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Gene : AT3G23940 A. thaliana

Gene ID  ? AT3G23940
Brief Description  dehydratase family  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? dehydratase family; FUNCTIONS IN: copper ion binding, catalytic activity; INVOLVED IN: pollen development; LOCATED IN: chloroplast stroma, chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Dihydroxy-acid dehydratase (InterPro:IPR004404), Dihydroxy-acid/6-phosphogluconate dehydratase, conserved site (InterPro:IPR020558), Dihydroxy-acid/6-phosphogluconate dehydratase (InterPro:IPR000581).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a member of the dihydroxyacid dehydrates family of proteins that encode enzymes involved in branched chain amino acid biosynthesis. Loss of function mutations have significantly reduced transmission and fertility due to defects in male and female gametophyte development and embryo lethality. Mutants have increased sensitivity to abiotic stressors which may be partially compensated by addition of amino acids to the growth medium.  Source: TAIR, Jun 30, 2015.
  • synonyms:
  • Dihydroxyacid dehydratase,
  • DHAD

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
Dihydroxyacid dehydratase (DHAD) is highly expressed in most vegetative and reproductive tissues. It is an essential gene, and complete disruption caused partial sterility in both male and female gametophyte phases. In addition, reduced expression of DHAD in knockdown mutants resulted in a reduction in the accumulation of all three BCAAs in roots and, as a consequence, led to a shorter root phenotype.[DHAD] 25399005

Genomics

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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
AT3G23940 0.5kb upstream 0.5kb upstream 4437   true Chr3: 8648169-8652605
AT3G23940 0.5kb upstream 0.5kb upstream 500   false Chr3: 8648169-8648668
AT3G23940 0.5kb downstream 0.5kb downstream 4437   true Chr3: 8648669-8653105
AT3G23940 0.5kb downstream 0.5kb downstream 500   false Chr3: 8652606-8653105
AT3G23940 1.0kb upstream 1.0kb upstream 4937   true Chr3: 8647669-8652605
AT3G23940 1.0kb upstream 1.0kb upstream 1000   false Chr3: 8647669-8648668
AT3G23940 1.0kb downstream 1.0kb downstream 4937   true Chr3: 8648669-8653605
AT3G23940 1.0kb downstream 1.0kb downstream 1000   false Chr3: 8652606-8653605
AT3G23940 3.0kb upstream 3.0kb upstream 6937   true Chr3: 8645669-8652605
AT3G23940 3.0kb upstream 3.0kb upstream 3000   false Chr3: 8645669-8648668
AT3G23940 3.0kb downstream 3.0kb downstream 6937   true Chr3: 8648669-8655605
AT3G23940 3.0kb downstream 3.0kb downstream 3000   false Chr3: 8652606-8655605

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6 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
01110 Biosynthesis of secondary metabolites
01230 Biosynthesis of amino acids
01210 2-Oxocarboxylic acid metabolism
00770 Pantothenate and CoA biosynthesis
00290 Valine, leucine and isoleucine biosynthesis

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11 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 TIGR GO annotations assigned by TIGR Arabidopsis annotation effort 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
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016