Co-expression analysis

Gene ID At3g05580
Gene name serine/threonine protein phosphatase, putative
Module size 36 genes
NF 0.53
%ile 74.3



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
0.7486.11.00At3g05580819724serine/threonine protein phosphatase, putativeF:protein serine/threonine phosphatase activity;P:biological_process unknown;C:cellular_component unknown;MOFPBAVO.I.H.G.S.X.
0.7184.20.85At4g35790829733ATPLDDELTAEncodes a protein with phospholipase D activity. Involved in phospolipase metabolism. Mutants are affected in hydrogen peroxide mediated cell death.O.I.H.G.S.X.
0.6982.90.84At2g01450814673ATMPK17member of MAP KinaseO.I.H.G.S.X.
0.6982.90.84At1g06890837199transporter-relatedF:unknown;P:unknown;C:Golgi apparatus, membrane;PMFOBAO.I.H.G.S.X.
0.6882.20.85At1g15880838158GOS11 (golgi snare 11)Golgi SNARE 11 protein (GOS11)O.I.H.G.S.X.
0.6882.20.85At1g19110838494inter-alpha-trypsin inhibitor heavy chain-relatedF:molecular_function unknown;P:biological_process unknown;C:plasma membrane, membrane;MBOPFAO.I.H.G.S.X.
0.6579.60.87At5g06560830544unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBFVAO.I.H.G.S.X.
0.6277.30.83At4g01960828190unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6176.70.87At1g79660844305unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5974.70.85At4g26650828772RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPOFBVAO.I.H.G.S.X.
0.5873.80.82At1g28960839773ATNUDX15 (ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 15)F:hydrolase activity, CoA pyrophosphatase activity (sent to SF);P:biological_process unknown;C:mitochondrion;BOMFPAO.I.H.G.S.X.
0.5873.80.84At5g22000832260RHF2A (RING-H2 GROUP F2A)encodes a RING-type E3 ubiquitin ligase implicated in gametogenesis. Double mutant analyses with RHF1a suggests that RHF2a may be involved in targetting ICK4KRP6 for degradation following meiosis in order to allow the mitoses associated with megagametogenesis and microgametogenesis to occur. RHF2a is expressed in all four floral whorls and is present at ~8-fold higher levels than RHF1a in inflorescences by RT-PCR analyses.O.I.H.G.S.X.
0.5873.80.84At5g01800831924saposin B domain-containing proteinF:molecular_function unknown;P:N-terminal protein myristoylation, lipid metabolic process;C:endomembrane system;MOPO.I.H.G.S.X.
0.5773.80.85At5g54310835519AGD5 (ARF-GAP domain 5)A member of ARF GAP domain (AGD), A thaliana has 15 members, grouped into four classes.O.I.H.G.S.X.
0.5773.80.83At4g16110827297ARR2 (ARABIDOPSIS RESPONSE REGULATOR 2)Encodes a pollen-specific transcription factor involved in the expression of nuclear genes for components of mitochondrial complex I in Arabidopsis. Acts in concert with other type-B ARRs in the cytokinin signaling pathway. AHK3 mediates cytokinin-induced phosphorylation of ARR2 on the Asp-80 residue. This phosphorylation plays a positive role of ARR2 in cytokinin-mediated control of leaf longevity.O.I.H.G.S.X.
0.5673.00.84At1g33250840219fringe-related proteinF:transferase activity, transferring glycosyl groups;P:unknown;C:chloroplast, membrane;MPFOO.I.H.G.S.X.
0.5673.00.84At1g61770842474DNAJ heat shock N-terminal domain-containing proteinJ domain protein.O.I.H.G.S.X.
0.5469.50.85At1g71410843482protein kinase family proteinF:binding, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:membrane;MOFPBVAO.I.H.G.S.X.
0.5267.40.82At5g49890835052CLC-C (CHLORIDE CHANNEL C)member of Anion channel protein familyO.I.H.G.S.X.
0.5166.30.84At4g00720828023ATSK32 (SHAGGY-LIKE PROTEIN KINASE 32)F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol;MOPFBVAO.I.H.G.S.X.
