Co-expression analysis

Gene ID At5g28300
Gene name trihelix DNA-binding protein, putative
Module size 7 genes
NF 0.10
%ile 6.5



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
1.00100.01.00At5g28300832914trihelix DNA-binding protein, putativeF:transcription factor activity;P:regulation of transcription;C:chloroplast;OMPFBVAO.I.H.G.S.X.
0.1811.40.83At4g14510827098RNA bindingF:RNA binding;P:biological_process unknown;C:chloroplast;POMFBVAO.I.H.G.S.X.
0.1710.20.82At5g02250830864EMB2730 (EMBRYO DEFECTIVE 2730)Encodes a exoribonuclease involved in rRNA processing in mitochondria and chloroplasts.Loss of function mutations are pale green and require supplementation with sucrose for germination and early development. Plants are pale green due to defects in chloroplast biogenesis.O.I.H.G.S.X.
0.135.80.83At4g02510827934TOC159 (TRANSLOCON AT THE OUTER ENVELOPE MEMBRANE OF CHLOROPLASTS 159)An integral membrane GTPase that functions as a transit-sequence receptor required for the import of proteins necessary for chloroplast biogenesis. Located in the outer chloroplast membrane.O.I.H.G.S.X.
0.124.90.83At5g57850835895aminotransferase class IV family proteinF:4-amino-4-deoxychorismate lyase activity, catalytic activity;P:tetrahydrofolate biosynthetic process;C:chloroplast;BOAPFO.I.H.G.S.X.
0.040.90.82At4g10180826609DET1 (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.
0.030.60.82At2g42320818833nucleolar protein gar2-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVAO.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
124.799.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
104.799.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
73.399.9GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
73.299.9GSM269825T8 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
72.299.9GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
71.799.9GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
69.499.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
68.299.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
61.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.699.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.899.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.899.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.899.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.799.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.599.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.499.8GSM269823T6 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
38.699.8GSM269827C2 leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
36.399.7GSM269831T6 leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
35.399.7GSM269817T8 leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
35.199.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.699.7GSM269821WT leaf-drought-rep2GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
29.199.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
27.499.7GSM269819C2 leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
27.299.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.099.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.599.6GSM38670DSNPGSE2268Arabidopsis polysome microarrayLink to GEO
22.899.6GSM269829WT leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
22.199.6GSM269813WT leaf-drought-rep1GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
20.099.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
18.699.5GSM269833T8 leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
16.499.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
14.499.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.099.3GSM38671DSPSGSE2268Arabidopsis polysome microarrayLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2001GO:0046654The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin moiety.Link to AmiGO
0.1331GO:0010100Any process that stops, reduces or prevents photomorphogenesis.Link to AmiGO
0.1181GO:0045036The process of directing proteins towards the chloroplast, usually using signals contained within the protein. Imported proteins are synthesized as cytosolic precursors containing N-terminal uptake-targeting sequences that direct each protein to its correct subcompartment and are subsequently cleaved.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.091100770Pantothenate and CoA biosynthesisLink to KEGG PATHWAY
0.053100290Valine, leucine and isoleucine biosynthesisLink to KEGG PATHWAY
0.048100280Valine, leucine and isoleucine degradationLink 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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