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Gene : AT3G09040 A. thaliana

Gene ID  ? AT3G09040
Brief Description  Pentatricopeptide repeat (PPR) superfamily protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? Pentatricopeptide repeat (PPR) superfamily protein; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: Pentatricopeptide repeat (PPR) superfamily protein (TAIR:AT4G13650.1).  Source: TAIR, Jun 30, 2015.
  • synonyms:
  • mitochondrial RNA editing factor 12,
  • MEF12

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
The longest mitochondrial RNA editing AT3G09040 protein requires the full-length E domain. 23845994

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
AT3G09040 0.5kb upstream 0.5kb upstream 4711   true Chr3: 2760397-2765107
AT3G09040 0.5kb upstream 0.5kb upstream 500   false Chr3: 2764608-2765107
AT3G09040 0.5kb downstream 0.5kb downstream 4711   true Chr3: 2759897-2764607
AT3G09040 0.5kb downstream 0.5kb downstream 500   false Chr3: 2759897-2760396
AT3G09040 1.0kb upstream 1.0kb upstream 5211   true Chr3: 2760397-2765607
AT3G09040 1.0kb upstream 1.0kb upstream 1000   false Chr3: 2764608-2765607
AT3G09040 1.0kb downstream 1.0kb downstream 5211   true Chr3: 2759397-2764607
AT3G09040 1.0kb downstream 1.0kb downstream 1000   false Chr3: 2759397-2760396
AT3G09040 3.0kb upstream 3.0kb upstream 7211   true Chr3: 2760397-2767607
AT3G09040 3.0kb upstream 3.0kb upstream 3000   false Chr3: 2764608-2767607
AT3G09040 3.0kb downstream 3.0kb downstream 7211   true Chr3: 2757397-2764607
AT3G09040 3.0kb downstream 3.0kb downstream 3000   false Chr3: 2757397-2760396

Proteins

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Function

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0 Pathways

Data Source: KEGG

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Expression

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Array Expression

RNA-seq Expression

Co-expression

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Interactions

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Homology

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Stocks

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Other

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 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
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016