0.5166.30.82At1g36050840509unknown proteinF:molecular_function unknown;P:fatty acid biosynthetic process;C:plasma membrane;MOFPO.I.H.G.S.X.
0.5065.30.86At3g01040821312GAUT13 (Galacturonosyltransferase 13)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.5065.30.83At5g23670832432LCB2Encodes the LCB2 subunit of serine palmitoyltransferase, an enzyme involved in sphingosine biosynthesis. The protein is localized to the endoplasmic reticulum.O.I.H.G.S.X.
0.4963.50.83At4g19110827649protein kinase, putativeF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPFBVAO.I.H.G.S.X.
0.4862.50.84At2g31350817693GLX2-5 (GLYOXALASE 2-5)Encodes a mitochondrial glyoxalase 2 that can accommodate a number of different metal centers and with the predominant metal center being Fe(III)Zn(II).O.I.H.G.S.X.
0.4761.20.85At1g13900837949calcineurin-like phosphoesterase family proteinF:hydrolase activity, protein serine/threonine phosphatase activity, metal ion binding, acid phosphatase activity;P:biological_process unknown;C:chloroplast;PBMOFO.I.H.G.S.X.
0.4659.80.83At4g20890827837TUB9tubulin 9O.I.H.G.S.X.
0.4659.80.83At2g17530816260protein 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.
0.4558.30.84At1g18150838394ATMPK8ATMPK8,O.I.H.G.S.X.
0.4558.30.88At5g56340835734zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.4457.20.82At1g15920838162CCR4-NOT transcription complex protein, putativeF:ribonuclease activity, nucleic acid binding;P:RNA modification;C:nucleus;PMOFO.I.H.G.S.X.
0.4457.20.83At1g22200838825unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MOFPO.I.H.G.S.X.
0.4355.30.83At4g38260829983unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOMFPAVO.I.H.G.S.X.
0.4253.90.85At5g32440833203-F:unknown;P:unknown;C:chloroplast;OPMFBO.I.H.G.S.X.
0.4253.90.84At1g65430842854zinc finger protein-relatedF:ubiquitin-protein ligase activity;P:unknown;C:intracellular;MOPFVO.I.H.G.S.X.
0.3745.00.83At5g15470831400GAUT14 (Galacturonosyltransferase 14)Encodes a protein with putative galacturonosyltransferase activity.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
66.499.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
54.999.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
54.799.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
54.699.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.999.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.699.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.799.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.499.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.499.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.399.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.499.7GSM143308Tsu_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
34.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.999.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.599.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.499.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.999.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
15.699.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.999.4GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
13.799.4GSM158702HY213-ESTRADIOL-REP1GSE6954Identification of AGL24 downstream genes by using XVE inducible systemLink to GEO
12.599.3GSM106913opr3_JA_8 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.299.3GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.399.2GSM106914opr3_JA_8 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.299.2GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.099.2GSM106912opr3_JA 8hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.699.1GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.699.1E-MEXP-807-raw-cel-1173273116
9.299.1GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.999.0GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.899.0GSM133774Lindsey_1-26_torpedo-meristem_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
8.699.0GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.699.0GSM142624MC002_ATH1_A1.2-dubos-wtxGSE6151The 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
0.0541GO:0032857Any process that initiates the activity of the inactive enzyme ARF GTPase through the replacement of GDP by GTP.Link to AmiGO
0.0541GO:0046473The chemical reactions and pathways involving phosphatidic acid, any derivative of glycerol phosphate in which both the remaining hydroxyl groups of the glycerol moiety are esterified with fatty acids.Link to AmiGO
0.0541GO:0046512The chemical reactions and pathways resulting in the formation of sphingosine (sphing-4-enine), trans-D-erytho-2-amino-octadec-4-ene-1,3-diol, a long chain amino diol sphingoid base that occurs in most sphingolipids in animal tissues.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.043100600Sphingolipid metabolismLink to KEGG PATHWAY
0.024104130SNARE interactions in vesicular transportLink to KEGG PATHWAY
0.020104144EndocytosisLink 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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