Co-expression analysis

Gene ID At3g11380
Gene name pentatricopeptide (PPR) repeat-containing protein
Module size 47 genes
NF 0.45
%ile 63.5



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
0.8190.41.00At3g11380820310pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POMBFO.I.H.G.S.X.
0.8693.10.87At2g42180818818unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7284.80.91At2g02290814760NLI interacting factor (NIF) family proteinF:phosphoprotein phosphatase activity;P:biological_process unknown;C:nucleus;OMPFO.I.H.G.S.X.
0.7083.50.88At1g74110843751CYP78A10member of CYP78AO.I.H.G.S.X.
0.6982.90.88At5g43110834328APUM14 (Arabidopsis Pumilio 14)F:RNA binding, binding;P:unknown;C:cellular_component unknown;FOMPO.I.H.G.S.X.
0.6680.10.86At5g62380836359ANAC101 (ARABIDOPSIS NAC-DOMAIN PROTEIN 101)Encodes a NAC-domain transcription factor involved in xylem formation. Induces transdifferentiation of various cells into metaxylem vessel elements. Located in the nucleus. Expression induced in the presence of auxin, cytokinin and brassinosteroids.O.I.H.G.S.X.
0.6176.70.87At3g53290824496CYP71B30Pmissing N-term 80 AA not found between end of 71B5 and start of this sequence probably a pseudogene, from http://drnelson.utmem.edu/biblioD.htmlO.I.H.G.S.X.
0.5974.70.84At3g60560825227unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5974.70.88At5g17740831642AAA-type ATPase family proteinF:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:biological_process unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.5873.80.88At4g23780828478unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPBVO.I.H.G.S.X.
0.5570.60.87At3g18650821396agl103 (AGAMOUS-LIKE 103)F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:nucleus, chloroplast;POMFBO.I.H.G.S.X.
0.5469.50.86At2g116803767822transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5368.60.84At3g08500819997MYB83 (myb domain protein 83)Encodes a putative R2R3-type MYB transcription factor (MYB83).O.I.H.G.S.X.
0.5267.40.88At1g21860838788sks7 (SKU5 Similar 7)F:oxidoreductase activity, copper ion binding;P:unknown;C:plant-type cell wall;FBPMOAO.I.H.G.S.X.
0.5267.40.85At3g12720820454ATMYB67 (MYB DOMAIN PROTEIN 67)Member of the R2R3 factor gene family.O.I.H.G.S.X.
0.5065.30.84At3g32960823060unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4963.50.85At2g111803768078transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4963.50.84At2g076933768137transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4862.50.84At1g60300842325apical meristem formation protein-relatedF:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.4659.80.86At1g01150839294DNA binding / protein binding / zinc ion bindingF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription;C:unknown;PMOO.I.H.G.S.X.
0.4659.80.85At5g33200833275transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4558.30.84At1g19460838530kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBVOAFO.I.H.G.S.X.
0.4558.30.84At1g35820840484unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4457.20.84At1g424103767250transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4355.30.85At2g07692815368unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.84At3g313803769188transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4355.30.86At1g437453767315transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4253.90.86At4g18080827533unknown proteinF:molecular_function unknown;P:biological_process unknown;C:plant-type cell wall;PO.I.H.G.S.X.
0.4050.80.84At3g08750820022F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POO.I.H.G.S.X.
0.4050.80.85At3g30840822861unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4050.80.87At1g401503767174transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3948.40.85At2g056603768558transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3745.00.86At3g19530821489unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3643.60.86At3g296503769022transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3541.60.85At4g08130826356transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3541.60.84At3g43470823432nucleic acid binding / zinc ion bindingF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3338.10.85At3g308003769137transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3338.10.85At1g37020840613Ulp1 protease family proteinF:cysteine-type peptidase activity;P:proteolysis;C:cellular_component unknown;POMBFAO.I.H.G.S.X.
0.3338.10.87At3g07710819962-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3338.10.84At2g144203768298transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3235.70.84At2g29610817511-pseudogene of the F-box protein family, contains Pfam profile PF00646: F-box domainO.I.H.G.S.X.
0.3235.70.84At5g303803770931transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3133.80.84At2g047603767977transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3032.10.86At2g39790818564mitochondrial glycoprotein family protein / MAM33 family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast, mitochondrial matrix;PFOO.I.H.G.S.X.
0.2930.30.83At1g360353766971transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2830.30.84At4g044403769954transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2522.60.84At2g116903767823transposable element geneF:unknown;P:unknown;C:unknownO.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
74.199.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
62.899.8GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
61.399.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.799.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.899.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.199.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.899.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
43.699.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.899.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.999.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.899.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
37.499.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.899.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.399.7GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
33.299.7E-MEXP-807-raw-cel-1173273196
32.999.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.899.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.799.7GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
23.699.6E-MEXP-807-raw-cel-1173273088
22.699.6GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
22.299.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.499.6GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.099.5E-MEXP-807-raw-cel-1173272948
17.799.5GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
16.799.5GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
15.799.5GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
15.399.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.299.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.799.4E-MEXP-807-raw-cel-1173273116
14.299.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
13.999.4GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.799.4GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.699.4GSM142750MJ001_ATH1_A1-jones-WT1GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
12.499.3GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.399.3E-MEXP-807-raw-cel-1173273170
11.699.3E-ATMX-35-raw-cel-1574334848
11.499.3GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.299.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.099.2GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.999.2GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.999.2GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.499.2GSM142751MJ001_ATH1_A2-jones-WT2GSE6165The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.Link to GEO
10.299.2GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.199.2GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.099.2GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.799.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.799.1GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.299.1GSM232886Wt.4-3.90GSE9201Identification of genes responding to the activity of the Arabidopsis cytochrome P450 KLUH/CYP78A5Link to GEO
8.999.0GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.799.0GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0E-MEXP-807-raw-cel-1173273252

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0341GO:0010089The formation of the principal water-conducting tissue of a vascular plant.Link to AmiGO
0.0311GO:0009741A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a brassinosteroid stimulus.Link to AmiGO
0.0221GO:0009735A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cytokinin stimulus.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.018100945Stilbenoid, diarylheptanoid and gingerol biosynthesisLink to KEGG PATHWAY
0.017100903Limonene and pinene degradationLink 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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