Co-expression analysis

Gene ID At3g16350
Gene name myb family transcription factor
Module size 44 genes
NF 0.46
%ile 64.8



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
0.7687.41.00At3g16350820882myb family transcription factorF:transcription factor activity, DNA binding;P:in 7 processes;C:unknown;PMOBFVO.I.H.G.S.X.
0.6277.30.84At1g15920838162CCR4-NOT transcription complex protein, putativeF:ribonuclease activity, nucleic acid binding;P:RNA modification;C:nucleus;PMOFO.I.H.G.S.X.
0.6176.70.80At1g79660844305unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6176.70.81At3g50910824255unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMBO.I.H.G.S.X.
0.6075.70.78At4g20890827837TUB9tubulin 9O.I.H.G.S.X.
0.5873.80.86At1g53320841766AtTLP7 (TUBBY LIKE PROTEIN 7)Member of TLP familyO.I.H.G.S.X.
0.5873.80.83At1g14290837990SBH2 (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.
0.5673.00.83At3g55050824671serine/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.
0.5673.00.84At1g36050840509unknown proteinF:molecular_function unknown;P:fatty acid biosynthetic process;C:plasma membrane;MOFPO.I.H.G.S.X.
0.5469.50.82At5g04460830324protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPFBVO.I.H.G.S.X.
0.5368.60.80At1g18150838394ATMPK8ATMPK8,O.I.H.G.S.X.
0.5267.40.78At1g22200838825unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MOFPO.I.H.G.S.X.
0.5166.30.78At2g17530816260protein 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.
0.5065.30.79At3g01040821312GAUT13 (Galacturonosyltransferase 13)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.4963.50.81At1g19110838494inter-alpha-trypsin inhibitor heavy chain-relatedF:molecular_function unknown;P:biological_process unknown;C:plasma membrane, membrane;MBOPFAO.I.H.G.S.X.
0.4862.50.78At2g34770818042FAH1 (FATTY ACID HYDROXYLASE 1)encodes a fatty acid hydroxylase, required for the AtBI-1-mediated suppression of programmed cell death.O.I.H.G.S.X.
0.4862.50.81At3g07880819979Rho GDP-dissociation inhibitor family proteinF:Rho GDP-dissociation inhibitor activity;P:biological_process unknown;C:cytoplasm;MFPOO.I.H.G.S.X.
0.4862.50.80At3g47080823861bindingF:binding;P:unknown;C:unknown;PBOAMO.I.H.G.S.X.
0.4862.50.78At5g15470831400GAUT14 (Galacturonosyltransferase 14)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.4761.20.79At1g67480843069kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOVFAO.I.H.G.S.X.
0.4761.20.79At1g15350838104unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;POO.I.H.G.S.X.
0.4761.20.83At1g74780843817nodulin family proteinF:unknown;P:unknown;C:endomembrane system;BOPFMAO.I.H.G.S.X.
0.4761.20.80At4g26650828772RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPOFBVAO.I.H.G.S.X.
0.4761.20.78At4g35790829733ATPLDDELTAEncodes 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.
0.4558.30.78At5g58530835966glutaredoxin family proteinF:electron carrier activity, protein disulfide oxidoreductase activity;P:cell redox homeostasis;C:unknown;PMOBFO.I.H.G.S.X.
0.4457.20.80At1g28960839773ATNUDX15 (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.
0.4355.30.80At1g15880838158GOS11 (golgi snare 11)Golgi SNARE 11 protein (GOS11)O.I.H.G.S.X.
0.4355.30.79At1g06700837180serine/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.
0.4355.30.79At5g47620834812heterogeneous 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.
0.4253.90.79At1g15470838117transducin 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.
0.4152.40.81At2g46490819258unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.4152.40.81At3g05990819770leucine-rich repeat family proteinF:protein binding;P:signal transduction;C:endomembrane system;POBMFAO.I.H.G.S.X.
0.4152.40.79At1g29750839853RKF1 (RECEPTOR-LIKE KINASE IN FLOWERS 1)Receptor-like serine/threonine kinase (RKF1). The putative extracellular domain of the RKF1 protein contains 13 tandem repeats of leucine-rich sequences. Expressed in early flower primordial, stamen, and pollen grains.O.I.H.G.S.X.
0.4050.80.77At1g61770842474DNAJ heat shock N-terminal domain-containing proteinJ domain protein.O.I.H.G.S.X.
0.3948.40.80At1g14560838018mitochondrial substrate carrier family proteinF:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOO.I.H.G.S.X.
0.3948.40.79At5g61960836317AML1 (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.
0.3948.40.80At3g05580819724serine/threonine protein phosphatase, putativeF:protein serine/threonine phosphatase activity;P:biological_process unknown;C:cellular_component unknown;MOFPBAVO.I.H.G.S.X.
0.3846.70.82At4g27880828901seven 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:mitochondrion, nucleus;MPOFO.I.H.G.S.X.
0.3643.60.78At2g46500819260phosphatidylinositol 3- and 4-kinase family protein / ubiquitin family proteinF:inositol or phosphatidylinositol kinase activity, phosphotransferase activity, alcohol group as acceptor;P:protein modification process;C:cellular_component unknown;MPOFVBO.I.H.G.S.X.
0.3541.60.80At1g05960837106bindingF:binding;P:biological_process unknown;C:plasma membrane;MFPBOO.I.H.G.S.X.
0.3541.60.79At4g20880827836ethylene-responsive nuclear protein / ethylene-regulated nuclear protein (ERT2)F:unknown;P:unknown;C:nucleus;OMFBPVAO.I.H.G.S.X.
0.3338.10.78At2g19880816507ceramide glucosyltransferase, putativeF:ceramide glucosyltransferase activity;P:biological_process unknown;C:endomembrane system;MBPFAOO.I.H.G.S.X.
0.3133.80.79At5g45710834610RHA1 (ROOT HANDEDNESS 1)member of Heat Stress Transcription Factor (Hsf) familyO.I.H.G.S.X.
0.3133.80.80At5g23670832432LCB2Encodes 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.

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
87.999.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
82.699.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
72.099.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
69.799.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.599.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.399.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.199.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.099.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.099.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.599.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.299.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.299.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.599.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.499.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.799.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.199.6E-MEXP-1443-raw-cel-1581869515
22.099.6GSM133774Lindsey_1-26_torpedo-meristem_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.499.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.099.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.399.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.299.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.399.4E-MEXP-1443-raw-cel-1581869573
15.299.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.999.3GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.299.2GSM158702HY213-ESTRADIOL-REP1GSE6954Identification of AGL24 downstream genes by using XVE inducible systemLink to GEO
10.799.2GSM133768Lindsey_1-20_torpedo-basal_Rep5_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.499.2GSM184900Arabidopsis, root cells, endodermis and quiescent center, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.099.2GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.599.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.799.0GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0482GO:0009640The control of plant growth, development, and differentiation by the duration and nature of light, independent of photosynthesis.Link to AmiGO
0.0441GO:0045836Any process that activates or increases the frequency, rate or extent of meiosis.Link to AmiGO
0.0441GO: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

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.037100600Sphingolipid metabolismLink to KEGG PATHWAY
0.022104130SNARE interactions in vesicular transportLink to KEGG PATHWAY
0.014104120Ubiquitin mediated proteolysisLink 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