Co-expression analysis

Gene ID At5g15640
Gene name mitochondrial substrate carrier family protein
Module size 47 genes
NF 0.15
%ile 11.7



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
1.00100.01.00At5g15640831418mitochondrial substrate carrier family proteinF:binding;P:transport, mitochondrial transport;C:mitochondrion, mitochondrial inner membrane;MFPOO.I.H.G.S.X.
0.2830.30.89At1g51710841596UBP6 (UBIQUITIN-SPECIFIC PROTEASE 6)Ubiquitin-specific protease 6 (UBP6). Deubiquinating enzyme. Interacts with calmodulin.O.I.H.G.S.X.
0.2830.30.89At2g16460816144metal ion bindingF:metal ion binding;P:biological_process unknown;C:mitochondrion, plasma membrane;MFPOBO.I.H.G.S.X.
0.2830.30.88At1g20100838599unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;MOPFBVO.I.H.G.S.X.
0.2624.40.88At5g16760831539inositol 1,3,4-trisphosphate 5/6-kinaseEncodes a inositol 1,3,4-trisphosphate 5/6-kinase.O.I.H.G.S.X.
0.2522.60.88At5g17060831569ATARFB1BA member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to ADP-ribosylation factor 1; ARF 1 (GP:385340) {Drosophila melanogaster), other ARFs and ARF-like proteins.O.I.H.G.S.X.
0.2217.50.88At3g51790824342ATG1 (ARABIDOPSIS TRANSMEMBRANE PROTEIN G1P-RELATED 1)putative transmembrane protein G1p (AtG1) mRNA, completeO.I.H.G.S.X.
0.2115.80.91At3g554108247072-oxoglutarate dehydrogenase E1 component, putative / oxoglutarate decarboxylase, putative / alpha-ketoglutaric dehydrogenase, putativeF:oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, oxoglutarate dehydrogenase (succinyl-transferring) activity, thiamin pyrophosphate binding;P:glycolysis, metabolic process;C:mitochondrion;OBMFPAO.I.H.G.S.X.
0.1912.70.89At5g50960835169NBP35 (NUCLEOTIDE BINDING PROTEIN 35)Highly similar to Saccharomyces cerevisiae NBP35, locus YGL091C. Cytosolic protein that homodimerizes and can assemble both 4Fe-4S - type and 2Fe-2S - type clusters on its amino terminal and carboxy therminal respectively. Null mutants are embryo lethal.O.I.H.G.S.X.
0.1912.70.88At5g550708355982-oxoacid dehydrogenase family proteinF:dihydrolipoyllysine-residue succinyltransferase activity, acyltransferase activity;P:response to oxidative stress, metabolic process;C:cytosolic ribosome, mitochondrion;BOMPFVAO.I.H.G.S.X.
0.1811.40.89At2g04305814969magnesium transporter CorA-like protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOPFAO.I.H.G.S.X.
0.1811.40.87At2g37110818287unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMOO.I.H.G.S.X.
0.1710.20.87At5g52200835296unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.1710.20.88At5g14310831281AtCXE16 (Arabidopsis thaliana carboxyesterase 16)F:hydrolase activity;P:metabolic process;C:endomembrane system;BOPFMAVO.I.H.G.S.X.
0.168.80.88At1g51980841627mitochondrial processing peptidase alpha subunit, putativeF:metalloendopeptidase activity, ATP binding;P:proteolysis, response to salt stress;C:in 6 components;BOMFPAVO.I.H.G.S.X.
0.168.80.89At1g43860840982transcription factorF:transcription factor activity;P:regulation of transcription;C:unknown;MOFAPBO.I.H.G.S.X.
0.168.80.88At2g36300818202integral membrane Yip1 family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MFOPO.I.H.G.S.X.
0.168.80.88At5g38830833874tRNA synthetase class I (C) family proteinF:cysteine-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, cysteinyl-tRNA aminoacylation;C:cytoplasm;OBMFAPVO.I.H.G.S.X.
0.168.80.87At1g488608413083-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putativeF:3-phosphoshikimate 1-carboxyvinyltransferase activity, catalytic activity, transferase activity, transferring alkyl or aryl (other than methyl) groups;P:glyphosate metabolic process, aromatic amino acid family biosynthetic process;C:chloroplast;BOPAFMO.I.H.G.S.X.
0.168.80.89At2g01970814728endomembrane protein 70, putativeF:unknown;P:transport;C:integral to membrane, Golgi apparatus, plasma membrane, plant-type cell wall;MPOFO.I.H.G.S.X.
0.157.80.88At1g51600841585TIFY2Amember of a novel family of plant-specific GATA-type transcription factors.O.I.H.G.S.X.
0.157.80.88At1g05520837054transport protein, putativeF:protein binding, transporter activity, zinc ion binding;P:transport, response to salt stress;C:COPII vesicle coat;MFOPO.I.H.G.S.X.
0.157.80.88At2g45010819109unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMOO.I.H.G.S.X.
0.157.80.89At2g45140819122PVA12 (PLANT VAP HOMOLOG 12)Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent.O.I.H.G.S.X.
0.146.80.88At5g52210835297ATGB1 (ARABIDOPSIS THALIANA GTP-BINDING PROTEIN 1)A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases.O.I.H.G.S.X.
0.146.80.87At4g01320828209ATSTE24CAAX protease with broad substrate specificity. Localized exclusively to the endoplasmic reticulum.O.I.H.G.S.X.
0.135.80.88At3g05280819692integral membrane Yip1 family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.135.80.88At3g24350822024SYP32 (SYNTAXIN OF PLANTS 32)member of Glycoside Hydrolase Family 17O.I.H.G.S.X.
