Co-expression analysis

Gene ID At4g39790
Gene name unknown protein
Module size 9 genes
NF 0.29
%ile 34.2



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
0.6781.61.00At4g39790830137unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBFMOO.I.H.G.S.X.
0.3541.60.88At4g20350827783unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MFOPBVO.I.H.G.S.X.
0.3338.10.89At1g15720838141TRFL5 (TRF-LIKE 5)Arabidopsis thaliana myb family transcription factor (At1g15720)O.I.H.G.S.X.
0.2930.30.89At4g25540828659MSH3 (Arabidopsis homolog of DNA mismatch repair protein MSH3)encodes a DNA mismatch repair homolog of human MutS gene, MSH6. There are four MutS genes in Arabidopsis, MSH2, MSH3, MSH6, and MSH7, which all act as heterodimers and bind to 51-mer duplexes. MSH2*MSH3 heterodimers bound 'insertion-deletion' DNA with three nucleotides (+AAG) or one nucleotide (+T) looped out much better than they bound DNA with a base/base mispair (T/G).O.I.H.G.S.X.
0.2726.20.89At5g58280835940transcriptional factor B3 family proteinF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:unknown;PO.I.H.G.S.X.
0.2624.40.88At3g06600819839unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2624.40.88At5g05350830417unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PFO.I.H.G.S.X.
0.1912.70.88At2g24310816967unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.114.10.89At4g34360829586protease-relatedF:methyltransferase activity, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMPFAO.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
259.4100.0GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
152.899.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
122.299.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
69.499.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
58.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.399.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
49.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.399.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.599.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.299.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.699.7E-MEXP-1592-raw-cel-1617526984
36.199.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.599.7E-MEXP-1592-raw-cel-1617526848
24.099.6E-MEXP-1592-raw-cel-1617526856
22.799.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.399.6GSM133775Lindsey_1-27_torpedo-meristem_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
21.799.6E-MEXP-1592-raw-cel-1617526952
21.499.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.399.6E-MEXP-1592-raw-cel-1617526888
19.499.6E-MEXP-1592-raw-cel-1617526816
19.199.6E-MEXP-1592-raw-cel-1617526824
19.199.6E-MEXP-1592-raw-cel-1617526976
18.299.5E-MEXP-1592-raw-cel-1617526920
17.699.5GSM131576ATGE_31_A2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.599.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.399.5GSM131577ATGE_31_B2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.599.5E-MEXP-1592-raw-cel-1617526912
15.599.5GSM131578ATGE_31_C2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
15.199.4GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.499.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM131303AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
12.899.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.399.3E-MEXP-849-raw-cel-1181980942
11.299.2E-MEXP-849-raw-cel-1181980966
10.799.2E-MEXP-1592-raw-cel-1617526944
10.399.2GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.299.2GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.199.2E-MEXP-849-raw-cel-1181980958
9.799.1E-MEXP-1592-raw-cel-1617526880
9.699.1GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.499.1E-TABM-63-raw-cel-681137087
9.499.1E-ATMX-13-raw-cel-1556149775
9.499.1GSM131299AtGen_6-2511_Osmoticstress-Shoots-12.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
9.299.1E-MEXP-849-raw-cel-1181980926
9.199.1E-MEXP-849-raw-cel-1181980894
9.099.1E-MEXP-849-raw-cel-1181980934

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0831GO:0006298A system for the correction of errors in which an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.057103430Mismatch repairLink 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