Co-expression analysis

Gene ID At5g06960
Gene name OBF5 (OCS-ELEMENT BINDING FACTOR 5)
Module size 46 genes
NF 0.26
%ile 28.9



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
1.00100.01.00At5g06960830587OBF5 (OCS-ELEMENT BINDING FACTOR 5)Encodes a basic leucine zipper (B-ZIP) containing protein that interacts with NPR1 to promote expression of salicylic acid induced genes. Binds the ocs-element.O.I.H.G.S.X.
0.4558.30.90At1g32790840173RNA-binding protein, putativeRNA-binding protein, putative, similar to RNA-binding protein GB:CAB40027 GI:4539439 from (Arabidopsis thaliana).Member of a family of PAB2 binding domain proteins.O.I.H.G.S.X.
0.4253.90.89At1g04440839520CKL13 (CASEIN KINASE LIKE 13)F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPBFVAO.I.H.G.S.X.
0.3846.70.91At5g59420836061ORP3C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3C)F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3643.60.89At4g21450826300vesicle-associated membrane family protein / VAMP family proteinF:structural molecule activity;P:biological_process unknown;C:plasma membrane;MOFPBVO.I.H.G.S.X.
0.3439.80.90At1g25280839112AtTLP10 (TUBBY LIKE PROTEIN 10)Member of TLP familyO.I.H.G.S.X.
0.3439.80.89At4g39910830150ATUBP3 (ARABIDOPSIS THALIANA UBIQUITIN-SPECIFIC PROTEASE 3)Encodes a nuclear ubiquitin-specific protease.O.I.H.G.S.X.
0.3338.10.89At5g50230835088nucleotide bindingF:nucleotide binding;P:multicellular organismal development;C:heterotrimeric G-protein complex;MFOBPAVO.I.H.G.S.X.
0.3338.10.90At5g61500836271ATG3F:molecular_function unknown;P:autophagy;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3133.80.89At1g75850843918VPS35B (VPS35 HOMOLOG B)F:unknown;P:intracellular protein transport, retrograde transport, endosome to Golgi;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.3133.80.89At1g68820843214membrane protein, putativeF:protein binding, zinc ion binding;P:unknown;C:unknown;MOPVFO.I.H.G.S.X.
0.3032.10.89At4g31410829268unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO.I.H.G.S.X.
0.3032.10.90At5g63640836484VHS domain-containing protein / GAT domain-containing proteinF:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, plasma membrane;MFPOBO.I.H.G.S.X.
0.2930.30.89At1g27000839590bZIP family transcription factorF:DNA binding;P:regulation of transcription, DNA-dependent;C:unknown;POBMO.I.H.G.S.X.
0.2930.30.89At1g32130840105-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.2930.30.89At2g29400817489TOPP1 (TYPE ONE PROTEIN PHOSPHATASE 1)Type 1 protein phosphatase, expressed in roots, rosettes and flowersO.I.H.G.S.X.
0.2830.30.90At1g71860843516PTP1 (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.
0.2830.30.89At1g18160838395protein kinase family proteinF:protein serine/threonine/tyrosine kinase activity, kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.2830.30.89At5g55000835591FIP2FH protein interacting protein FIP2O.I.H.G.S.X.
0.2726.20.89At5g63910836512FCLY (FARNESYLCYSTEINE LYASE)encodes for a farnesylcysteine lyase (EC 1.8.3.5 - prenylcysteine oxidase) involved in a salvage pathway of farnesyl diphosphate.O.I.H.G.S.X.
0.2522.60.89At4g13270826957unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.2522.60.89At5g05700830454ATE1 (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.
0.2522.60.90At3g05210819685ERCC1encodes a homolog of human ERCC1 protein (yeast RAD10), which is a DNA repair endonuclease. Mutants are sensitive to UV-B and gamma radiation (G2 cell cycle phase arrest) and are defective in dark-repair of pyrimidine pyrimidone dimers. This protein incises the 5' end of damaged DNA, similar to ERCC1/RAD10.O.I.H.G.S.X.
0.2522.60.89At1g32230840115RCD1 (RADICAL-INDUCED CELL DEATH1)Encodes a protein belonging to the (ADP-ribosyl)transferase domain-containing subfamily of WWE protein-protein interaction domain protein family. Superoxide radicals are necessary and sufficient to propagate cell death or lesion formation in rcd1 mutants. Without stress treatment, RCD1 is localized in the nucleus. Under high salt or oxidative stress, RCD1 is found not only in the nucleus but also in the cytoplasm.O.I.H.G.S.X.
0.2522.60.89At3g19770821514VPS9AGuanine nucleotide exchange factor VPS9a. Can ctivate all Rab5 members to GTP-bound forms in vitro. Required for embryogenesis. Regulates the localization of ARA7 and ARA6. Involved in postembryonic root development.O.I.H.G.S.X.
0.2522.60.90At2g21230816660bZIP family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus, chloroplast;OPMBFAVO.I.H.G.S.X.
