodes a homeodomain containing protein that regulates lateral axis-dependent development of Arabidopsis flowers and is required for cell proliferation. It is expressed in a restricted number of L1 cells at the lateral regions of flower primordia, floral organ primordia, and young leaf primordia.O.I.H.G.S.X.
0.4761.20.66At2g24000816934scpl22 (serine carboxypeptidase-like 22)F:serine-type carboxypeptidase activity;P:proteolysis;C:endomembrane system;PMFOBO.I.H.G.S.X.
0.4761.20.66At2g33010817863ubiquitin-associated (UBA)/TS-N domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.4761.20.69At1g02540839516unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFVBPAO.I.H.G.S.X.
0.4761.20.66At1g09720837500kinase interacting family proteinF:unknown;P:biological_process unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.4761.20.66At5g39630833959vesicle transport v-SNARE family proteinF:SNARE binding, receptor activity;P:membrane fusion, intra-Golgi vesicle-mediated transport;C:membrane;OMFPBAVO.I.H.G.S.X.
0.4761.20.66At3g06630819842protein kinase family proteinF:two-component sensor activity, protein serine/threonine kinase activity, protein kinase activity, signal transducer activity, ATP binding;P:signal transduction, protein amino acid phosphorylation, regulation of transcription, DNA-dependent, two-component signal transduction system (phosphorelay);C:unknown;MPOBFVAO.I.H.G.S.X.
0.4659.80.68At1g65120842819ubiquitin carboxyl-terminal hydrolase-relatedF:ubiquitin thiolesterase activity, zinc ion binding;P:ubiquitin-dependent protein catabolic process;C:intracellular;OPMFBVO.I.H.G.S.X.
0.4659.80.66At3g27370--O.I.H.G.S.X.
0.4659.80.67At1g55790842028ATP binding / nucleotide binding / phenylalanine-tRNA ligaseF:phenylalanine-tRNA ligase activity, nucleotide binding, ATP binding;P:phenylalanyl-tRNA aminoacylation, translation;C:cytoplasm;PFMOBO.I.H.G.S.X.
0.4659.80.67At2g17960816306unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4659.80.66At3g59180825087-F:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.4659.80.66At3g45950823738splicing factor-relatedF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.4659.80.68At4g17585827476unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4558.30.65At1g32600840155F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4558.30.66At1g54470841889RPP27 (resistance to Peronospora parasitica 27)Encodes a Cf-like gene in Arabidopsis that confers downy mildew resistance to several isolates of Peronospora parasitica.O.I.H.G.S.X.
0.4558.30.68At3g57900824959unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4558.30.69At3g57720824941protein kinase, putativeF:protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;PMOBFVAO.I.H.G.S.X.
0.4558.30.67At3g06970819882RNA binding / nucleic acid binding / nucleotide bindingF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFBVO.I.H.G.S.X.
0.4457.20.68At5g38500833838DNA bindingF:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;OMPFBO.I.H.G.S.X.
0.4457.20.66At4g00280827209-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4457.20.67At1g69470843279unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4457.20.67At2g20616816587unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.4457.20.66At5g66370836769unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFO.I.H.G.S.X.
0.4355.30.66At4g36170829774unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.67At2g43730818975lectin-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.66At5g16430831504-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.69At5g14560831307unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.66At1g54880841927unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.69At4g26020828708-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.4355.30.68At1g74480843789RWP-RK domain-containing proteinF:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.4253.90.68At5g401303771383-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4253.90.67At1g65110842818ubiquitin carboxyl-terminal hydrolase-relatedF:ubiquitin thiolesterase activity, zinc ion binding;P:ubiquitin-dependent protein catabolic process;C:intracellular;PMOFBO.I.H.G.S.X.
0.4253.90.66At3g14490820672terpene synthase/cyclase family proteinF:lyase activity, magnesium ion binding;P:metabolic process;C:chloroplast;POO.I.H.G.S.X.
0.4152.40.69At2g30430817594unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4050.80.65At4g02970828121AT7SL-1 (Arabidopsis 7SL RNA 1)Signal recognition particle. Type 4 of RNA polymerase III dependent genes.O.I.H.G.S.X.
0.4050.80.67At2g24410816977-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.4050.80.66At2g076863768051transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4050.80.66At3g274503768952-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3948.40.68At2g40440818638BTB/POZ domain-containing proteinF:protein binding;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.3948.40.66At2g34580818022unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPAVO.I.H.G.S.X.
