Co-expression analysis

Gene ID At3g02870
Gene name VTC4
Module size 6 genes
NF 0.27
%ile 31.5



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
1.00100.01.00At3g02870821206VTC4Encodes a L-galactose-1-phosphate phosphatase, involved in ascorbate biosynthesis.O.I.H.G.S.X.
0.2930.30.81At5g24650832536mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family proteinF:protein transporter activity, P-P-bond-hydrolysis-driven protein transmembrane transporter activity;P:protein transport;C:chloroplast, plasma membrane, vacuole, mitochondrial inner membrane presequence translocase complex, chloroplast envelope;FPMOO.I.H.G.S.X.
0.2319.30.81At1g50575841479lysine decarboxylase family proteinF:carboxy-lyase activity;P:metabolic process;C:chloroplast;BOPFMAO.I.H.G.S.X.
0.2217.50.82At5g17660831632tRNA (guanine-N7-)-methyltransferaseF:tRNA (guanine-N7-)-methyltransferase activity;P:tRNA modification;C:chloroplast;BOMPFO.I.H.G.S.X.
0.1710.20.82At1g74040843742IMS1 (2-ISOPROPYLMALATE SYNTHASE 1)Encodes an active Arabidopsis isopropylmalate synthase IPMS2. Involved in leucine biosynthesis. Do not participate in the chain elongation of glucosinolates. Expressed constitutively throughout the plant. Loss of IPMS2 can be compensated by a second isopropylmalate synthase gene IPMS1 (At1g18500).O.I.H.G.S.X.
0.082.30.80At4g39280830084phenylalanyl-tRNA synthetase, putative / phenylalanine--tRNA ligase, putativeF:phenylalanine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:phenylalanyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMAFPO.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
74.999.9GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
68.199.9GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
52.999.8GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
49.199.8GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
44.399.8GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
43.399.8GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
42.999.8GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
42.699.8GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
41.899.8GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
41.899.8GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
40.699.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.399.8GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
39.999.8GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
33.699.7GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
32.699.7GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
26.599.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.099.7GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
21.099.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.799.6GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
20.499.6GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
20.099.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.199.5GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.999.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.999.5GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
17.899.5GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.299.5GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.199.5GSM153926ahg1-1 rep1GSE6638Expression data of germinating ahg1, ahg3 and WT seedling in the presence of ABALink to GEO
16.999.5GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.699.5GSM10451WT Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
16.499.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.399.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.999.5GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.499.5GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.399.4GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.299.4E-ATMX-1-raw-cel-1112746267
15.099.4GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.899.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.799.4GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.699.4GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.499.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.199.4GSM134304Penfield_1-6_endosperm-ABA_Rep3_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
14.199.4GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.999.4GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.999.4GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.899.3GSM131659ATGE_28_B2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
12.899.3E-ATMX-1-raw-cel-1112746154
12.699.3GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.699.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.499.3GSM131660ATGE_28_C2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
12.299.3E-ATMX-1-raw-cel-1112746209
12.099.3GSM10453WT Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.099.3GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.099.3GSM131658ATGE_28_A2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
11.899.3GSM153927ahg1-1 rep2GSE6638Expression data of germinating ahg1, ahg3 and WT seedling in the presence of ABALink to GEO
11.599.3GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.499.3GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.899.2GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.799.2GSM133749Turner_A-3-Turne-Mut-Base1_SLDGSE5729Role of COV in vascular patterningLink to GEO
10.699.2GSM134302Penfield_1-4_endosperm-ABA_Rep1_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
10.399.2GSM10484lec1-1 Post-Mature Green Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
9.899.1GSM131696ATGE_79_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.699.1GSM131643ATGE_2_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.599.1GSM142632MC002_ATH1_A4.1-dubos-6kcGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.399.1GSM131694ATGE_79_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.299.1GSM133750Turner_A-4-Turne-Mut-Base2_SLDGSE5729Role of COV in vascular patterningLink to GEO
9.299.1GSM131645ATGE_2_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
8.999.0GSM131695ATGE_79_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.899.0GSM153928ahg3-1 rep1GSE6638Expression data of germinating ahg1, ahg3 and WT seedling in the presence of ABALink to GEO
8.699.0GSM131644ATGE_2_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0006400The covalent alteration of one or more nucleotides within a tRNA molecule to produce a tRNA molecule with a sequence that differs from that coded genetically.Link to AmiGO
0.2001GO:0006021The chemical reactions and pathways resulting in the formation of inositol, 1,2,3,4,5,6-cyclohexanehexol, a growth factor for animals and microorganisms.Link to AmiGO
0.1541GO:0006432The process of coupling phenylalanine to phenylalanyl-tRNA, catalyzed by phenylalanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.054100290Valine, leucine and isoleucine biosynthesisLink to KEGG PATHWAY
0.053100053Ascorbate and aldarate metabolismLink to KEGG PATHWAY
0.047100562Inositol phosphate 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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