Co-expression analysis

Gene ID At3g54930
Gene name serine/threonine protein phosphatase 2A (PP2A) regulatory subunit B', putative
Module size 34 genes
NF 0.52
%ile 72.4



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
0.6277.31.00At3g54930824658serine/threonine protein phosphatase 2A (PP2A) regulatory subunit B', putativeF:protein phosphatase type 2A regulator activity;P:signal transduction;C:chloroplast, protein phosphatase type 2A complex;MPOFO.I.H.G.S.X.
0.7184.20.86At5g15470831400GAUT14 (Galacturonosyltransferase 14)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.6781.60.85At3g01040821312GAUT13 (Galacturonosyltransferase 13)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.6781.60.87At5g04460830324protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPFBVO.I.H.G.S.X.
0.6478.90.84At3g54690824634sugar isomerase (SIS) domain-containing protein / CBS domain-containing proteinF:isomerase activity, sugar binding;P:carbohydrate metabolic process;C:unknown;BOAFPMVO.I.H.G.S.X.
0.6478.90.84At3g55050824671serine/threonine protein phosphatase 2C (PP2C6)F:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;PMOFBO.I.H.G.S.X.
0.6176.70.85At1g22200838825unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MOFPO.I.H.G.S.X.
0.6176.70.86At3g47080823861bindingF:binding;P:unknown;C:unknown;PBOAMO.I.H.G.S.X.
0.5974.70.86At1g54920841930unknown proteinF:molecular_function unknown;P:biological_process unknown;C:membrane;MOPFBO.I.H.G.S.X.
0.5873.80.91At3g07880819979Rho GDP-dissociation inhibitor family proteinF:Rho GDP-dissociation inhibitor activity;P:biological_process unknown;C:cytoplasm;MFPOO.I.H.G.S.X.
0.5873.80.87At1g18150838394ATMPK8ATMPK8,O.I.H.G.S.X.
0.5873.80.88At5g58530835966glutaredoxin family proteinF:electron carrier activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:unknown;PMOBFO.I.H.G.S.X.
0.5773.80.86At3g105408202193-phosphoinositide-dependent protein kinase, putativeF:kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MOPFBVAO.I.H.G.S.X.
0.5570.60.87At4g20890827837TUB9tubulin 9O.I.H.G.S.X.
0.5570.60.86At2g19880816507ceramide glucosyltransferase, putativeF:ceramide glucosyltransferase activity;P:biological_process unknown;C:endomembrane system;MBPFAOO.I.H.G.S.X.
0.5570.60.85At5g61960836317AML1 (ARABIDOPSIS MEI2-LIKE PROTEIN 1)A member of mei2-like gene family, predominantly plant-based family of genes encoding RNA binding proteins with characteristic presence of a highly conserved RNA binding motif first described in the mei2 gene of the fission yeast S. pombe. In silico analyses reveal nine mei2 -like genes in A. thaliana. They were grouped into four distinct clades, based on overall sequence similarity and subfamily-specific sequence elements. AML1 is a member of two sister clades of mei2-like gene family, AML1 through AML5 and belongs to the clade named ALM14. AML1 is expressed during early embryo development, particularly along embryonic axis at torpedo stage, in shoot apex (weaker expression) and in the organogenic regions of floral apices.O.I.H.G.S.X.
0.5469.50.84At1g15470838117transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFBOPAO.I.H.G.S.X.
0.5368.60.83At5g47620834812heterogeneous nuclear ribonucleoprotein, putative / hnRNP, putativeF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFBAO.I.H.G.S.X.
0.5267.40.84At1g14560838018mitochondrial substrate carrier family proteinF:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOO.I.H.G.S.X.
0.5166.30.85At2g17530816260protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.5065.30.85At1g06700837180serine/threonine protein kinase, putativeF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.4963.50.87At1g05960837106bindingF:binding;P:biological_process unknown;C:plasma membrane;MFPBOO.I.H.G.S.X.
0.4963.50.84At1g54290841870eukaryotic translation initiation factor SUI1, putativeF:translation initiation factor activity;P:translational initiation, translation;C:cellular_component unknown;MPFOAVBO.I.H.G.S.X.
