Co-expression analysis

Gene ID At5g02830
Gene name pentatricopeptide (PPR) repeat-containing protein
Module size 32 genes
NF 0.34
%ile 45.6



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
1.00100.01.00At5g02830831772pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:chloroplast;POMFBAO.I.H.G.S.X.
0.5267.40.89At5g10470830911kinesin motor protein-relatedF:microtubule motor activity, ATP binding;P:microtubule-based movement;C:plasma membrane, membrane, chloroplast envelope;MOFPBAVO.I.H.G.S.X.
0.5065.30.89At1g01790837332KEA1 (K EFFLUX ANTIPORTER 1)K efflux antiporter KEA1O.I.H.G.S.X.
0.4862.50.91At1g62750842573SCO1 (SNOWY COTYLEDON 1)Nuclear encoded protein consists of the five domains conserved in EF-G proteins, with two GTP-binding sites in the first domain, and an additional transit peptide at the N-terminus. Localized in chloroplasts. Point mutation results in a delay in the onset of germination. At early developmental stage embryos still contain undifferentiated proplastids. The greening of cotyledons is severely impaired in light-grown mutant sco1 seedlings, whereas the following true leaves develop normally as in wild-type plants.O.I.H.G.S.X.
0.4862.50.91At1g17220838293FUG1 (fu-gaeri1)Encodes a chloroplast localized protein with similarity to translation initiation factor 2. Can complement loss of INFB in E.coli suggesting FUG1 does function as a translation initiation factor in vivo. Identified as a suppressor of the leaf variegation mutant var2-6. Suppression is only seen in hypomorphs as complete loss of function alleles are embryo lethal.O.I.H.G.S.X.
0.4659.80.90At1g71810843511ABC1 family proteinF:protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:chloroplast, plastoglobule;OBMPFAVO.I.H.G.S.X.
0.4558.30.89At3g48200823977unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOPO.I.H.G.S.X.
0.4457.20.88At4g28080828923bindingF:binding;P:unknown;C:unknown;MBFOPAVO.I.H.G.S.X.
0.4457.20.88At2g26080817149AtGLDP2 (Arabidopsis thaliana glycine decarboxylase P-protein 2)F:glycine dehydrogenase (decarboxylating) activity, ATP binding;P:glycine decarboxylation via glycine cleavage system, glycine metabolic process;C:mitochondrion, glycine cleavage complex, chloroplast, chloroplast envelope;OBFAMPO.I.H.G.S.X.
0.4457.20.89At2g32640817824unknown proteinF:unknown;P:unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.4253.90.89At1g54350841876ABC transporter family proteinF:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:chloroplast;BOMFAPVO.I.H.G.S.X.
0.4253.90.89At5g42310834236pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:chloroplast;POMFBAO.I.H.G.S.X.
0.4152.40.88At2g37450818322nodulin MtN21 family proteinF:unknown;P:unknown;C:endomembrane system, membrane;PBOAO.I.H.G.S.X.
0.4050.80.88At4g01800827922preprotein 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.
0.3745.00.88At4g02260828096RSH1 (RELA-SPOT HOMOLOG 1)F:catalytic activity;P:response to wounding;C:chloroplast;BOPMAFVO.I.H.G.S.X.
0.3439.80.89At3g10230820185LYC (LYCOPENE CYCLASE)Encodes a protein with lycopene β-cyclase activity. This enzyme uses the linear, symmetrical lycopene as substrate. However, unlike the ε-cyclase which adds only one ring, the β-cyclase introduces a ring at both ends of lycopene to form the bicyclic β-carotene.O.I.H.G.S.X.
0.3338.10.88At3g29290822586emb2076 (embryo defective 2076)F:unknown;P:embryonic development ending in seed dormancy;C:unknown;POFMBAO.I.H.G.S.X.
0.3133.80.89At1g49010841324myb family transcription factorF:transcription factor activity, DNA binding;P:in 6 processes;C:unknown;PMOFBVO.I.H.G.S.X.
0.3032.10.88At2g23390816871-F:molecular_function unknown;P:biological_process unknown;C:unknown;OBPO.I.H.G.S.X.
0.2930.30.88At5g13650831209elongation factor family proteinF:GTP binding, translation elongation factor activity, GTPase activity;P:unknown;C:chloroplast, chloroplast stroma;BOMFPAO.I.H.G.S.X.
0.2930.30.88At1g07010837211calcineurin-like phosphoesterase family proteinF:hydrolase activity, protein serine/threonine phosphatase activity;P:biological_process unknown;C:peroxisome;OBPFAVO.I.H.G.S.X.
0.2930.30.89At1g31800840067CYP97A3 (CYTOCHROME P450-TYPE MONOOXYGENASE 97A3)Encodes a protein with β-ring carotenoid hydroxylase activity.O.I.H.G.S.X.
0.2930.30.88At3g22150821779pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:chloroplast;POMFBAO.I.H.G.S.X.
0.2930.30.88At5g08650830766GTP-binding protein LepA, putativeF:GTP binding, translation elongation factor activity, GTPase activity;P:unknown;C:chloroplast;BOMFPAO.I.H.G.S.X.
0.2930.30.88At3g04870819647ZDS (ZETA-CAROTENE DESATURASE)Involved in the biosynthesis of carotenes and xanthophylls, reduces zeta-carotene to lycopene.O.I.H.G.S.X.
0.2830.30.87At5g53170835398FTSH11 (FtsH protease 11)encodes an FtsH protease that is localized to the chloroplast and the mitochondrionO.I.H.G.S.X.
0.2420.70.87At5g17230831587phytoene synthase (PSY) / geranylgeranyl-diphosphate geranylgeranyl transferaseEncodes phytoene synthase.O.I.H.G.S.X.
0.2319.30.89At2g41680818766NTRC (NADPH-DEPENDENT THIOREDOXIN REDUCTASE C)Encodes a NADPH thioredoxin reductase involved in chloroplast protection against oxidative damage.O.I.H.G.S.X.
0.2319.30.88At4g29060829027emb2726 (embryo defective 2726)F:RNA binding, translation elongation factor activity;P:embryonic development ending in seed dormancy, translational elongation, response to cadmium ion;C:chloroplast stroma, chloroplast, chloroplast envelope;BOMFPAVO.I.H.G.S.X.
0.2319.30.88At1g12800837836S1 RNA-binding domain-containing proteinF:RNA binding;P:unknown;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.1811.40.88At5g53580835440aldo/keto reductase family proteinF:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:chloroplast;BOMFPAO.I.H.G.S.X.
0.1710.20.88At3g10840820253hydrolase, alpha/beta fold family proteinF:hydrolase activity, catalytic activity;P:unknown;C:chloroplast envelope;BOMPFAVO.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
130.299.9GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
67.899.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
65.299.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.399.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
60.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.199.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
57.999.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.799.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.299.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.299.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.899.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.699.7E-ATMX-35-raw-cel-1574334800
22.599.6E-ATMX-35-raw-cel-1574334832
18.199.5GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.199.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.499.5GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.799.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
16.199.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.499.4GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.499.4E-ATMX-35-raw-cel-1574334816
13.499.4GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.099.3GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.799.3GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.399.1GSM184835Arabidopsis, root, longitudinal zone 3, standard conditions, replicate 5GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
9.199.1GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1052GO:0016120The chemical reactions and pathways resulting in the formation of carotenes, hydrocarbon carotenoids.Link to AmiGO
0.0892GO:0016117The chemical reactions and pathways resulting in the formation of carotenoids, tetraterpenoid compounds in which two units of 4 isoprenoid residues joined head-to-tail are themselves joined tail-to-tail.Link to AmiGO
0.0591GO: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
0.111300906Carotenoid biosynthesisLink to KEGG PATHWAY
0.034103060Protein exportLink to KEGG PATHWAY
0.027301062Biosynthesis of terpenoids and steroidsLink 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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