Co-expression analysis

Gene ID At3g06530
Gene name binding
Module size 17 genes
NF 0.54
%ile 75.7



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
0.6579.61.00At3g06530819831bindingF:binding;P:unknown;C:chloroplast, vacuole;MFOPBO.I.H.G.S.X.
0.7184.20.95At3g21540821708transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:nucleolus, heterotrimeric G-protein complex;MFOPBAO.I.H.G.S.X.
0.6579.60.94At4g04940825833transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:CUL4 RING ubiquitin ligase complex;MFBOPAO.I.H.G.S.X.
0.6579.60.93At2g40700818665DEAD/DEAH box helicase, putative (RH17)F:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.6378.10.93At3g11964820370RNA bindingF:RNA binding;P:mRNA processing, RNA processing;C:nucleolus, plasma membrane;BOMFPAO.I.H.G.S.X.
0.6378.10.92At3g09720820129DEAD/DEAH box helicase, putativeF:helicase activity, ATP-dependent helicase activity, nucleic acid binding, ATP binding;P:unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.6176.70.94At3g18600821391DEAD/DEAH box helicase, putativeF:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:nucleolus;BOMFPAVO.I.H.G.S.X.
0.6176.70.93At5g06550830543-F:molecular_function unknown;P:cell surface receptor linked signal transduction;C:unknown;MBOFPO.I.H.G.S.X.
0.5873.80.93At4g28450828962nucleotide binding / protein bindingThis gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays and may be involved in the formation of a CUL4-based E3 ubiquitin ligaseO.I.H.G.S.X.
0.5267.40.92At5g14050831254transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;BMOFPAVO.I.H.G.S.X.
0.5267.40.92At4g32720829408AtLa1 (Arabidopsis thaliana La protein 1)Encodes AtLa1, a member of the highly abundant phosphoprotein La proteins. Predominantly localized to the nucleoplasm and was also detected in the nucleolar cavity. Has RNA binding activity. Required for normal ribosome biogenesis and embryogenesis.O.I.H.G.S.X.
0.4963.50.93At5g61770836299PPAN (PETER PAN-LIKE PROTEIN)F:unknown;P:unknown;C:cellular_component unknown;MOFPVBO.I.H.G.S.X.
0.4457.20.94At4g29510829072PRMT11 (ARGININE METHYLTRANSFERASE 11)Has arginine N-methyltransferase activity. Modifies AtMBD7.O.I.H.G.S.X.
0.4457.20.94At3g57660824935NRPA1Encodes a subunit of RNA polymerase I (aka RNA polymerase A).O.I.H.G.S.X.
0.4355.30.95At5g64420836563DNA polymerase V familyF:DNA-directed DNA polymerase activity, DNA binding;P:DNA replication, transcription;C:cellular_component unknown;MOFBPVO.I.H.G.S.X.
0.4152.40.92At4g01560828136MEE49 (maternal effect embryo arrest 49)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;FMOPAO.I.H.G.S.X.
0.3948.40.92At1g8075084441460S ribosomal protein L7 (RPL7A)F:structural constituent of ribosome, transcription regulator activity;P:translation;C:cytosolic large ribosomal subunit, nucleolus, large ribosomal subunit;MOFPAO.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
80.499.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
79.299.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
78.999.9GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
74.199.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
72.399.9GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
71.799.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
68.899.9GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
67.999.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.399.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
63.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
60.999.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.499.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.999.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.099.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.999.7GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
25.799.7E-MEXP-1138-raw-cel-1432772650
24.899.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
24.599.6GSM131608ATGE_42_DGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
22.899.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.999.6GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
21.899.6E-MEXP-1138-raw-cel-1432772522
21.099.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.999.6E-MEXP-1138-raw-cel-1432772586
18.899.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.499.5GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.099.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.599.5GSM131606ATGE_42_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.999.4GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.999.4GSM133758Lindsey_1-11_heart-stage-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.699.4E-MEXP-1138-raw-cel-1432772682
13.399.4GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.299.4GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
12.899.3E-MEXP-1138-raw-cel-1432772554
11.099.2E-MEXP-1138-raw-cel-1432773162
10.399.2GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.399.2E-MEXP-1138-raw-cel-1432772618
9.599.1E-MEXP-1138-raw-cel-1432773194
9.299.1GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.299.1GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.299.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.199.1GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.099.1E-MEXP-1138-raw-cel-1432772970
9.099.1GSM131450AtGen_6-9222_Heatstress-Roots-1.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
8.999.0GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1001GO:0007166Any series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell.Link to AmiGO
0.0822GO:0006364Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.Link to AmiGO
0.0491GO:0006397Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.043103020RNA polymeraseLink to KEGG PATHWAY
0.022100240Pyrimidine metabolismLink to KEGG PATHWAY
0.016100230Purine 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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