0.135.80.88At5g50870835159UBC27 (ubiquitin-conjugating enzyme 27)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.135.80.87At4g38630830019RPN10 (REGULATORY PARTICLE NON-ATPASE 10)Regulatory particle non-ATPase subunit of the 26S proteasome with multiubiquitin-chain-binding capabilitiesO.I.H.G.S.X.
0.135.80.87At1g54270841868EIF4A-2member of eIF4A - eukaryotic initiation factor 4AO.I.H.G.S.X.
0.135.80.87At2g20420816561succinyl-CoA ligase (GDP-forming) beta-chain, mitochondrial, putative / succinyl-CoA synthetase, beta chain, putative / SCS-beta, putativeF:succinate-CoA ligase (GDP-forming) activity, ATP binding;P:response to cadmium ion, metabolic process;C:mitochondrion;OBMFAPO.I.H.G.S.X.
0.135.80.88At5g13430831184ubiquinol-cytochrome C reductase iron-sulfur subunit, mitochondrial, putative / Rieske iron-sulfur protein, putativeF:metal ion binding;P:oxidation reduction;C:mitochondrion, mitochondrial respiratory chain complex III, membrane;OBPMFAO.I.H.G.S.X.
0.135.80.88At3g02520821060GRF7 (GENERAL REGULATORY FACTOR 7)Encodes GF14 ν, a 14-3-3 protein isoform (14-3-3ν).O.I.H.G.S.X.
0.135.80.89At1g43690840956ubiquitin interaction motif-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPO.I.H.G.S.X.
0.124.90.88At1g80950844435phospholipid/glycerol acyltransferase family proteinF:acyltransferase activity;P:metabolic process;C:endoplasmic reticulum, nucleus;BOMPFO.I.H.G.S.X.
0.124.90.89At2g42520818852DEAD box RNA helicase, putativeF:helicase activity, nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:unknown;C:peroxisome;BMOPFVAO.I.H.G.S.X.
0.124.90.88At5g13160831155PBS1 (avrPphB susceptible 1)Mutant is defective in perception of Pseudomonas syringae avirulence gene avrPphB. Encodes a putative serine-threonine kinase.O.I.H.G.S.X.
0.124.90.88At2g21520816691transporterF:transporter activity;P:transport;C:intracellular;MPFOO.I.H.G.S.X.
0.114.10.88At2g45240819132MAP1A (METHIONINE AMINOPEPTIDASE 1A)Encodes a cytoplasmic MAP1 like methionine aminopeptidase which is involved in removing the N-terminal methionine from proteins. Induced mutants using RNAi technology which knocks out both MAP1 and MAP2 like genes show abnormal development.O.I.H.G.S.X.
0.103.40.88At5g16300831491-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.103.40.88At1g78800844216glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:cellular_component unknown;BOAPMFO.I.H.G.S.X.
0.092.80.88At4g02350828060exocyst complex subunit Sec15-like family proteinF:molecular_function unknown;P:pollen germination, pollen tube growth;C:plasma membrane, membrane, exocyst;MFPOO.I.H.G.S.X.
0.092.80.87At4g26240828730unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFO.I.H.G.S.X.
0.092.80.87At5g06410830529DNAJ heat shock N-terminal domain-containing proteinF:protein binding, heat shock protein binding, chaperone binding;P:protein folding;C:unknown;BOMFPO.I.H.G.S.X.
0.082.30.88At1g65650842876UCH2F:ubiquitin-specific protease activity, ubiquitin thiolesterase activity;P:protein deubiquitination, shoot development, shoot morphogenesis, leaf development, ubiquitin-dependent protein catabolic process;C:nucleus, intracellular, cytoplasm;MFOPO.I.H.G.S.X.
0.071.90.87At1g77140844050VPS45 (VACUOLAR PROTEIN SORTING 45)A peripheral membrane protein that associates with microsomal membranes, likely to function in the transport of proteins to the vacuole. It is a member of Sec1p protein family. It may be involved in the regulation of vesicle fusion reactions through interaction with t-SNAREs at the Golgi trans face.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
64.299.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
61.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
54.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.999.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.899.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
49.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.799.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.999.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.799.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
43.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.999.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.999.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.699.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.699.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.899.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM133761Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
23.099.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.999.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.899.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
14.599.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.599.3GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.499.3GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.299.2GSM311292Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
10.999.2GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.699.2GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
10.699.2GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.599.2GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.599.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.399.2GSM133817Yang_1-2_old-pod_Rep1_ATH1GSE5736To identify changes in gene expression during silique senescence in Arabidopsis thalianaLink to GEO
10.099.2GSM10451WT Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.099.2GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.799.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.699.1GSM133719Deeken_A-1-Deeke-Tum_SLD_REP1GSE5725Agrobacterium tumefaciens-induced tumour development of Arabidopsis thalianaLink to GEO
9.499.1GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.399.1GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.399.1E-MEXP-849-raw-cel-1181980990
9.299.1E-MEXP-509-raw-cel-829148561
9.099.1E-MEXP-849-raw-cel-1181980982
9.099.1GSM10483lec1-1 Post-Mature Green Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
8.899.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0782GO:0016579The removal of one or more ubiquitin moieties from a protein.Link to AmiGO
0.0421GO:0046853The process of introducing a phosphate group into inositol or an inositol derivative. Inositol is the cyclic alcohol 1,2,3,4,5,6-cyclohexanehexol, which is widely distributed in nature and acts as a growth factor in animals and microorganisms.Link to AmiGO
0.0421GO:0048455The process that contributes to the act of giving rise to the stamen. This process pertains to the initial formation of a structure from unspecified parts.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.065200310Lysine degradationLink to KEGG PATHWAY
0.056300020Citrate cycle (TCA cycle)Link to KEGG PATHWAY
0.036401063Biosynthesis of alkaloids derived from shikimate pathwayLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage