Co-expression analysis

Gene ID At3g27700
Gene name RNA recognition motif (RRM)-containing protein
Module size 6 genes
NF 0.48
%ile 67.8



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
0.3846.71.00At3g27700822392RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.6075.70.90At2g41710818770ovule development protein, putativeF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;POBVO.I.H.G.S.X.
0.5773.80.88At5g62640836385proline-rich family proteinnuclear targeted protein involved in flowering time regulation that affects flowering time independent of FLCO.I.H.G.S.X.
0.5673.00.92At3g13445820546TBP1 (TATA BINDING PROTEIN 1)TBP (TATA binding protein) associates with TAF(II)s (TBP-associated factors) to form the TFIID general transcription factor complexO.I.H.G.S.X.
0.5065.30.87At5g40190834017calmodulin-binding proteinIdentified in a screen for calmodulin-binding proteins obtained from an auxin treated cDNA library.O.I.H.G.S.X.
0.3338.10.89At3g06660819851PAPA-1-like family protein / zinc finger (HIT type) family proteinF:protein binding;P:unknown;C:chloroplast;OMFBPO.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
152.299.9GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
105.199.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
79.299.9GSM184922Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
75.299.9GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
74.299.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.399.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
60.699.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
60.499.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
60.299.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.099.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.799.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.699.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
56.599.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.999.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.399.8GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
52.799.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.599.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.899.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.699.7GSM184920Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
31.499.7GSM184919Arabidopsis, root cells, stele, 140 mM NaCls, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
30.899.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
29.899.7GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
27.799.7GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
24.699.6GSM205159protoplast_KIN10_rep1GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
19.499.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.899.5GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
16.499.5GSM184476Lateral Root Cap root cells 2hr KCl control treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.599.5GSM131106Broadley_1-4_A4-Bo-P3-phosphate-starved_Rep3_ATH1GSE5614Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)Link to GEO
15.599.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.899.4GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.699.4GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.999.4E-MEXP-807-raw-cel-1173272948
12.799.3GSM142839MG001_ATH1_A18-Torres-6N6GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
12.699.3GSM205185protoplast_KIN10_rep2GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
12.499.3GSM184635Arabidopsis, root cells, 140 mM NaCl, replicate 2GSE7636Expression analysis of the effect of protoplasting and FACS sorting in rootsLink to GEO
12.199.3GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.199.3GSM184634Arabidopsis, root cells, 140 mM NaCl, replicate 1GSE7636Expression analysis of the effect of protoplasting and FACS sorting in rootsLink to GEO
11.899.3GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
11.799.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.099.2GSM204069protoplast_hypoxia_rep1GSE8248Identification of hypoxia-inducible genes in Arabidopsis mesophyll cellsLink to GEO
10.999.2GSM266677Arabidopsis, root cells, stele, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
10.899.2GSM184921Arabidopsis, root cells, stele, 140 mM NaCls, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.899.2GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.899.2GSM131282AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
10.499.2GSM131105Broadley_1-3_A3-Bo-P2-phosphate-starved_Rep2_ATH1GSE5614Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)Link to GEO
9.699.1GSM131108Broadley_1-6_A6-Bo+P3-nutrient-replete_Rep3_ATH1GSE5614Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)Link to GEO
9.099.1GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.099.1GSM176878AWP_AL_Txed_2GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0006367A transcription initiation process that results in RNA synthesis by RNA polymerase II.Link to AmiGO
0.0871GO:0016070The chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.Link to AmiGO
0.0561GO:0048573A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light or dark of a given length. The length of the period of light or dark required to initiate the change is set relative to a particular duration known as the 'critical day length'. The critical day length varies between species.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.051103022Basal transcription factorsLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage