Co-expression analysis

Gene ID At5g01110
Gene name pentatricopeptide (PPR) repeat-containing protein
Module size 12 genes
NF 0.48
%ile 68.3



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
0.6781.61.00At5g01110831824pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:chloroplast;POMFBAO.I.H.G.S.X.
0.6075.70.83At2g33680817933pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POFMBO.I.H.G.S.X.
0.5974.70.84At4g04370825757pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.5773.80.84At1g06140837123pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.5368.60.86At5g45790834619ubiquitin thiolesteraseF:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:intracellular;PO.I.H.G.S.X.
0.5368.60.87At1g56570842111pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBO.I.H.G.S.X.
0.5065.30.86At4g07400826171VFB3 (VIER F-BOX PROTEINE 3)Encodes an F-box protein. Based on genetic analysis appears to be functionally redundant with VFB1,2,and 4. When levels of all 4 genes are reduced plants show defects in growth and reduced levels of auxin response genes.O.I.H.G.S.X.
0.5065.30.83At4g26680828775pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POMFBAO.I.H.G.S.X.
0.4761.20.85At2g35030818067pentatricopeptide (PPR) repeat-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.4253.90.85At5g37570833735pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.3745.00.85At5g08310830727pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:mitochondrion;POFMBAO.I.H.G.S.X.
0.3643.60.85At2g33290817892SUVH2 (SU(VAR)3-9 HOMOLOG 2)Encodes a SU(VAR)3-9 homolog, a SET domain protein. Known SET domain proteins are involved in epigenetic control of gene expression and act as histone methyltransferases. There are 10 SUVH genes in Arabidopsis and members of this subfamily of the SET proteins have an additional conserved SRA domain. Gene is expressed in rosettes, stems, floral buds, and flowers by RT-PCR.O.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
113.199.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
106.699.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.899.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
48.899.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.899.8E-MEXP-807-raw-cel-1173273170
36.399.7E-MEXP-807-raw-cel-1173273223
25.099.6E-MEXP-807-raw-cel-1173273252
24.699.6GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
21.999.6GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
20.099.6E-MEXP-807-raw-cel-1173273196
18.599.5E-MEXP-807-raw-cel-1173273116
18.499.5E-MEXP-807-raw-cel-1173273060
16.699.5E-MEXP-807-raw-cel-1173273144
15.299.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.299.4GSM131317AtGen_6-3321_Saltstress-Roots-3.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
14.099.4GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.699.4GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.599.4GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.599.4GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.999.3GSM131318AtGen_6-3322_Saltstress-Roots-3.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.199.3GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.099.3GSM38668NSNPGSE2268Arabidopsis polysome microarrayLink to GEO
11.899.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.499.3GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.299.2GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.099.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.499.2GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.399.2GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.399.2E-MEXP-1138-raw-cel-1432772522
10.299.2GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.199.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.099.2GSM47035hen1 25GSE2473Small RNA biogenesis mutantsLink to GEO
9.999.1GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.199.1GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.099.1GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
8.899.0E-MEXP-1138-raw-cel-1432772650
8.799.0GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0016571The modification of histones by addition of methyl groups.Link to AmiGO
0.0871GO:0040029Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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