0.4862.50.83At1g14290837990SBH2 (SPHINGOID BASE HYDROXYLASE 2)Encodes one of the two redundant sphingoid base hydroxylases (SBH). Involved in sphingolipid trihydroxy long-chain base (4-hydroxysphinganine) biosynthesis. Double mutants of SBHs were dwarfed and not able to progress from vegetative to reproductive growth.O.I.H.G.S.X.
0.4862.50.83At5g53360835417seven in absentia (SINA) family proteinF:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, protein ubiquitination, ubiquitin-dependent protein catabolic process;C:endomembrane system, nucleus;MPOO.I.H.G.S.X.
0.4457.20.83At4g20880827836ethylene-responsive nuclear protein / ethylene-regulated nuclear protein (ERT2)F:unknown;P:unknown;C:nucleus;OMFBPVAO.I.H.G.S.X.
0.4355.30.85At3g03090821117AtVGT1 (Arabidopsis thaliana vacuolar glucose transporter 1)Encodes a vacuolar membrane-localized glucose transporter that can also transport fructose. Mutations in these gene have effects on seed germination and time to flowering.O.I.H.G.S.X.
0.4253.90.84At4g20380827786zinc finger protein (LSD1)LSD1 monitors a superoxide-dependent signal and negatively regulates a plant cell death pathway. contains zinc-finger motifs. LSD1 negatively regulates a basal defense pathway that can act upstream or independently of both NIM1/NPR1 function and SA accumulation following avirulent or virulent pathogen challengeO.I.H.G.S.X.
0.4050.80.83At1g08030837318unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POBO.I.H.G.S.X.
0.3948.40.84At3g12620820442protein phosphatase 2C family protein / PP2C family proteinF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;PMOFBVO.I.H.G.S.X.
0.3846.70.84At3g09760820134zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMFOVBO.I.H.G.S.X.
0.3643.60.83At5g16480831509tyrosine specific protein phosphatase family proteinF:phosphatase activity, protein tyrosine phosphatase activity, phosphoprotein phosphatase activity;P:dephosphorylation;C:cellular_component unknown;FOPBMO.I.H.G.S.X.
0.3541.60.84At1g61770842474DNAJ heat shock N-terminal domain-containing proteinJ domain protein.O.I.H.G.S.X.
0.3133.80.84At4g00110828145GAE3 (UDP-D-GLUCURONATE 4-EPIMERASE 3)Encodes a putative membrane-anchored UDP-D-glucuronate 4-epimerase.O.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
137.199.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
119.699.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
113.099.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
96.399.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
59.099.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.299.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.299.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
40.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.499.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.399.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.799.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.299.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.899.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.799.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.399.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.499.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.999.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.499.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.499.6GSM133774Lindsey_1-26_torpedo-meristem_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
23.999.6E-MEXP-1443-raw-cel-1581869515
23.599.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.999.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.199.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
14.399.4E-MEXP-1443-raw-cel-1581869573
13.999.4GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
13.899.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
13.799.4GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.699.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.599.2E-MEXP-807-raw-cel-1173273144
10.399.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.199.2GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.699.1GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.299.1GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.299.1GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.199.1GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
8.999.0GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0571GO:0010602Regulation of the chemical reactions and pathways involving 1-aminocyclopropane-1-carboxylate, the anion of 1-aminocyclopropane-1-carboxylic acid, a natural product found in plant tissues. It is a key intermediate in the biosynthesis of ethylene (ethene), a fruit-ripening hormone in plants.Link to AmiGO
0.0571GO:0015755The directed movement of fructose into, out of, within or between cells. Fructose exists in a open chain form or as a ring compound. D-fructose is the sweetest of the sugars and is found free in a large number of fruits and honey.Link to AmiGO
0.0571GO:0015758The directed movement of the hexose monosaccharide glucose into, out of, within or between cells.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.019100520Amino sugar and nucleotide sugar metabolismLink to KEGG PATHWAY
0.017100500Starch and sucrose metabolismLink to KEGG PATHWAY
0.002101100Metabolic pathwaysLink 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