Co-expression analysis

Gene ID At1g79340
Gene name AtMC4 (metacaspase 4)
Module size 8 genes
NF 0.11
%ile 7.8



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
0.6378.11.00At1g79340844272AtMC4 (metacaspase 4)F:cysteine-type peptidase activity;P:proteolysis;C:plasma membrane;BOFPAMO.I.H.G.S.X.
0.4355.30.93At4g27320828840universal stress protein (USP) family proteinContains a universal stress protein domain. Protein is phosphorylated in response to Phytophthora infestans zoospores and xylanase.O.I.H.G.S.X.
0.2930.30.92At4g36750829828quinone reductase family proteinF:oxidoreductase activity, FMN binding;P:negative regulation of transcription;C:plasma membrane;BOFPAMVO.I.H.G.S.X.
0.2217.50.92At2g336308179293-beta hydroxysteroid dehydrogenase/isomerase family proteinF:3-beta-hydroxy-delta5-steroid dehydrogenase activity, binding, catalytic activity;P:steroid biosynthetic process, metabolic process;C:endoplasmic reticulum;BOMAFPVO.I.H.G.S.X.
0.2115.80.91At3g47670823921enzyme inhibitor/ pectinesterase/ pectinesterase inhibitorF:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.092.80.92At1g03900839378ATNAP4 (Arabidopsis thaliana non-intrinsic ABC protein 4)member of NAP family, an heterogeneous subfamily of the ATP-binding Cassette (ABC) superfamily of membrane transporters. The NAPs proteins are characterized by having only one nucleotide-binding folds (NBFs) domain.O.I.H.G.S.X.
0.082.30.92At5g46860834730VAM3Syntaxin-related protein required for vacuolar assembly. A member of t-SNARE superfamily, homologous to yest Vam3p. Localized in the vacuolar membranes. The protein has a heptad repeat structure (residues164220) in which hydrophobic amino acid residues appear at seven amino acid intervals. Such regions have a high potential to form an amphiphilic a-helix, intriguing for the intermolecular interactions by forming coiled-coil structure. AtVam3p has a highly hydrophobic segment at its C terminus thus implicating it to be a membrane protein while the rest of the sequence is hydrophilic.O.I.H.G.S.X.
0.051.10.91At1g09920837524TRAF-type zinc finger-relatedF:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOFPO.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
140.899.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
126.499.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
105.499.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
87.799.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.099.8GSM131273AtGen_6-1421_Cold(4°C)-Roots-6.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
49.399.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.899.8GSM131274AtGen_6-1422_Cold(4°C)-Roots-6.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
46.199.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.699.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.499.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.399.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.399.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.199.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.199.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.699.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.199.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.099.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.099.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
30.599.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.299.7GSM131267AtGen_6-1311_Cold(4°C)-Shoots-3.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
27.699.7GSM131272AtGen_6-1412_Cold(4°C)-Shoots-6.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
27.199.7GSM131271AtGen_6-1411_Cold(4°C)-Shoots-6.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
23.799.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.399.6GSM131268AtGen_6-1312_Cold(4°C)-Shoots-3.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
17.899.5Evans_2-12_fab3-7-8-mut-aeq-cold_ATH1
17.899.5GSM131269AtGen_6-1321_Cold(4°C)-Roots-3.0h_Rep1GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
15.799.5E-MEXP-67-raw-cel-323396336
15.499.5GSM131270AtGen_6-1322_Cold(4°C)-Roots-3.0h_Rep2GSE5621AtGenExpress: Stress Treatments (Cold stress)Link to GEO
15.199.4Evans_2-8_35s-FAD3-cold_ATH1
13.999.4Evans_2-10_col-aeq-cold_ATH1
13.399.4Evans_2-4_fab1-mut-cold_ATH1
12.899.3Evans_2-2_col-WT-cold_ATH1
12.399.3GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
12.099.3Evans_2-6_fab2-mut-cold_ATH1
11.899.3GSM269831T6 leaf-drought-rep3GSE10670Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stressLink to GEO
11.199.2GSM74899Wildtype_6H Cold_Rep2GSE3326ICE1 regulation of the Arabidopsis Cold-Responsive TranscriptomeLink to GEO
11.199.2GSM142767MK001_ATH1_A1.4-Knigh-scoGSE6167The molecular basis of chilling and freezing stressLink to GEO
9.799.1GSM142769MK001_ATH1_A-1.6-Knight-cco_repeat2GSE6167The molecular basis of chilling and freezing stressLink to GEO
9.099.1GSM74896Wildtype_3H Cold_Rep1GSE3326ICE1 regulation of the Arabidopsis Cold-Responsive TranscriptomeLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0000903The change in cell shape that occurs during the vegetative growth phase. The vegetative growth phase is the growth phase during which single celled organisms reproduce by budding or other asexual methods.Link to AmiGO
0.2221GO:0006858The transport of substances that occurs outside cells.Link to AmiGO
0.1821GO:0009660A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an amyloplast. An amyloplast is a plastid whose main function is to synthesize and store starch.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.036104130SNARE interactions in vesicular transportLink 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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