Co-expression analysis

Gene ID At2g31240
Gene name tetratricopeptide repeat (TPR)-containing protein
Module size 7 genes
NF 0.46
%ile 64.5



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
0.4253.91.00At2g31240817681tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;MBOFPAVO.I.H.G.S.X.
0.6781.60.94At2g31740817731methyltransferaseF:methyltransferase activity;P:metabolic process;C:unknown;OBMPFAO.I.H.G.S.X.
0.5065.30.93At5g06810830572mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.4761.20.94At1g05055839332GTF2H2 (GENERAL TRANSCRIPTION FACTOR IIH 2)Member of transcription factor TFIIH complex. Involved in transcription and DNA repair and interacts with AtXPD.O.I.H.G.S.X.
0.4457.20.95At1g56350842089peptide chain release factor, putativeF:translation release factor activity, codon specific, translation release factor activity;P:translational termination;C:cytoplasm;OBMFPVO.I.H.G.S.X.
0.4050.80.94At5g10630830928elongation factor 1-alpha, putative / EF-1-alpha, putativeF:GTP binding, translation elongation factor activity, GTPase activity, zinc ion binding;P:biological_process unknown;C:intracellular;BMOFPAVO.I.H.G.S.X.
0.3643.60.94At2g03670814895CDC48BCDC48 - like protein AAA-type ATPaseCell. division control protein 48 homolog BO.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
127.999.9GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
121.399.9GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
110.499.9GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
110.399.9GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
70.599.9GSM131318AtGen_6-3322_Saltstress-Roots-3.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
43.899.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
42.599.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.899.7GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
33.899.7E-MEXP-849-raw-cel-1181980982
33.399.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.999.7GSM133945Murray_2-1_T0-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
31.399.7GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
30.599.7GSM131317AtGen_6-3321_Saltstress-Roots-3.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
29.699.7GSM134202Murray_3-1_D1-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
28.799.7GSM133952Murray_2-8_T14-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
27.799.7GSM133953Murray_2-9_T16-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
26.899.7GSM142905WW002_ATH1_A1-willa-CON-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
26.799.7GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
26.499.7GSM133950Murray_2-6_T10-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
24.499.6GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
23.899.6GSM133951Murray_2-7_T12-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
21.199.6GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
21.199.6GSM142907WW002_ATH1_A2-willa-ISOX-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
20.599.6GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
20.099.6GSM142906WW002_ATH1_A2-willa-ISOX-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
17.499.5GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.499.5GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.399.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.199.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.199.5GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.899.5E-MEXP-300-raw-cel-460515489
15.499.5GSM153927ahg1-1 rep2GSE6638Expression data of germinating ahg1, ahg3 and WT seedling in the presence of ABALink to GEO
15.499.5GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
15.399.4GSM134204Murray_3-2_D3-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
14.799.4GSM133968Birnbaum_1-19_LRC-1_Rep1_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
14.199.4GSM133973Birnbaum_1-3_src5-3_Rep3_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
13.599.4GSM133949Murray_2-5_T8-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
13.299.4GSM133309RIKEN-NAKABAYASHI4BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
12.999.3GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.599.3E-MEXP-300-raw-cel-460515357
12.399.3GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.299.3GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.099.3GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.099.3GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
11.399.3E-MEXP-300-raw-cel-460515445
11.299.2E-MEXP-300-raw-cel-460515081
11.099.2E-MEXP-300-raw-cel-460514926
11.099.2GSM133947Murray_2-3_T4-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
10.699.2GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.499.2GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.399.2GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.299.2GSM133948Murray_2-4_T6-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
10.299.2E-MEXP-849-raw-cel-1181980990
9.799.1GSM153929ahg3-1 rep2GSE6638Expression data of germinating ahg1, ahg3 and WT seedling in the presence of ABALink to GEO
9.699.1E-MEXP-300-raw-cel-460515255
9.499.1E-MEXP-300-raw-cel-460515401
9.399.1GSM184635Arabidopsis, root cells, 140 mM NaCl, replicate 2GSE7636Expression analysis of the effect of protoplasting and FACS sorting in rootsLink to GEO
9.299.1GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
8.999.0E-MEXP-300-raw-cel-460515037
8.899.0GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.899.0GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.699.0E-MEXP-849-raw-cel-1181980998

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0006358Any process that modulates the frequency, rate or extent of global transcription from Pol II promoter.Link to AmiGO
0.1051GO:0006289A DNA repair process in which a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts).Link to AmiGO
0.1001GO:0006415The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.050103022Basal transcription factorsLink to KEGG PATHWAY
0.034103420Nucleotide excision 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



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