Co-expression analysis

Gene ID At1g55110
Gene name AtIDD7 (Arabidopsis thaliana Indeterminate(ID)-Domain 7)
Module size 15 genes
NF 0.14
%ile 10.2



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
0.9797.61.00At1g55110841954AtIDD7 (Arabidopsis thaliana Indeterminate(ID)-Domain 7)F:transcription factor activity, zinc ion binding, nucleic acid binding;P:regulation of transcription;C:intracellular;MOPFO.I.H.G.S.X.
0.3235.70.86At1g56610842116syntaxin-related family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.2930.30.88At3g08020819993protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:unknown;C:unknown;MOPFBO.I.H.G.S.X.
0.2115.80.87At4g18130827538PHYE (PHYTOCHROME DEFECTIVE E)member of Histidine KinaseO.I.H.G.S.X.
0.1710.20.89At4g08980826476F-box family protein (FBW2)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.157.80.86At5g55390835632EDM2Encodes EDM2 (enhanced downy mildew 2). The predicted protein bears typical features of transcriptional regulators. EDM2 contains two putative bipartite nuclear localization signals (NLS) two zinc-finger-like motifs, a Proline-rich region and a large aspartic acid-rich region. Both zinc-finger-like stretches resemble the PHD (plant homeodomain) finger motif. Mutations in EDM2 comprise RPP7 mediated resistance against Hyaloperonospora parasitica isolate Hiks1 (HpHiks1). EDM2 may function as a direct or indirect regulator of RPP7 expression.O.I.H.G.S.X.
0.124.90.86At4g39850830144PXA1 (PEROXISOMAL ABC TRANSPORTER 1)Encodes a peroxisomal protein of the ATP binding cassette (ABC) transporter class (PMP subfamily) with significant identity to the human X-linked adrenoleukodystrophy protein (ALDP). The gene product promotes germination and represses embryo dormancy. ABI3, ABA1, FUS3 and LEC1 are epistatic to this gene. Mutants accumulate fatty acyl CoA suggesting a defect in uptake of fatty acyl CoA into the peroxisome.O.I.H.G.S.X.
0.124.90.86At4g22360828331SWIB complex BAF60b domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PFMBOO.I.H.G.S.X.
0.114.10.86At5g11860831059NLI interacting factor (NIF) family proteinF:phosphatase activity;P:biological_process unknown;C:chromosome, centromeric region, chromosome, nucleus;MOFPBVO.I.H.G.S.X.
0.103.40.86At3g05210819685ERCC1encodes 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.
0.103.40.86At3g29270822584ubiquitin-protein ligaseF:ubiquitin-protein ligase activity;P:unknown;C:unknown;MPOO.I.H.G.S.X.
0.092.80.87At4g10180826609DET1 (DE-ETIOLATED 1)Encodes a nuclear-localized protein that acts as a repressor of photomorphogenesis and may be involved in chromatin remodeling.O.I.H.G.S.X.
0.092.80.87At1g04950839370TAF6 (TBP-ASSOCIATED FACTOR 6)Encodes one of two Arabidopsis proteins with significant similarity to the histone fold TBP-associated factor TAF6. Mutants are embryo lethal and transmission of the mutant allele through the male gametophyte is significantly reduced. This is due to reduced pollen tube growth of the mutant.O.I.H.G.S.X.
0.061.40.86At4g00450827954CRP (CRYPTIC PRECOCIOUS)A genetic locus involved in flowering time. The mutant enhances the expression of the flowering time (FT) gene. A knockout mutant of this gene showed late-flowering phenotype.O.I.H.G.S.X.
0.040.90.86At2g21240816663BPC4 (BASIC PENTACYSTEINE 4)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMBO.I.H.G.S.X.

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Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
128.099.9E-ATMX-35-raw-cel-1574334816
117.099.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
108.399.9E-ATMX-35-raw-cel-1574334800
107.799.9GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
86.199.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
70.299.9E-ATMX-35-raw-cel-1574334832
59.499.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
51.399.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.099.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.199.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.399.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.399.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.199.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.999.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.199.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.199.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.199.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.599.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.399.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.499.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.799.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.899.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.899.6GSM269821WT leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
21.599.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.999.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.699.6GSM131303AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
18.699.5GSM131299AtGen_6-2511_Osmoticstress-Shoots-12.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
17.699.5GSM269829WT leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
16.999.5GSM269823T6 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
16.599.5GSM128753De Veylder_1-5_E2Fa-Dpa_Rep1_ATH1GSE5529Arabidopsis E2F target genesLink to GEO
16.299.5GSM269819C2 leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
15.099.4GSM269827C2 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
14.799.4GSM128756De Veylder_1-8_E2Fa-Dpa_Rep4_ATH1GSE5529Arabidopsis E2F target genesLink to GEO
14.499.4GSM269825T8 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
13.599.4GSM131304AtGen_6-2612_Osmoticstress-Shoots-24.0h_Rep2GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
11.999.3GSM269813WT leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
11.399.3GSM131300AtGen_6-2512_Osmoticstress-Shoots-12.0h_Rep2GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
10.799.2GSM269831T6 leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
10.399.2GSM269817T8 leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
9.599.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.899.0E-MEXP-475-raw-cel-680982521

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1251GO: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
0.1251GO:0015916The directed movement of fatty acyl coenzyme A into, out of, within or between cells. Fatty acyl coenzyme A is an acyl group linked to 3'-phosphoadenosine-(5')diphospho(4')pantatheine (coenzyme A).Link to AmiGO
0.1181GO:0007600The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.045104712Circadian rhythm - plantLink to KEGG PATHWAY
0.042103022Basal transcription factorsLink to KEGG PATHWAY
0.030103420Nucleotide excision repairLink 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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