0.3948.40.66At3g20850821633proline-rich family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPBOFVAO.I.H.G.S.X.
0.3948.40.65At2g13900815874DC1 domain-containing proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOO.I.H.G.S.X.
0.3846.70.66At3g04410819596transcription factorF:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.3846.70.69At5g58080835920ARR18 (ARABIDOPSIS RESPONSE REGULATOR 18)member of Response Regulator: B- TypeO.I.H.G.S.X.
0.3745.00.66At4g10845826681unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.H.G.S.X.
0.3643.60.67At2g18810816396DNA bindingF:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.66At5g10420830906antiporter/ drug transporterF:drug transporter activity, antiporter activity;P:multidrug transport, ripening;C:membrane;BPOFMAO.I.H.G.S.X.
0.3541.60.66At1g10710837614-Computational predictions suggested the presence of a small cysteine-rich protein beginning in intron 9 (Silverstein 2007), but subsequent analysis revealed that this region contains a tenth exon for the At1g10710 gene.O.I.H.G.S.X.
0.3541.60.66At1g66380842956MYB114 (myb domain protein 114)Encodes a member of the MYB family of transcription factors. Involved in regulation of anthocyanin biosynthesis. Affects the expression of enzymes involved in later steps of anthocyanin biosynthesisO.I.H.G.S.X.
0.3541.60.65At4g14670827117CLPB2This locus was originally annotated as encoding ClpB2 (also referred to as Hsp92.7), which belongs to the Casein lytic proteinase/heat shock protein 100 (Clp/Hsp100) family. However, according to Lee et al. (2007, Plant Journal, 49:115-127), there is no evidence for expression of an appropriate-sized mRNA from this locus. Re-annotation of the genome indicates that this locus potentially encodes a 68.8-kDa protein, containing only the N-terminal two thirds of the originally predicted open reading frame. This locus contains a 626-bp deletion in WS ecotype compared with the Col ecotype, which eliminates residues 1-86 of the predicted protein.O.I.H.G.S.X.
0.3541.60.66At2g01500814678PFS2 (PRETTY FEW SEEDS 2)PFS2 encodes a homeodomain gene that is a member of the WUS clade of transcription factors. It delays differentiation and maturation of primordia and regulates ovule patterning. The pfs2 mutant exhibits developmental defects in the maternal integuments and gametophyte, specifically, the boundary between the chalaza and the nucellus shifted towards the distal end of pfs2 ovule primordia. In addition, leaves displayed curling and petals were wavy and crenulated. Overexpression of PFS2 affects floral organ and leaf development. Single- and double-mutant analyses reveal that PFS2 activity represses AGAMOUS expression in young floral primordia. Also involved in regulation of response to low temperature.O.I.H.G.S.X.
0.3439.80.66At4g01030827926pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.3338.10.66At5g17830831651unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFOO.I.H.G.S.X.
0.3235.70.65At2g35970818170harpin-induced family protein / HIN1 family protein / harpin-responsive family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3133.80.65At5g28270832909transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2726.20.66At1g80140844354glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family proteinF:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAO.I.H.G.S.X.
0.2522.60.66At1g05990837108calcium-binding protein, putativeF:calcium ion binding;P:unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.2217.50.66At5g58890836006AGL82 (AGAMOUS-LIKE 82)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.2217.50.67At4g25920828698unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.1912.70.66At1g02570839485unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.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
53.199.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
41.599.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.399.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.399.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.299.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.799.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.799.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.499.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.399.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.899.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.699.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.499.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.999.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.699.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.399.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.099.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.799.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.199.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.299.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
17.899.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
16.399.5GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.699.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.999.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
11.599.3GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.799.2GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.699.2GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.399.1E-MEXP-1138-raw-cel-1432773290
8.799.0E-MEXP-1138-raw-cel-1432773258

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0251GO:0009947The establishment, maintenance and elaboration of the centrolateral axis. In plants, this axis is duplicated and runs from the midrib to the margin of the leaf.Link to AmiGO
0.0251GO:0010865The process whose specific outcome is the progression of the stipule over time, from its formation to the mature structure. A stipule is one of (usually) a pair of appendages at the bases of leaves in many broad-leaved angiosperms.Link to AmiGO
0.0241GO:0048314The process by which the anatomical structures of the embryo sac are generated and organized. Morphogenesis pertains to the creation of form. The embryo sac develops from the megaspore in heterosporous plants.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.016104130SNARE interactions in vesicular transportLink 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



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