Co-expression analysis

Gene ID At1g53500
Gene name MUM4 (MUCILAGE-MODIFIED 4)
Module size 20 genes
NF 0.28
%ile 33.2



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
0.4558.31.00At1g53500841785MUM4 (MUCILAGE-MODIFIED 4)encodes a putative NDP-L-rhamnose synthase, an enzyme required for the synthesis of the pectin rhamnogalacturonan I, the major component of Arabidopsis mucilage. Gene is involved in seed coat mucilage cell development. Mutant analyses suggest that MUM4 is required for complete mucilage synthesis, cytoplasmic rearrangement and seed coat development.O.I.H.G.S.X.
0.5065.30.74At1g18150838394ATMPK8ATMPK8,O.I.H.G.S.X.
0.4253.90.73At1g08030837318unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POBO.I.H.G.S.X.
0.4152.40.75At1g14560838018mitochondrial substrate carrier family proteinF:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOO.I.H.G.S.X.
0.4050.80.73At3g01040821312GAUT13 (Galacturonosyltransferase 13)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.4050.80.74At5g15470831400GAUT14 (Galacturonosyltransferase 14)Encodes a protein with putative galacturonosyltransferase activity.O.I.H.G.S.X.
0.3948.40.73At4g23490828447fringe-related proteinF:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.3948.40.76At3g61590825332HWS (HAWAIIAN SKIRT)F:ubiquitin-protein ligase activity;P:organ development;C:cellular_component unknown;PO.I.H.G.S.X.
0.3948.40.72At2g17530816260protein 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.
0.3745.00.74At3g105408202193-phosphoinositide-dependent protein kinase, putativeF:kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MOPFBVAO.I.H.G.S.X.
0.3745.00.74At1g61770842474DNAJ heat shock N-terminal domain-containing proteinJ domain protein.O.I.H.G.S.X.
0.3032.10.72At3g51470824310protein phosphatase 2C, putative / PP2C, putativeF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVAO.I.H.G.S.X.
0.3032.10.74At2g47490819362mitochondrial substrate carrier family proteinF:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOVO.I.H.G.S.X.
0.2930.30.73At1g06890837199transporter-relatedF:unknown;P:unknown;C:Golgi apparatus, membrane;PMFOBAO.I.H.G.S.X.
0.2830.30.74At3g54690824634sugar 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.
0.2830.30.72At2g41980818798seven in absentia (SINA) family proteinF:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, ubiquitin-dependent protein catabolic process, protein ubiquitination;C:nucleus;MPOFO.I.H.G.S.X.
0.2830.30.72At4g26650828772RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPOFBVAO.I.H.G.S.X.
0.168.80.72At5g47180834764vesicle-associated membrane family protein / VAMP family proteinF:structural molecule activity;P:unknown;C:plasma membrane;MPFOO.I.H.G.S.X.
0.157.80.72At5g01800831924saposin B domain-containing proteinF:molecular_function unknown;P:N-terminal protein myristoylation, lipid metabolic process;C:endomembrane system;MOPO.I.H.G.S.X.
0.071.90.76At3g07940819985zinc finger and C2 domain protein, putativeF:ARF GTPase activator activity, zinc ion binding;P:regulation of ARF GTPase activity;C:cellular_component unknown;MPFOO.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
127.399.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
72.299.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
64.199.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
59.899.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
45.199.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.699.8GSM133774Lindsey_1-26_torpedo-meristem_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
42.599.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.399.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.799.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.099.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.499.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
34.699.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.899.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.399.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.799.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.399.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.799.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
23.199.6GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
22.899.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.599.6E-MEXP-509-raw-cel-829148456
19.599.6E-MEXP-509-raw-cel-829148348
19.299.6E-MEXP-509-raw-cel-829148561
18.699.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.199.5GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.299.5GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink 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
15.099.4GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
14.099.4GSM184908Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.799.4GSM184907Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.699.4GSM311281Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
12.199.3GSM133768Lindsey_1-20_torpedo-basal_Rep5_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.999.3GSM133968Birnbaum_1-19_LRC-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
11.499.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
11.199.2GSM184892Arabidopsis, root cells, columella root cap, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.999.2E-MEXP-509-raw-cel-829148420
10.899.2GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.399.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.299.2E-MEXP-509-raw-cel-829148525
9.599.1GSM133989Birnbaum_1-22_gl2-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
9.599.1GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1E-MEXP-509-raw-cel-829148129
8.999.0GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.699.0GSM184909Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0951GO:0010192The chemical reactions and pathways resulting in the formation of mucilage, a gelatinous substance secreted by plants.Link to AmiGO
0.0911GO:0043132The directed movement of nicotinamide adenine dinucleotide into, out of, within or between cells; transport may be of either the oxidized form, NAD, or the reduced form, NADH.Link to AmiGO
0.0831GO:0010253The chemical reactions and pathways resulting in the formation of UDP-L-rhamnose, a substance composed of rhamnose in glycosidic linkage with uridine diphosphate.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.022100520Amino sugar and nucleotide sugar metabolismLink to KEGG PATHWAY
0.017104120Ubiquitin 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