Gene omics information

Query gene ID At3g02870
Gene name VTC4
Organism Arabidopsis thaliana


Co-expressed genes



As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
1.00100.0At3g02870821206VTC4Encodes a L-galactose-1-phosphate phosphatase, involved in ascorbate biosynthesis.S.X.H.G.
0.2930.3At5g24650832536mitochondrial 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;FPMOS.X.H.G.
0.2319.3At1g50575841479lysine decarboxylase family proteinF:carboxy-lyase activity;P:metabolic process;C:chloroplast;BOPFMAS.X.H.G.
0.2217.5At5g17660831632tRNA (guanine-N7-)-methyltransferaseF:tRNA (guanine-N7-)-methyltransferase activity;P:tRNA modification;C:chloroplast;BOMPFS.X.H.G.
0.1710.2At1g74040843742IMS1 (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).S.X.H.G.
0.082.3At4g39280830084phenylalanyl-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;BOMAFPS.X.H.G.
Click here to hide the above table.


Specifically expressed experiments



As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX%ileGSM IDAssay NameGSE IDExperiment Title
57.299.8GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissues
55.499.8E-MEXP-1797-raw-cel-1669768066
54.699.8E-MEXP-1797-raw-cel-1669767958
54.699.8E-MEXP-1797-raw-cel-1669768057
52.999.8GSM284391Arabidopsis GPE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
51.799.8E-MEXP-1797-raw-cel-1669768048
48.399.8E-MEXP-1797-raw-cel-1669768003
46.399.8E-MEXP-1797-raw-cel-1669767985
40.899.8GSM133755Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissues
39.399.8E-MEXP-1797-raw-cel-1669767976
Click here to hide the above table.


Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.023e-240At1g74210843761glycerophosphoryl diester phosphodiesterase family proteinF:phosphoric diester hydrolase activity, glycerophosphodiester phosphodiesterase activity;P:glycerol metabolic process, lipid metabolic process;C:vacuole;BOMPFAVC.G.S.X.
0.031e-138At5g54390835527AHL (ARABIDOPSIS HAL2-LIKE)Encodes a 3'-phosphoadenosine-5'-phosphate (PAP) phosphatase that is sensitive to physiological concentrations of Na+. It does not also act as inositol polyphosphate 1-phosphatases, which other members of the HAL2-like family do. It is proposed that AHL acts in concert with sulphotransferases to prevent both the toxicity of PAP on RNA processing enzymes as well as the product inhibition of PAP on sulphate conjugation.C.G.S.X.
0.024e-136At4g00310827417EDA8 (EMBRYO SAC DEVELOPMENT ARREST 8)F:molecular_function unknown;P:embryonic development ending in seed dormancy, megagametogenesis;C:cellular_component unknown;PFMOC.G.S.X.
0.014e-136At3g13870820600RHD3 (ROOT HAIR DEFECTIVE 3)required for regulated cell expansion and normal root hair development. Encodes an evolutionarily conserved protein with putative GTP-binding motifs that is implicated in the control of vesicle trafficking between the endoplasmic reticulum and the Golgi compartments.C.G.S.X.
0.014e-136At2g22330816765CYP79B3Encodes a cytochrome P450. Involved in tryptophan metabolism. Converts Trp to indole-3-acetaldoxime (IAOx), a precursor to IAA and indole glucosinolates.C.G.S.X.
Click here to hide the above table.



Orthologous genes



Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.351e-32141Glycine maxGmaAffx.92356.1.S1_s_atCF808081--6e-33At3g02870VTC4C.G.S.X.
0.085e-548Hordeum vulgareContig6944_atContig6944--2e-4At3g02870VTC4C.G.S.X.
0.082e-448Oryza sativaOs03g0587000AK071149.1-Inositol-1(or 4)-monophosphatase 2 (EC 3.1.3.25)(IMPase 2) (IMP 2) (Inositol monophosphatase 2)2e-4At3g02870VTC4C.G.S.X.
0.332e-50200Populus trichocarpaPtp.4466.1.S1_atBU829478hypothetical protein-9e-51At3g02870VTC4C.G.S.X.
0.051e-448Triticum aestivumTa.14044.1.S1_atBT009424.1--1e-4At3g02870VTC4C.G.S.X.
0.032e+032Vitis vinifera1612827_atCF512526--6e-1At1g68185ubiquitin-relatedC.G.S.X.
0.062e-446Zea maysZm.13479.1.A1_atAY108945.1inositol monophosphatase 3-6e-4At3g02870VTC4C.G.S.X.
Click here to hide the above table.


Biological processes



Click GO ID to show a list of genes that are associated with the GO ID.

ECCGO IDProcess Name
XGO: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.
XGO:0009409A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
XGO:0019853The chemical reactions and pathways resulting in the formation of L-ascorbic acid; L-ascorbic acid ionizes to give L-ascorbate, (2R)-2-[(1S)-1,2-dihydroxyethyl]-4-hydroxy-5-oxo-2,5-dihydrofuran-3-olate, which is required as a cofactor in the oxidation of prolyl residues to hydroxyprolyl, and other reactions.
CGO:0006790The chemical reactions and pathways involving the nonmetallic element sulfur or compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione.
Click here to hide the above table.


Metabolic pathways



Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View IDLink to Kappa-ViewPathway Name



Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
00053Link to KEGG PATHWAYAscorbate and aldarate metabolism
00562Link to KEGG PATHWAYInositol phosphate metabolism
01100Link to KEGG PATHWAYMetabolic pathways
04070Link to KEGG PATHWAYPhosphatidylinositol signaling system
Click here to hide the above table.



Back to the CoP portal site

Back to the KAGIANA project homepage