Co-expression analysis

Gene ID At5g04810
Gene name pentatricopeptide (PPR) repeat-containing protein
Module size 6 genes
NF 0.33
%ile 44.0



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
0.9195.61.00At5g04810830360pentatricopeptide (PPR) repeat-containing proteinF:nucleotide binding, nucleic acid binding;P:unknown;C:chloroplast;PMOFBVAO.I.H.G.S.X.
0.4050.80.92At4g01800827922preprotein translocase secA subunit, putativeF:protein binding, ATP binding;P:intracellular protein transport, protein targeting, protein import;C:chloroplast stroma, chloroplast, chloroplast envelope;OBPMAO.I.H.G.S.X.
0.3338.10.92At1g07110837221F2KP (FRUCTOSE-2,6-BISPHOSPHATASE)Encodes the bifunctional enzyme fructose-6-phosphate 2-kinase/fructose-2,6-bisphosphatase.O.I.H.G.S.X.
0.3338.10.91At3g01370821288ATCFM2 (CRM FAMILY MEMBER 2)Encodes a protein containing a CRM domain that is involved in group I and group II intron splicing.O.I.H.G.S.X.
0.2930.30.91At1g23400838948CAF2Promotes the splicing of chloroplast group II introns.O.I.H.G.S.X.
0.135.80.92At5g36170833614HCF109 (HIGH CHLOROPHYLL FLUORESCENT 109)Required for normal processing of polycistronic plastidial transcriptsO.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
689.4100.0GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
171.5100.0GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
147.899.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
70.399.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
59.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.099.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.999.8GSM131590ATGE_35_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
42.099.8GSM142648MC002_ATH1_A9.2-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
41.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.999.8GSM142655MC002_ATH1_A11.3-dubos-mxhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
39.299.8GSM142653MC002_ATH1_A11.1-dubos-mxhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
39.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.099.8GSM131588ATGE_35_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
36.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM142649MC002_ATH1_A9.3-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
34.499.7GSM142647MC002_ATH1_A9.1-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
33.699.7GSM142654MC002_ATH1_A11.2-dubos-mxhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
32.699.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
29.099.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.599.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.699.7GSM131589ATGE_35_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
23.899.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.799.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.599.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.499.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.299.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.099.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.599.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.199.5E-MEXP-1443-raw-cel-1581869573
15.999.5GSM133780Lindsey_1-3_globular-apical_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.999.5GSM133755Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.899.4E-MEXP-807-raw-cel-1173273116
13.699.4E-MEXP-807-raw-cel-1173273060
13.199.4GSM142646MC002_ATH1_A8.3-dubos-aihGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
12.599.3GSM133763Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.299.2GSM142882CW001_ATH1_A1.1-WestC-wsuGSE6178Mechanisms of DNA double strand break repair in Arabidopsis non-homologous end joining mutantsLink to GEO
10.299.2GSM142644MC002_ATH1_A8.1-dubos-aihGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.299.2GSM131558ATGE_9_AGSE5631AtGenExpress: Developmental series (roots)Link to GEO
10.099.2GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
9.699.1GSM142662MB002_ATH1_A2-Eland-ch2GSE6153Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown ArabidopsisLink to GEO
9.499.1GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0GSM39197RRE1_Chitin3GSE2169rre1 and rre2 mutantsLink to GEO
8.699.0GSM131559ATGE_9_BGSE5631AtGenExpress: Developmental series (roots)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3332GO:0000373The splicing of Group II introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group II introns and containing splice site consensus sequences, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions (mechanistically similar to those for splicing of nuclear mRNAs) initiated by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat.Link to AmiGO
0.2861GO:0000372The splicing of Group I introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group I introns and involved in determining the locations of the splice sites (there do not appear to be consensus splice site sequences) as well as having a role in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions, generally with exogenous guanosine as the initiating nucleophile. The intron is excised as a linear piece (though it may subsequently circularize).Link to AmiGO
0.2501GO:0017038The directed movement of proteins into a cell or organelle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.063103060Protein exportLink to KEGG PATHWAY
0.039100051Fructose and mannose metabolismLink 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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