Co-expression analysis

Gene ID At3g54770
Gene name RNA recognition motif (RRM)-containing protein
Module size 5 genes
NF 0.70
%ile 88.9



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
0.8994.61.00At3g54770824642RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:cellular_component unknown;MPFOBO.I.H.G.S.X.
0.7586.90.88At3g01220821232ATHB20 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 20)Encodes a homeodomain leucine zipper class I (HD-Zip I) protein, its expression is auxin-inducible and dependent on MP gene activity.O.I.H.G.S.X.
0.7586.90.82At3g50640824227unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.6781.60.83At4g28650828983leucine-rich repeat transmembrane protein kinase, putativeF:protein binding, protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.4457.20.80At2g18980816415peroxidase, putativeF:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOBMO.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
139.099.9GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
94.299.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
85.299.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
65.599.8E-MEXP-509-raw-cel-829148348
64.699.8E-MEXP-509-raw-cel-829148561
53.499.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
49.899.8E-MEXP-509-raw-cel-829148420
48.699.8E-MEXP-509-raw-cel-829148456
48.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.899.8GSM134301Penfield_1-3_endosperm-control_Rep3_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
32.399.7E-MEXP-509-raw-cel-829148597
31.199.7E-MEXP-509-raw-cel-829148525
28.199.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.499.6E-MEXP-509-raw-cel-829148492
22.599.6E-MEXP-509-raw-cel-829148201
22.399.6GSM134300Penfield_1-2_endosperm-control_Rep2_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
21.499.6E-MEXP-509-raw-cel-829148240
20.399.6GSM134299Penfield_1-1_endosperm-control_Rep1_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
19.399.6E-MEXP-509-raw-cel-829148632
15.799.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.699.5E-MEXP-509-raw-cel-829148877
15.099.4E-MEXP-509-raw-cel-829148129
14.199.4E-MEXP-509-raw-cel-829148772
13.999.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.899.4E-MEXP-509-raw-cel-829148385
13.199.4E-MEXP-509-raw-cel-829148165
12.599.3E-MEXP-509-raw-cel-829148276
12.399.3GSM134306Penfield_1-8_endosperm-PAC_Rep2_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
11.699.3E-MEXP-509-raw-cel-829148313
10.899.2GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.799.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.599.2GSM128662Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
8.999.0E-MEXP-509-raw-cel-829148090
8.899.0GSM128660Underwood_1-13_Cor-5x10e7-10h_Rep1_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
8.799.0GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0151GO:0007169The series of molecular signals generated as a consequence of a transmembrane receptor tyrosine kinase binding to its physiological ligand.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.024100360Phenylalanine metabolismLink to KEGG PATHWAY
0.023100680Methane metabolismLink to KEGG PATHWAY
0.019100940Phenylpropanoid biosynthesisLink to KEGG PATHWAY

Inter-species module comparison

A co-expression module including the wheat gene, TaAffx.86887.1.S1_at, orthologous to the query gene, At3g54770

VF%ileGene IDRepr. IDGene NameFunc.EvAGI codeArabidopsis gene nameO.I.H.G.S.X.Other DB
0.8493.6TaAffx.86887.1.S1_at---2e-2At4g09270unknown proteinO.I.H.G.S.X.
0.5576.8Ta.6441.2.S1_at---5e-5At3g16270-O.I.H.G.S.X.
0.5374.9TaAffx.11919.3.S1_s_at---5e-30At3g58500PP2A-3 (PROTEIN PHOSPHATASE 2A-3)O.I.H.G.S.X.
0.5072.4TaAffx.86837.1.S1_at---2e+0At1g19320pathogenesis-related thaumatin family proteinO.I.H.G.S.X.
0.5072.4TaAffx.37044.1.S1_at---3e-1At5g06060tropinone reductase, putative / tropine dehydrogenase, putativeO.I.H.G.S.X.
0.5072.4TaAffx.97428.1.S1_at---2e+0At1g55140RNA binding / ribonuclease IIIO.I.H.G.S.X.
0.4869.0TaAffx.59289.1.S1_at---1e-15At5g19330armadillo/beta-catenin repeat family protein / BTB/POZ domain-containing proteinO.I.H.G.S.X.
0.4666.8Ta.10633.2.S1_a_at---2e-1At1g01020ARV1O.I.H.G.S.X.
0.4666.8TaAffx.114026.1.S1_s_at---4e-42At1g0481026S proteasome regulatory subunit, putativeO.I.H.G.S.X.
0.4362.2TaAffx.129139.2.S1_x_at---2e-3At1g08370DCP1 (decapping 1)O.I.H.G.S.X.
0.4159.6Ta.19822.3.S1_at---4e-1At1g10430PP2A-2O.I.H.G.S.X.
0.3956.1TaAffx.8275.1.S1_at---2e-3At1g21080DNAJ heat shock N-terminal domain-containing proteinO.I.H.G.S.X.
0.3956.1TaAffx.92769.1.S1_at---5e-3At5g04420kelch repeat-containing proteinO.I.H.G.S.X.
0.3753.0Ta.19822.3.S1_x_at---4e-1At1g10430PP2A-2O.I.H.G.S.X.
0.3244.4Ta.13594.3.S1_a_at---1e+0At1g09630ATRAB11C (ARABIDOPSIS RAB GTPASE 11C)O.I.H.G.S.X.
0.2839.2Ta.10633.2.S1_x_at---2e-1At1g01020ARV1O.I.H.G.S.X.
0.2532.1TaAffx.106894.1.S1_at---2e+0At5g64180unknown proteinO.I.H.G.S.X.
0.2430.3Ta.7027.3.S1_at---1e+0At5g37770TCH2 (TOUCH 2)O.I.H.G.S.X.
0.1922.4Ta.6566.2.S1_at---1e-18At4g29040RPT2a (regulatory particle AAA-ATPase 2a)O.I.H.G.S.X.
0.1618.2TaAffx.128478.2.S1_s_at---8e-11At5g32470-O.I.H.G.S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Vitis_vinifera
Zea_mays



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