Co-expression analysis

Gene ID At3g55730
Gene name MYB109 (myb domain protein 109)
Module size 46 genes
NF 0.15
%ile 11.3



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
1.00100.01.00At3g55730824739MYB109 (myb domain protein 109)putative transcription factor MYB109 (MYB109) mRNA,O.I.H.G.S.X.
0.3338.10.85At2g47350819348PAPA-1-like family protein / zinc finger (HIT type) family proteinF:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.3133.80.86At4g17895827513UBP20 (UBIQUITIN-SPECIFIC PROTEASE 20)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.2830.30.85At1g68920843225basic helix-loop-helix (bHLH) family proteinF:transcription factor activity;P:regulation of transcription;C:nucleus;PMOBFVAO.I.H.G.S.X.
0.2624.40.85At1g24460839062unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.2624.40.86At3g61800825353-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPBFAVO.I.H.G.S.X.
0.2522.60.86At5g65290836654LMBR1 integral membrane family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system, integral to membrane;MOFPO.I.H.G.S.X.
0.2420.70.84At2g27480817293calcium ion bindingF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.2319.30.84At3g61570825330GDAP1 (GRIP-RELATED ARF-BINDING DOMAIN-CONTAINING ARABIDOPSIS PROTEIN 1)This gene is predicted to encode a protein that functions as a Golgi apparatus structural component known as a golgin in mammals and yeast. A fluorescently-tagged version of GC3 co-localizes with Golgi markers, and this localization appears to be replicated using the C-terminal (161 aa) portion of the protein.O.I.H.G.S.X.
0.2319.30.87At4g11800826786hydrolase/ protein serine/threonine phosphataseF:hydrolase activity, protein serine/threonine phosphatase activity;P:biological_process unknown;C:endoplasmic reticulum;BPOO.I.H.G.S.X.
0.2115.80.84At1g60420842337DC1 domain-containing proteinF:oxidoreductase activity, antioxidant activity;P:response to cadmium ion;C:cellular_component unknown;BOMPAFO.I.H.G.S.X.
0.2014.40.87At5g20680832191unknown proteinF:unknown;P:biological_process unknown;C:unknown;POMFVBO.I.H.G.S.X.
0.1912.70.86At2g19950816514GC1 (Golgin Candidate 1)This gene is predicted to encode a protein that functions as a Golgi apparatus structural component known as a golgin in mammals and yeast. A fluorescently-tagged version of GC1 co-localizes with Golgi markers, and this localization appears to be replicated using the C-terminal (558-715 aa) portion of the protein.O.I.H.G.S.X.
0.1912.70.85At5g45900834630APG7 (AUTOPHAGY 7)Component of autophagy conjugation pathway. Required for proper senescence.O.I.H.G.S.X.
0.1912.70.86At5g10270830891CDKCEncodes CDKC;1, 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.O.I.H.G.S.X.
0.1811.40.85At2g23140816846binding / ubiquitin-protein ligaseF:ubiquitin-protein ligase activity, binding;P:protein ubiquitination;C:ubiquitin ligase complex;OPMFBVAO.I.H.G.S.X.
0.1811.40.85At2g46700819282calcium-dependent protein kinase, putative / CDPK, putativeF:in 6 functions;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:unknown;MOPFBVAO.I.H.G.S.X.
0.1710.20.85At4g24400828542CIPK8 (CBL-INTERACTING PROTEIN KINASE 8)Encodes a CBL (calcineurin B-like calcium sensor proteins) -interacting serine/threonine protein kinase.O.I.H.G.S.X.
0.1710.20.86At5g20610832183unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;OMPBFAVO.I.H.G.S.X.
0.1710.20.85At3g23540821933-F:unknown;P:unknown;C:cellular_component unknown;OBMFPAO.I.H.G.S.X.
0.168.80.84At2g36960818270TKI1 (TSL-kinase interacting protein 1)Arabidopsis thaliana myb/SANT domain proteinO.I.H.G.S.X.
0.168.80.85At1g30300839910unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBPAFO.I.H.G.S.X.
0.168.80.85At2g22690816800protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:unknown;C:unknown;MFPOO.I.H.G.S.X.
0.168.80.84At1g20670838655DNA-binding bromodomain-containing proteinF:DNA binding;P:biological_process unknown;C:cellular_component unknown;OMFPBVO.I.H.G.S.X.
0.157.80.84At2g05260815074lipase class 3 family proteinF:triacylglycerol lipase activity;P:lipid metabolic process;C:cellular_component unknown;PO.I.H.G.S.X.
0.157.80.85At1g61690842466phosphoinositide bindingF:phosphoinositide binding;P:signal transduction;C:unknown;MOFBPAVO.I.H.G.S.X.
0.146.80.86At5g42350834241kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBO.I.H.G.S.X.
