Co-expression analysis

Gene ID At1g12490
Gene name F-box family protein-related
Module size 43 genes
NF 0.30
%ile 38.0



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
1.00100.01.00At1g12490837806F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.4457.20.70At2g26950817236AtMYB104 (myb domain protein 104)Member of the R2R3 factor gene family.O.I.H.G.S.X.
0.4355.30.68At5g66980836832transcriptional factor B3 family proteinF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:endomembrane system;PO.I.H.G.S.X.
0.4152.40.67At1g30450839924CCC1 (CATION-CHLORIDE CO-TRANSPORTER 1)member of Cation-chloride co-transporter familyO.I.H.G.S.X.
0.3948.40.68At2g26420817182PIP5K3 (1-PHOSPHATIDYLINOSITOL-4-PHOSPHATE 5-KINASE 3)Encodes a phosphatidylinositol-4-phosphate 5-kinase. Exclusively expressed in roots. Essential for root hair growth.O.I.H.G.S.X.
0.3846.70.69At3g57960824965emsy N terminus domain-containing protein / ENT domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3846.70.68At2g19550816474esterase/lipase/thioesterase family proteinF:catalytic activity;P:unknown;C:unknown;OBPFMAVO.I.H.G.S.X.
0.3745.00.69At2g07719815393unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.3745.00.68At3g13680820576F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.69At5g60320836154lectin protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.3643.60.68At4g25920828698unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.69At1g43680840955-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.68At4g11590826764F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3439.80.67At5g50270835092F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.3439.80.69At3g578203769732-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3439.80.69At5g58890836006AGL82 (AGAMOUS-LIKE 82)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.3439.80.69At3g20475821593MSH5 (MUTS-HOMOLOGUE 5)Encodes MSH5, a homologue of the MutS-homolog family of genes required for normal levels of recombination in budding yeast, mouse and Caenorhabditis elegans. Involved in meiotic recombination. Required for the formation of Class I interference-sensitive crossovers. Transcripts of AtMSH5 are specific to reproductive tissues and expression of the protein is abundant during prophase I of meiosis. Involved in meiotic recombination. Required for the formation of Class I interference-sensitive crossovers.O.I.H.G.S.X.
0.3338.10.70At2g27375817281transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3338.10.70At2g32310817792-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.3235.70.68At2g23945816927chloroplast nucleoid DNA-binding protein-relatedF:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;PMOFO.I.H.G.S.X.
0.3133.80.67At5g67000836835DNA binding / transcription factorencodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.O.I.H.G.S.X.
0.3032.10.68At5g42450834252pentatricopeptide (PPR) repeat-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;POMABFO.I.H.G.S.X.
0.2930.30.68At1g54230841864DNA bindingF:DNA binding;P:nucleosome assembly;C:nucleus, nucleosome;PFO.I.H.G.S.X.
0.2930.30.68At1g46840841118F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:membrane;PO.I.H.G.S.X.
0.2930.30.67At1g475203767382transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2930.30.67At4g20900827838MS5 (MALE-STERILE 5)ms5 mutants are male sterile, pollen tetrads undergo an extra round of division after meiosis II without chromosome replication, resulting in chromosome abnormalities. Gene product has some similarity to SCP1, a rat synaptonemal complex protein.O.I.H.G.S.X.
0.2930.30.69At5g54950835586aconitate hydratase-related / citrate hydro-lyase-related / aconitase-relatedF:molecular_function unknown;P:metabolic process;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.2830.30.67At3g51570824320disease resistance protein (TIR-NBS-LRR class), putativeF:transmembrane receptor activity, protein binding, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:membrane;PMBOFAVO.I.H.G.S.X.
0.2830.30.67At4g03380827946-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2726.20.69At3g45950823738splicing factor-relatedF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2522.60.67At5g50970835170WD-40 repeat family proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPO.I.H.G.S.X.
0.2522.60.69At4g19470827688disease resistance protein-relatedF:protein binding;P:biological_process unknown;C:cellular_component unknown;PMBOFO.I.H.G.S.X.
0.2420.70.68At3g274503768952-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2420.70.67At5g03000831712kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MPBOVAFO.I.H.G.S.X.
0.2319.30.67At3g26480822253transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:unknown;BMFOPAO.I.H.G.S.X.
0.2319.30.70At2g39320818517OTU-like cysteine protease family proteinF:cysteine-type peptidase activity;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.2217.50.69At1g26360839178MES13 (METHYL ESTERASE 13)Encodes a protein predicted to act as a carboxylesterase. It has similarity to the SABP2 methyl salicylate esterase from tobacco but no enzymatic activity has been identified for this protein.O.I.H.G.S.X.
0.2217.50.67At2g03380814867pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFO.I.H.G.S.X.
0.2217.50.68At1g53360841772F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.1811.40.67At1g55790842028ATP binding / nucleotide binding / phenylalanine-tRNA ligaseF:phenylalanine-tRNA ligase activity, nucleotide binding, ATP binding;P:phenylalanyl-tRNA aminoacylation, translation;C:cytoplasm;PFMOBO.I.H.G.S.X.
0.146.80.68At1g77010844037pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFO.I.H.G.S.X.
0.135.80.68At4g18490827581unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAO.I.H.G.S.X.
0.124.90.67At3g43770823488transposable element geneF:unknown;P:unknown;C:unknownO.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
64.499.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
58.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.999.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.599.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.599.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
55.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.499.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.499.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
51.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.299.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
48.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.599.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
43.999.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.099.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.399.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
27.399.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.099.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.899.6GSM184481Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.999.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.199.4GSM184477Lateral Root Cap root cells 2hr KCl control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.699.4GSM142730CH001_ATH1_A009-Hampt-wsc_repeatGSE6161Differential gene expression patterns in Arabidopsis mutants lacking the K+ channels, akt1, cngc1 and cngc4.Link to GEO
14.299.4GSM133718Urwin_A-2-Urwin-Inf_SLDGSE5724Plant gene expression associated with susceptibility to nematodesLink to GEO
13.499.4GSM184479Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.199.4GSM133763Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.099.4GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.699.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.299.3GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
12.099.3GSM133761Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.599.3GSM184484Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.499.3GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.299.2GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.699.2GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.699.2GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.699.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.699.2GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
9.999.1GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.599.1GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.599.1GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.199.1GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.099.1GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0421GO:0051026The cell cycle process whereby a connection between chromatids forms, indicating where an exchange of homologous segments has taken place by the crossing-over of non-sister chromatids.Link to AmiGO
0.0401GO:0006432The process of coupling phenylalanine to phenylalanyl-tRNA, catalyzed by phenylalanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.Link to AmiGO
0.0391GO:0006821The directed movement of chloride into, out of, within or between cells.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.025100562Inositol phosphate metabolismLink to KEGG PATHWAY
0.025104070Phosphatidylinositol signaling systemLink to KEGG PATHWAY
0.019104144EndocytosisLink 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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