Co-expression analysis

Gene ID At1g71460
Gene name pentatricopeptide (PPR) repeat-containing protein
Module size 26 genes
NF 0.34
%ile 44.6



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
0.5065.31.00At1g71460843487pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.6378.10.91At1g78010844136tRNA modification GTPase, putativeF:GTP binding, GTPase activity;P:small GTPase mediated signal transduction, tRNA modification;C:intracellular;BOMAFPO.I.H.G.S.X.
0.4862.50.90At5g58370835949GTP bindingF:GTP binding;P:unknown;C:intracellular;BOFAPMO.I.H.G.S.X.
0.4659.80.92At3g12210820401sequence-specific DNA bindingF:sequence-specific DNA binding;P:biological_process unknown;C:intracellular;MFPOAO.I.H.G.S.X.
0.4659.80.91At2g33820817949MBAC1encodes a mitochondrial ornithine transporter which exports ornithine from the mitochondrion to the cytosolO.I.H.G.S.X.
0.4457.20.91At1g26090839150unknown proteinF:unknown;P:unknown;C:chloroplast, plastoglobule;BMOAFPO.I.H.G.S.X.
0.4457.20.90At2g39910818578bindingF:binding;P:biological_process unknown;C:unknown;MPO.I.H.G.S.X.
0.4152.40.90At4g19070827645cadmium-responsive protein / cadmium induced protein (AS8)F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;VPOMBAO.I.H.G.S.X.
0.4152.40.91At5g45300834566BMY2 (BETA-AMYLASE 2)F:cation binding, beta-amylase activity, catalytic activity;P:cellulose biosynthetic process, carbohydrate metabolic process, polysaccharide catabolic process;C:cellular_component unknown;PMBOFO.I.H.G.S.X.
0.4050.80.91At1g78690844205phospholipid/glycerol acyltransferase family proteinF:acyltransferase activity;P:metabolic process;C:unknown;BMOFPO.I.H.G.S.X.
0.4050.80.90At3g47390823893cytidine/deoxycytidylate deaminase family proteinF:in 6 functions;P:riboflavin biosynthetic process;C:unknown;BOAFPMVO.I.H.G.S.X.
0.3948.40.90At1g27410839631DNA cross-link repair protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBAO.I.H.G.S.X.
0.3338.10.90At3g48040823959ROP10 (RHO-RELATED PROTEIN FROM PLANTS 10)Encodes a member of the Rop subfamily of Rho GTPases in Arabidopsis that contains a putative farnesylation motif. It is localized to the plasma membrane and involved in the negative regulation of ABA signalling.O.I.H.G.S.X.
0.3338.10.90At3g19570821494unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.3235.70.91At1g01740839253protein kinase family proteinF:in 6 functions;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;PMBOFVAO.I.H.G.S.X.
0.3133.80.92At2g35155818082catalyticF:catalytic activity;P:biological_process unknown;C:cellular_component unknown;PBO.I.H.G.S.X.
0.3133.80.91At4g10180826609DET1 (DE-ETIOLATED 1)Encodes a nuclear-localized protein that acts as a repressor of photomorphogenesis and may be involved in chromatin remodeling.O.I.H.G.S.X.
0.3133.80.91At5g11380831009DXPS3 (1-deoxy-D-xylulose 5-phosphate synthase 3)Encodes a protein postulated to have 1-deoxy-D-xylulose 5-phosphate synthase activity.O.I.H.G.S.X.
0.2930.30.90At2g31450817703endonuclease-relatedF:4 iron, 4 sulfur cluster binding, sequence-specific DNA binding, DNA binding, catalytic activity, endonuclease activity;P:DNA repair, base-excision repair;C:intracellular;BOAMFPO.I.H.G.S.X.
0.2930.30.91At1g03000839315PEX6 (PEROXIN 6)Encodes an apparent ATPase similar to yeast and human protein required for peroxisomal biogenesis. May facilitate recycling of PEX5, the peroxisomal matrix protein receptor, and thereby promote peroxisomal matrix protein import.O.I.H.G.S.X.
0.2726.20.91At5g41480834149GLA1 (GLOBULAR ARREST1)Encodes a dihydrofolate synthetase based on yeast complementation experiments. This protein is involved in folate biosynthesis.O.I.H.G.S.X.
0.2522.60.91At1g18340838415basal transcription factor complex subunit-relatedF:general RNA polymerase II transcription factor activity;P:DNA repair, regulation of transcription, DNA-dependent;C:core TFIIH complex;MFOPO.I.H.G.S.X.
0.2420.70.91At3g15380820777choline transporter-relatedF:unknown;P:biological_process unknown;C:plasma membrane;MOFPO.I.H.G.S.X.
0.2217.50.90At2g31340817692emb1381 (embryo defective 1381)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;PO.I.H.G.S.X.
0.2115.80.92At5g06810830572mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.1912.70.92At3g23710821952chloroplast inner membrane import protein Tic22, putativeF:unknown;P:unknown;C:chloroplast, chloroplast inner membrane;BPOO.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
62.699.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
50.599.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.299.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
39.799.8E-ATMX-1-raw-cel-1112746267
37.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7E-ATMX-1-raw-cel-1112746209
34.599.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.499.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.299.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.699.7E-ATMX-1-raw-cel-1112746154
29.699.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.399.7GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
29.199.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
29.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.699.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.199.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.199.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.099.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
24.699.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.099.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.099.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.599.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.899.6GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.899.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.799.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.299.5GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.799.5GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.799.5GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.299.5GSM128675Underwood_1-28_DC3000-10e8-7h_Rep1_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
17.199.5GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
16.699.5GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.599.5GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
15.499.5GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.399.4GSM128676Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
15.299.4GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
15.199.4GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.099.4GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.899.4GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.599.4GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.399.4GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.999.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.799.4GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.999.3GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.499.3GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.699.3GSM133775Lindsey_1-27_torpedo-meristem_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.599.2E-ATMX-31-raw-cel-1516948018
10.599.2GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.999.1GSM128654Underwood_1-7_DC3000-10e6-24h_Rep1_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
9.999.1GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.899.1GSM311281Laser 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
9.799.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.999.0GSM133313RIKEN-LI2AGSE5701AtGenExpress: Basic hormone treatment of seedsLink to GEO
8.699.0GSM133311RIKEN-LI1AGSE5701AtGenExpress: Basic hormone treatment of seedsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0711GO:0016114The chemical reactions and pathways resulting in the formation of terpenoids, any member of a class of compounds characterized by an isoprenoid chemical structure.Link to AmiGO
0.0691GO:0006400The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.Link to AmiGO
0.0651GO:0000272The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.063100790Folate biosynthesisLink to KEGG PATHWAY
0.034103022Basal transcription factorsLink to KEGG PATHWAY
0.031103410Base 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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