Co-expression analysis

Gene ID At4g39070
Gene name zinc finger (B-box type) family protein
Module size 6 genes
NF 0.07
%ile 4.3



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
1.00100.01.00At4g39070830062zinc finger (B-box type) family proteinF:transcription factor activity, zinc ion binding;P:response to chitin, regulation of transcription;C:intracellular;POMO.I.H.G.S.X.
0.2930.30.76At1g18270838407ketose-bisphosphate aldolase class-II family proteinF:in 8 functions;P:pentose-phosphate shunt, valine metabolic process, glycolysis, metabolic process;C:nucleus;BOFMPAO.I.H.G.S.X.
0.2522.60.79At5g28050832875cytidine/deoxycytidylate deaminase family proteinF:hydrolase activity, zinc ion binding, catalytic activity;P:pyrimidine ribonucleotide metabolic process, pyrimidine deoxyribonucleoside interconversion, deoxyribose phosphate metabolic process, anaerobic respiration;C:cellular_component unknown;BOFMPAO.I.H.G.S.X.
0.2014.40.77At2g14170815903ALDH6B2Arabidopsis thaliana methylmalonate-semialdehyde dehydrogenaseO.I.H.G.S.X.
0.135.80.76At5g26740832714unknown proteinF:unknown;P:unknown;C:endomembrane system;MPFOO.I.H.G.S.X.
0.010.20.76At1g30130839892unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;OBPFO.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
61.899.8E-ATMX-35-raw-cel-1574334832
54.099.8E-ATMX-35-raw-cel-1574334816
20.999.6E-ATMX-35-raw-cel-1574334800
19.699.6GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
19.699.6GSM131279AtGen_6-1611_Cold(4°C)-Shoots-24.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
17.799.5GSM184913Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.199.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.099.4GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
14.999.4GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.599.3GSM74900Wildtype_24H Cold_Rep1GSE3326ICE1 regulation of the Arabidopsis Cold-Responsive TranscriptomeLink to GEO
11.099.2GSM74901Wildtype_24H Cold_Rep2GSE3326ICE1 regulation of the Arabidopsis Cold-Responsive TranscriptomeLink to GEO
10.999.2GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.799.2GSM131276AtGen_6-1512_Cold(4°C)-Shoots-12.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
10.699.2GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.599.2GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.399.2GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.299.2GSM131281AtGen_6-1621_Cold(4°C)-Roots-24.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
10.299.2GSM133407Bramke_A1-warre-WTCGSE5711Cold induced changes: differences between the Arabidopsis thaliana wild type and freezing sensitive mutants.Link to GEO
10.199.2GSM184914Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.999.1GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.899.1GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.799.1GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.799.1GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.499.1GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.499.1GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.299.1GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.199.1GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
8.999.0GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
8.899.0GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
8.899.0GSM131282AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2501GO:0006573The chemical reactions and pathways involving valine, 2-amino-3-methylbutanoic acid.Link to AmiGO
0.0871GO:0006098The process by which glucose is oxidized, coupled to NADPH synthesis. Glucose 6-P is oxidized with the formation of carbon dioxide (CO2), ribulose 5-phosphate and reduced NADP; ribulose 5-P then enters a series of reactions interconverting sugar phosphates. The pentose phosphate pathway is a major source of reducing equivalents for biosynthesis reactions and is also important for the conversion of hexoses to pentoses.Link to AmiGO
0.0381GO:0006096The chemical reactions and pathways resulting in the breakdown of a monosaccharide (generally glucose) into pyruvate, with the concomitant production of a small amount of ATP. Pyruvate may be converted to ethanol, lactate, or other small molecules, or fed into the TCA cycle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.080100640Propanoate metabolismLink to KEGG PATHWAY
0.049100280Valine, leucine and isoleucine degradationLink to KEGG PATHWAY
0.047100562Inositol phosphate metabolismLink 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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