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Gene : CRR4 A. thaliana

Gene ID  ? AT2G45350
Brief Description  Pentatricopeptide repeat (PPR) superfamily protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? CHLORORESPIRATORY REDUCTION 4 (CRR4); INVOLVED IN: mRNA modification; LOCATED IN: chloroplast, vacuole; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: Tetratricopeptide repeat (TPR)-like superfamily protein (TAIR:AT4G02750.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a member of a PCMP (plant combinatorial and modular protein) family (PCMP-E subfamily) with 11 pentatricopeptide (PPR) repeats. The protein is involved in RNA editing of the initiation codon of ndhD in the chloroplast.  Source: TAIR, Jun 30, 2015.

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3 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
crr4 is among genes responsible for the specific RNA editing event in the chloroplast [CRR4] 15662426
the pentatricopeptide repeat protein CRR4 is a sequence-specific RNA-binding protein that acts as a site recognition factor in plastid RNA editing 17015439
DYW1, by interaction with CRR4, provides in trans an essential function required for editing of the ndhD-1 site. 23001034


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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
AT2G45350 0.5kb upstream 0.5kb upstream 2376   true Chr2: 18694816-18697191
AT2G45350 0.5kb upstream 0.5kb upstream 500   false Chr2: 18696692-18697191
AT2G45350 0.5kb downstream 0.5kb downstream 2376   true Chr2: 18694316-18696691
AT2G45350 0.5kb downstream 0.5kb downstream 500   false Chr2: 18694316-18694815
AT2G45350 1.0kb upstream 1.0kb upstream 2876   true Chr2: 18694816-18697691
AT2G45350 1.0kb upstream 1.0kb upstream 1000   false Chr2: 18696692-18697691
AT2G45350 1.0kb downstream 1.0kb downstream 2876   true Chr2: 18693816-18696691
AT2G45350 1.0kb downstream 1.0kb downstream 1000   false Chr2: 18693816-18694815
AT2G45350 3.0kb upstream 3.0kb upstream 4876   true Chr2: 18694816-18699691
AT2G45350 3.0kb upstream 3.0kb upstream 3000   false Chr2: 18696692-18699691
AT2G45350 3.0kb downstream 3.0kb downstream 4876   true Chr2: 18691816-18696691
AT2G45350 3.0kb downstream 3.0kb downstream 3000   false Chr2: 18691816-18694815


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0 Pathways

Data Source: KEGG

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RNA-seq Expression


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9 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 UniProt GO annotations assigned by UniProt 8/01/2016
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139