0.2522.60.89At1g64040842708TOPP3Encodes the catalytic subunit of a Type 1 phosphoprotein Ser/Thr phosphatase, expressed in roots, shoots and flowers.O.I.H.G.S.X.
0.2522.60.89At3g54480824613SKIP5 (SKP1/ASK-INTERACTING PROTEIN 5)Encodes an SKP1 interacting partner (SKIP5).O.I.H.G.S.X.
0.2522.60.89At5g45130834549RHA1 (RAB HOMOLOG 1)small GTP binding proteinO.I.H.G.S.X.
0.2319.30.89At1g76900844025AtTLP1 (TUBBY LIKE PROTEIN 1)Member of TLP familyO.I.H.G.S.X.
0.2217.50.89At1g61150842408-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.2217.50.89At3g23540821933-F:unknown;P:unknown;C:cellular_component unknown;OBMFPAO.I.H.G.S.X.
0.2014.40.89At3g54840824649ARA6Encodes a novel Rab-like GTP-ase that is localized to the peripheral membrane of the endosome.O.I.H.G.S.X.
0.2014.40.89At1g49850841408zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2014.40.89At2g36360818209kelch repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBAO.I.H.G.S.X.
0.2014.40.89At2g45140819122PVA12 (PLANT VAP HOMOLOG 12)Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent.O.I.H.G.S.X.
0.1912.70.89At2g01060814630myb family transcription factorF:transcription factor activity;P:regulation of transcription;C:unknown;POBO.I.H.G.S.X.
0.1912.70.89At3g06540819832GDP dissociation inhibitor family protein / Rab GTPase activator family proteinF:RAB GDP-dissociation inhibitor activity;P:intracellular protein transport, regulation of GTPase activity, protein transport;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.1912.70.90At4g17270827441Mo25 family proteinF:binding;P:biological_process unknown;C:plasma membrane;MFPOO.I.H.G.S.X.
0.1811.40.89At1g72710843603CKL2 (CASEIN KINASE 1-LIKE PROTEIN 2)Encodes a member of the casein kinase 1 protein family that is localized to the cytoplasm and nucleus.O.I.H.G.S.X.
0.1811.40.90At3g05090819671transducin 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.
0.1811.40.89At5g60620836183phospholipid/glycerol acyltransferase family proteinF:acyltransferase activity;P:triglyceride biosynthetic process, diacylglycerol biosynthetic process, metabolic process;C:plasma membrane, membrane;MOBPFO.I.H.G.S.X.
0.1710.20.89At5g47080834754CKB1Regulatory subunit beta of casein kinase II. purified CKB1 resulted in up 100-fold stimulation of casein kinase activity compared with the CKA1 activity alone. Forms a tetrameric complex with CKA1 (CKA1(2)CKB1(2)).O.I.H.G.S.X.
0.1710.20.89At2g38020818380VCL1 (VACUOLELESS 1)necessary for proper vacuole formation and morphogenesis in ArabidopsisO.I.H.G.S.X.
0.157.80.89At3g03330821281short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endoplasmic reticulum, plasma membrane;BOMFPAVO.I.H.G.S.X.
0.157.80.89At4g05000825842VPS28-2F:transporter activity;P:transport;C:ESCRT I complex;MFPOO.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
132.199.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
51.599.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
48.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.999.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.999.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.899.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.999.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.099.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.899.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
26.899.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.899.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.099.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.399.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.199.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.199.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.999.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.899.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.299.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.999.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.499.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.499.6GSM133969Birnbaum_1-20_LRC-2_Rep2_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
15.399.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.199.4GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.399.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.599.3GSM10480lec1-1 Cotyledon Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
12.099.3GSM311278Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.999.3GSM147966lec1-1 Globular Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
11.999.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.699.3GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3GSM184478Lateral Root Cap root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.299.2GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.499.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.399.2GSM133754Turner_A-8-Turne-WT-Base2_SLDGSE5729Role of COV in vascular patterningLink to GEO
9.899.1GSM10479lec1-1 Cotyledon Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
9.699.1GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.699.1GSM311277Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.499.1GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.099.1GSM147965lec1-1 Globular Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0431GO:0006294The aggregation, arrangement and bonding together of proteins on DNA to form the multiprotein complex involved in damage recognition, DNA helix unwinding, and endonucleolytic cleavage at the site of DNA damage. This assembly occurs before the phosphodiester backbone of the damaged strand is cleaved 3' and 5' of the site of DNA damage.Link to AmiGO
0.0431GO:0006651The chemical reactions and pathways resulting in the formation of diacylglycerol, a glycerol molecule substituted on the 1 and 2 hydroxyl groups with long chain fatty acyl residues.Link to AmiGO
0.0431GO:0045022The directed movement of substances, in membrane-bounded vesicles, from the early sorting endosomes to the late sorting endosomes; transport occurs along microtubules and can be experimentally blocked with microtubule-depolymerizing drugs.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.036104140Regulation of autophagyLink to KEGG PATHWAY
0.021103420Nucleotide excision repairLink to KEGG PATHWAY
0.018104144EndocytosisLink 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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