Co-expression analysis

Gene ID At3g26560
Gene name ATP-dependent RNA helicase, putative
Module size 24 genes
NF 0.49
%ile 68.8



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
0.6781.61.00At3g26560822264ATP-dependent RNA helicase, putativeF:in 6 functions;P:unknown;C:cytosol, mitochondrion;MOBFPVAO.I.H.G.S.X.
0.6277.30.94At4g11790826785Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.5873.80.95At5g64960836620CDKC2 (Cyclin dependent kinase group C 2)Encodes CDKC;2, part of a CDKC kinase complex that is targeted by Cauliflower mosaic virus (CaMV) for transcriptional activation of viral genes. Also regulates plant growth and development. Co-localizes with spliceosomal components in a manner dependent on the transcriptional status of the cells and on CDKC2-kinase activity. Expression of CDKC2 modifies the location of spliceosomal components.O.I.H.G.S.X.
0.5873.80.95At3g04610819619FLK (flowering locus KH domain)F:RNA binding, nucleic acid binding;P:positive regulation of flower development;C:nucleus;MOPFVBO.I.H.G.S.X.
0.5673.00.94At5g28740832986transcription-coupled DNA repair protein-relatedF:binding;P:RNA processing;C:intracellular;MFOPBAO.I.H.G.S.X.
0.5673.00.94At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.O.I.H.G.S.X.
0.5469.50.95At4g30890829213UBP24 (UBIQUITIN-SPECIFIC PROTEASE 24)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.5267.40.95At1g52380841668Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cytosol, nucleus;MFOPBVO.I.H.G.S.X.
0.5065.30.95At1g03910839371-F:unknown;P:unknown;C:unknown;MOFPBVAO.I.H.G.S.X.
0.4963.50.94At1g55150841958DEAD box RNA helicase, putative (RH20)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.4963.50.94At1g54610841903protein kinase family proteinF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.4963.50.94At1g26370839179RNA helicase, putativeF:in 6 functions;P:biological_process unknown;C:chloroplast;MBOFVPAO.I.H.G.S.X.
0.4862.50.95At3g22990821873LFR (LEAF AND FLOWER RELATED)Armadillo-repeat containing protein. Involved in leaf and flower development. Located in nucleus. Broadly expressed throughout vegetative and floral tissues.O.I.H.G.S.X.
0.4862.50.95At3g61240825296DEAD/DEAH box helicase, putative (RH12)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:unknown;OBMFPAVO.I.H.G.S.X.
0.4761.20.95At4g00830827998RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.4659.80.94At2g16940816197RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MOFPBVAO.I.H.G.S.X.
0.4659.80.95At5g48120834864bindingF:binding;P:unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.4558.30.95At3g51310824294VPS35C (VPS35 HOMOLOG C)Homolog of yeast retromer subunit VPS35. Part of a retromer-like protein complex involved in endosome to lysosome protein transport.O.I.H.G.S.X.
0.4457.20.96At1g80930844433MIF4G domain-containing protein / MA3 domain-containing proteinF:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cytosol, nucleus;MOFBPVAO.I.H.G.S.X.
0.4253.90.94At5g27540832814MIRO1 (Miro-related GTP-ase 1)Encodes a protein with similarity to GTPases that is localized to the mitochondrion. Involved in embryogenesis, pollen tube growth and required for mitochondrial development.O.I.H.G.S.X.
0.4253.90.94At1g61010842393CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I)F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPVO.I.H.G.S.X.
0.4050.80.94At2g25740817117ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:N-terminal protein myristoylation, ATP-dependent proteolysis;C:cellular_component unknown;BOMPFO.I.H.G.S.X.
0.3745.00.94At4g32551829390LUG (LEUNIG)LEUNIG regulates floral organ identity,gynoecium and ovule development. Negatively regulates AGAMOUS . Encodes a glutamine-rich protein with seven WD repeats similar to transcriptional corepressors.O.I.H.G.S.X.
0.3439.80.94At3g59990825169MAP2B (METHIONINE AMINOPEPTIDASE 2B)Encodes a MAP2 like methionine aminopeptidaseO.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
72.599.9GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
66.899.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.099.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
62.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
60.099.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.999.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.999.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
58.099.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.899.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
55.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.899.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.699.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.099.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.599.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.499.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.899.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.599.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.799.5GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.899.4GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
13.399.4GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
11.699.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.699.2GSM142623MC002_ATH1_A1.1-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.599.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.499.2GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.399.2GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.399.2GSM142624MC002_ATH1_A1.2-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.299.2GSM142625MC002_ATH1_A1.3-dubos-wtxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.099.2GSM142641MC002_ATH1_A7.1-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.099.1GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0GSM142642MC002_ATH1_A7.2-dubos-wLhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
8.699.0GSM142646MC002_ATH1_A8.3-dubos-aihGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1252GO:0046907The directed movement of substances within a cell.Link to AmiGO
0.0832GO: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
0.0771GO:0050792Any process that modulates the rate or extent of the viral life cycle, the set of processes by which a virus reproduces and spreads among hosts.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.028103018RNA 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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