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Gene : PYM A. thaliana

Gene ID  ? AT1G11400
Brief Description  partner of Y14-MAGO  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? partner of Y14-MAGO (PYM); CONTAINS InterPro DOMAIN/s: Exon junction complex, Pym (InterPro:IPR015362).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? The PYM gene encodes a protein capable of interacting with MAGO, and Y14, whose orthologs form part of the exon junction complex in animal cells. In vitro binding assays indicate that PYM can bind to MAGO and Y14 either individually, or when they are together. But, MAGO-Y14-PYM ternary complexes are difficult to detect in vivo in Arabidopsis based on pull-down experiments. However there is some evidence for a weak association in Arabidopsis flowers. PYM appears primarily cytoplasmic, but it also seems to into the nucleus at times. Its nuclear localization signal has not been rigorously defined, but there is evidence for a nuclear export signal between amino acids 171-205 in the C-terminus.  Source: TAIR, Jun 30, 2015.
Name  ? partner of Y14-MAGO

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
Overexpression of Mago and Y14 in plants produces an increase in PYM protein levels. 21676911

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
AT1G11400 0.5kb upstream 0.5kb upstream 4025   true Chr1: 3837194-3841218
AT1G11400 0.5kb upstream 0.5kb upstream 500   false Chr1: 3837194-3837693
AT1G11400 0.5kb downstream 0.5kb downstream 4025   true Chr1: 3837694-3841718
AT1G11400 0.5kb downstream 0.5kb downstream 500   false Chr1: 3841219-3841718
AT1G11400 1.0kb upstream 1.0kb upstream 4525   true Chr1: 3836694-3841218
AT1G11400 1.0kb upstream 1.0kb upstream 1000   false Chr1: 3836694-3837693
AT1G11400 1.0kb downstream 1.0kb downstream 4525   true Chr1: 3837694-3842218
AT1G11400 1.0kb downstream 1.0kb downstream 1000   false Chr1: 3841219-3842218
AT1G11400 3.0kb upstream 3.0kb upstream 6525   true Chr1: 3834694-3841218
AT1G11400 3.0kb upstream 3.0kb upstream 3000   false Chr1: 3834694-3837693
AT1G11400 3.0kb downstream 3.0kb downstream 6525   true Chr1: 3837694-3844218
AT1G11400 3.0kb downstream 3.0kb downstream 3000   false Chr1: 3841219-3844218

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2 Pathways

Data Source: KEGG

Identifier Name
03015 mRNA surveillance pathway
03013 RNA transport

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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 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
TrEMBL data set Computationally analysed records, enriched with automatic annotation 2016_07
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