Co-expression analysis

Gene ID At4g28890
Gene name protein binding / ubiquitin-protein ligase/ zinc ion binding
Module size 5 genes
NF 0.32
%ile 40.6



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
0.1811.41.00At4g28890829010protein binding / ubiquitin-protein ligase/ zinc ion bindingF:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:unknown;C:endomembrane system;PMOFVBO.I.H.G.S.X.
0.4457.20.77At1g13300837890myb family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;POVBMFO.I.H.G.S.X.
0.3338.10.80At2g21045816639-F:unknown;P:aging;C:unknown;BOPAFMO.I.H.G.S.X.
0.3338.10.83At4g25090828612respiratory burst oxidase, putative / NADPH oxidase, putativeF:in 7 functions;P:oxidation reduction;C:cytosolic ribosome, vacuole;MFPBOAO.I.H.G.S.X.
0.2930.30.76At5g05400830422disease resistance protein (CC-NBS-LRR class), putativeF:protein binding, ATP binding;P:N-terminal protein myristoylation, defense response, apoptosis;C:chloroplast;PMBOFAO.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
87.099.9GSM231203chl1 at T0.5, biological rep2GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
59.799.8GSM231196wild-type at T0.5, biological rep1GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
57.499.8GSM231197wild-type at T0.5, biological rep2GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
50.499.8GSM231202chl1 at T0.5, biological rep1GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
50.099.8GSM157305Gan_1-1_wildtype-nitrate-minus(WNM)_Rep1_ATH1GSE6824Identification of genes involved in nutritional regulation of root architectureLink to GEO
47.599.8GSM157306Gan_1-3_wildtype-nitrate-minus(WNM)_Rep2_ATH1GSE6824Identification of genes involved in nutritional regulation of root architectureLink to GEO
32.699.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
30.099.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
29.199.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.299.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.099.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.999.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.399.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.399.6GSM184545Whole roots 2hr KNO3 treated then frozen, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.099.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.899.6GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
20.799.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.499.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.099.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.999.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.799.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.299.6GSM184533Protoplasted root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.999.5GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.999.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.599.5GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.499.5GSM231204chl1 at T0.5, biological rep3GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
18.299.5GSM157307Gan_1-2_mutant-nitrate-minus(ANM)_Rep1_ATH1GSE6824Identification of genes involved in nutritional regulation of root architectureLink to GEO
18.199.5GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.999.5GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.199.5GSM260883Yap_A2-AMF_Rep2GSE10323Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathwaysLink to GEO
17.099.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.599.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.699.5GSM260882Yap_A1-AMF_Rep2GSE10323Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathwaysLink to GEO
14.999.4GSM231198wild-type at T0.5, biological rep3GSE9148Expression data of 10-day-old wild-type and chl1-5 plants exposed to 25 mM nitrate for 0h or 0.5hLink to GEO
13.799.4GSM142641MC002_ATH1_A7.1-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
13.799.4GSM134404St.Clair_1-101_324_Tsu-1_0.30mM-SA-in-0.02%-silwet_Rep2_ATH1GSE5755Expression Level Polymorphism Project (ELP) - Tsu-1Link to GEO
13.399.4GSM134421St.Clair_1-118_348_Van-0_0.30mM-SA-in-0.02%-silwet_Rep1_ATH1GSE5756Expression Level Polymorphism Project (ELP) - Van-0Link to GEO
12.299.3GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.199.3GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.699.3GSM142642MC002_ATH1_A7.2-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
11.699.3GSM218591Whole roots 3.5hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.499.3GSM134350St.Clair_1-11_333_Col-0_0.30mM-SA-in-0.02%-silwet_Rep2_ATH1GSE5752Expression Level Polymorphism Project (ELP) - Col-0Link to GEO
11.199.2GSM142643MC002_ATH1_A7.3-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.399.2GSM134423St.Clair_1-120_434_Van-0_0.30mM-SA-in-0.02%-silwet_Rep3_ATH1GSE5756Expression Level Polymorphism Project (ELP) - Van-0Link to GEO
10.099.2GSM134413St.Clair_1-110_375_Van-0_0.02%-silwet_Rep2_ATH1GSE5756Expression Level Polymorphism Project (ELP) - Van-0Link to GEO
10.099.2GSM134396St.Clair_1-93_349_Tsu-1_0.02%-silwet_Rep3_ATH1GSE5755Expression Level Polymorphism Project (ELP) - Tsu-1Link to GEO
9.999.1GSM133756Lindsey_1-10_heart-stage-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM184538Whole roots 2hr KCl control treated then frozen, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.799.1GSM134405St.Clair_1-102_350_Tsu-1_0.30mM-SA-in-0.02%-silwet_Rep3_ATH1GSE5755Expression Level Polymorphism Project (ELP) - Tsu-1Link to GEO
8.999.0GSM134422St.Clair_1-119_378_Van-0_0.30mM-SA-in-0.02%-silwet_Rep2_ATH1GSE5756Expression Level Polymorphism Project (ELP) - Van-0Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1111GO:0080022The process whose specific outcome is the progression of the primary root over time, from its formation to the mature structure. The primary root develops directly from the embryonic radicle.Link to AmiGO
0.0481GO:0016036A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of phosphate.Link to AmiGO
0.0421GO:0007568The inherent decline over time, from the optimal fertility and viability of early maturity, that may precede death and may be preceded by other indications, such as sterility.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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