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Gene : VTC4 A. thaliana

Gene ID  ? AT3G02870
Brief Description  Inositol monophosphatase family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? VTC4; FUNCTIONS IN: 3'(2'),5'-bisphosphate nucleotidase activity, L-galactose-1-phosphate phosphatase activity, inositol or phosphatidylinositol phosphatase activity, inositol-1(or 4)-monophosphatase activity; INVOLVED IN: sulfur metabolic process, L-ascorbic acid biosynthetic process, response to karrikin, response to cold, inositol biosynthetic process; LOCATED IN: plasma membrane; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Inositol monophosphatase, conserved site (InterPro:IPR020550), Inositol monophosphatase (InterPro:IPR000760), Inositol monophosphatase, metal-binding site (InterPro:IPR020583), Inositol monophosphatase, Lithium-sensitive (InterPro:IPR020552); BEST Arabidopsis thaliana protein match is: myo-inositol monophosphatase like 1 (TAIR:AT1G31190.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a L-galactose-1-phosphate phosphatase, involved in ascorbate biosynthesis.  Source: TAIR, Jun 30, 2015.

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
VTC4 is a bifunctional enzyme that impacts both myoinositol and ascorbate synthesis pathways. 19339506


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12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT3G02870 0.5kb upstream 0.5kb upstream 2914   true Chr3: 627512-630425
AT3G02870 0.5kb upstream 0.5kb upstream 500   false Chr3: 629926-630425
AT3G02870 0.5kb downstream 0.5kb downstream 2914   true Chr3: 627012-629925
AT3G02870 0.5kb downstream 0.5kb downstream 500   false Chr3: 627012-627511
AT3G02870 1.0kb upstream 1.0kb upstream 3414   true Chr3: 627512-630925
AT3G02870 1.0kb upstream 1.0kb upstream 1000   false Chr3: 629926-630925
AT3G02870 1.0kb downstream 1.0kb downstream 3414   true Chr3: 626512-629925
AT3G02870 1.0kb downstream 1.0kb downstream 1000   false Chr3: 626512-627511
AT3G02870 3.0kb upstream 3.0kb upstream 5414   true Chr3: 627512-632925
AT3G02870 3.0kb upstream 3.0kb upstream 3000   false Chr3: 629926-632925
AT3G02870 3.0kb downstream 3.0kb downstream 5414   true Chr3: 624512-629925
AT3G02870 3.0kb downstream 3.0kb downstream 3000   false Chr3: 624512-627511


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5 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
01110 Biosynthesis of secondary metabolites
04070 Phosphatidylinositol signaling system
00562 Inositol phosphate metabolism
00053 Ascorbate and aldarate metabolism

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10 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from GOC GO annotations assigned by the GO Consortium 8/01/2016
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
KEGG pathways data set Wiring diagrams of molecular interactions, reactions, and relations 79.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016