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Gene : NCED4 A. thaliana

Gene ID  ? AT4G19170
Brief Description  nine-cis-epoxycarotenoid dioxygenase 4  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? nine-cis-epoxycarotenoid dioxygenase 4 (NCED4); LOCATED IN: chloroplast, plastoglobule; EXPRESSED IN: 16 plant structures; EXPRESSED DURING: 9 growth stages; CONTAINS InterPro DOMAIN/s: Carotenoid oxygenase (InterPro:IPR004294); BEST Arabidopsis thaliana protein match is: nine-cis-epoxycarotenoid dioxygenase 5 (TAIR:AT1G30100.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? chloroplast-targeted member of a family of enzymes similar to nine-cis-epoxycarotenoid dioxygenase  Source: TAIR, Jun 30, 2015.
Name  ? nine-cis-epoxycarotenoid dioxygenase 4
  • synonyms:
  • carotenoid cleavage dioxygenase 4,
  • CCD4

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
CCD4 plays a major role in beta-carotene degradation in drying seeds and senescing leaves 24368792

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
AT4G19170 0.5kb upstream 0.5kb upstream 2761   true Chr4: 10481119-10483879
AT4G19170 0.5kb upstream 0.5kb upstream 500   false Chr4: 10481119-10481618
AT4G19170 0.5kb downstream 0.5kb downstream 2761   true Chr4: 10481619-10484379
AT4G19170 0.5kb downstream 0.5kb downstream 500   false Chr4: 10483880-10484379
AT4G19170 1.0kb upstream 1.0kb upstream 3261   true Chr4: 10480619-10483879
AT4G19170 1.0kb upstream 1.0kb upstream 1000   false Chr4: 10480619-10481618
AT4G19170 1.0kb downstream 1.0kb downstream 3261   true Chr4: 10481619-10484879
AT4G19170 1.0kb downstream 1.0kb downstream 1000   false Chr4: 10483880-10484879
AT4G19170 3.0kb upstream 3.0kb upstream 5261   true Chr4: 10478619-10483879
AT4G19170 3.0kb upstream 3.0kb upstream 3000   false Chr4: 10478619-10481618
AT4G19170 3.0kb downstream 3.0kb downstream 5261   true Chr4: 10481619-10486879
AT4G19170 3.0kb downstream 3.0kb downstream 3000   false Chr4: 10483880-10486879

Proteins

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Function

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3 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
01110 Biosynthesis of secondary metabolites
00906 Carotenoid biosynthesis

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Expression

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Interactions

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Homology

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Stocks

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12 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 TAIR GO annotations assigned by TAIR 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
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139