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Gene : Y14 A. thaliana

Gene ID  ? AT1G51510
Brief Description  RNA-binding (RRM/RBD/RNP motifs) family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? Y14; FUNCTIONS IN: protein binding, RNA binding; INVOLVED IN: RNA processing; LOCATED IN: nucleoplasm, exon-exon junction complex, nuclear body, nucleolus, cytoplasm; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA-binding motif protein 8 (InterPro:IPR008111); BEST Arabidopsis thaliana protein match is: ortholog of human splicing factor SC35 (TAIR:AT5G64200.2).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif, in the Drosophila ortholog (33% identity), this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar, but there is also some evidence for its presence in the cytoplasm.  Source: TAIR, Jun 30, 2015.

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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
AT1G51510 0.5kb upstream 0.5kb upstream 2643   true Chr1: 19102791-19105433
AT1G51510 0.5kb upstream 0.5kb upstream 500   false Chr1: 19104934-19105433
AT1G51510 0.5kb downstream 0.5kb downstream 2643   true Chr1: 19102291-19104933
AT1G51510 0.5kb downstream 0.5kb downstream 500   false Chr1: 19102291-19102790
AT1G51510 1.0kb upstream 1.0kb upstream 3143   true Chr1: 19102791-19105933
AT1G51510 1.0kb upstream 1.0kb upstream 1000   false Chr1: 19104934-19105933
AT1G51510 1.0kb downstream 1.0kb downstream 3143   true Chr1: 19101791-19104933
AT1G51510 1.0kb downstream 1.0kb downstream 1000   false Chr1: 19101791-19102790
AT1G51510 3.0kb upstream 3.0kb upstream 5143   true Chr1: 19102791-19107933
AT1G51510 3.0kb upstream 3.0kb upstream 3000   false Chr1: 19104934-19107933
AT1G51510 3.0kb downstream 3.0kb downstream 5143   true Chr1: 19099791-19104933
AT1G51510 3.0kb downstream 3.0kb downstream 3000   false Chr1: 19099791-19102790

Proteins

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Function

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3 Pathways

Data Source: KEGG

Identifier Name
03015 mRNA surveillance pathway
03040 Spliceosome
03013 RNA transport

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Expression

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Interactions

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Homology

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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 InterPro    
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
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
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139