0.146.80.85At1g30000839879glycoside hydrolase family 47 proteinF:mannosyl-oligosaccharide 1,2-alpha-mannosidase activity, alpha-mannosidase activity, calcium ion binding;P:protein amino acid N-linked glycosylation;C:Golgi apparatus;MFOPBO.I.H.G.S.X.
0.135.80.85At1g68160843144unknown proteinF:unknown;P:biological_process unknown;C:chloroplast;POFO.I.H.G.S.X.
0.135.80.84At1g68980843231pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.124.90.86At3g52570824423ATP bindingF:ATP binding;P:unknown;C:mitochondrion;BOMFPAO.I.H.G.S.X.
0.114.10.84At4g11860826793-F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;MFOPBO.I.H.G.S.X.
0.114.10.85At5g04270830306zinc ion bindingF:zinc ion binding;P:biological_process unknown;C:endomembrane system;MOFPO.I.H.G.S.X.
0.114.10.84At1g22020838807SHM6 (serine hydroxymethyltransferase 6)Encodes a putative serine hydroxymethyltransferase.O.I.H.G.S.X.
0.114.10.85At2g16920816195UBC23 (UBIQUITIN-CONJUGATING ENZYME 23)F:ubiquitin-protein ligase activity, small conjugating protein ligase activity;P:regulation of protein metabolic process, post-translational protein modification;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.103.40.86At1g12470837804Pep3/Vps18/deep orange family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MFOPBO.I.H.G.S.X.
0.103.40.85At2g42700818870-F:molecular_function unknown;P:vesicle-mediated transport, vesicle docking during exocytosis;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.092.80.85At5g19050832024unknown proteinF:unknown;P:biological_process unknown;C:chloroplast;FOBMPVO.I.H.G.S.X.
0.082.30.84At5g19420832062Ran GTPase binding / chromatin binding / zinc ion bindingF:chromatin binding, zinc ion binding, Ran GTPase binding;P:unknown;C:unknown;MOPBFAVO.I.H.G.S.X.
0.082.30.85At3g26400822244EIF4B1member of eIF4B - eukaryotic initiation factor 4BO.I.H.G.S.X.
0.071.90.85At4g25840828690GPP1 (glycerol-3-phosphatase 1)F:hydrolase activity, catalytic activity;P:metabolic process;C:chloroplast;BOMFPAO.I.H.G.S.X.
0.071.90.85At4g38930830048ubiquitin fusion degradation UFD1 family proteinF:molecular_function unknown;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;OFMPO.I.H.G.S.X.
0.071.90.84At5g43320834350ckl8 (Casein Kinase I-like 8)F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPBFVAO.I.H.G.S.X.
0.071.90.84At5g47200834766ATRAB1AF:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVAO.I.H.G.S.X.
0.061.40.85At5g20930832217TSL (TOUSLED)Nuclear serine/threonine protein kinase that requires a coiled-coil region for oligomerization and catalytic activity. Required for leaf and flower development. Expression localized to the developing style by stage 13.O.I.H.G.S.X.
0.061.40.85At2g35100818076ARAD1 (ARABINAN DEFICIENT 1)Putative glycosyltransferase, similar to other CAZy Family 47 proteins. The protein is predicted to be a type 2 membrane protein with a signal anchor and is predicted to be targeted to the secretory pathway and to have a single transmembrane helix near the N terminus; hence, the protein has the features expected for a type II membrane protein targeted to the Golgi vesicles. The gene was shown to be expressed in all tissues but particularly in vascular tissues of leaves and stems.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
75.499.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
61.299.8GSM133781Lindsey_1-6_globular-basal_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
45.599.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
43.999.8E-ATMX-35-raw-cel-1574334832
42.999.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.599.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.299.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.899.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
39.399.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.799.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.999.8E-ATMX-35-raw-cel-1574334800
36.599.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.599.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.899.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.699.7E-ATMX-35-raw-cel-1574334816
33.599.7GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
30.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.399.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.999.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
24.299.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.599.6GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
23.299.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
17.099.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
16.399.5GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.899.5GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.799.5E-MEXP-1443-raw-cel-1581869515
12.999.3GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.799.3GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
11.599.3GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.599.2GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.699.1GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.499.1GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0431GO:0006497The covalent or non-covalent attachment of lipid moieties to an amino acid in a protein.Link to AmiGO
0.0411GO:0045489The chemical reactions and pathways resulting in the formation of pectin, a polymer containing a backbone of alpha-1,4-linked D-galacturonic acid residues.Link to AmiGO
0.0381GO:0007030A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.036104140Regulation of autophagyLink to KEGG PATHWAY
0.032100670One carbon pool by folateLink to KEGG PATHWAY
0.029100460Cyanoamino acid metabolismLink 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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