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UPF3A (UPF3 regulator of nonsense transcripts homolog A (yeast))

Identity

Alias_symbol (synonym)RENT3A
UPF3
HUPF3A
Other alias
HGNC (Hugo) UPF3A
LocusID (NCBI) 65110
Atlas_Id 54757
Location 13q34  [Link to chromosome band 13q34]
Location_base_pair Starts at 114281584 and ends at 114305816 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
UPF3A (13q34) / CDC16 (13q34)UPF3A (13q34) / JAKMIP3 (10q26.3)UPF3A (13q34) / OSBPL9 (1p32.3)
UPF3A (13q34) / PRMT3 (11p15.1)UPF3A 13q34 / CDC16 13q34

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)UPF3A   20332
Cards
Entrez_Gene (NCBI)UPF3A  65110  UPF3 regulator of nonsense transcripts homolog A (yeast)
AliasesHUPF3A; RENT3A; UPF3
GeneCards (Weizmann)UPF3A
Ensembl hg19 (Hinxton)ENSG00000169062 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000169062 [Gene_View]  chr13:114281584-114305816 [Contig_View]  UPF3A [Vega]
ICGC DataPortalENSG00000169062
TCGA cBioPortalUPF3A
AceView (NCBI)UPF3A
Genatlas (Paris)UPF3A
WikiGenes65110
SOURCE (Princeton)UPF3A
Genetics Home Reference (NIH)UPF3A
Genomic and cartography
GoldenPath hg38 (UCSC)UPF3A  -     chr13:114281584-114305816 +  13q34   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)UPF3A  -     13q34   [Description]    (hg19-Feb_2009)
EnsemblUPF3A - 13q34 [CytoView hg19]  UPF3A - 13q34 [CytoView hg38]
Mapping of homologs : NCBIUPF3A [Mapview hg19]  UPF3A [Mapview hg38]
OMIM605530   
Gene and transcription
Genbank (Entrez)AF318575 AK001069 AK092586 AK097027 AK294545
RefSeq transcript (Entrez)NM_023011 NM_080687
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)UPF3A
Cluster EST : UnigeneHs.533855 [ NCBI ]
CGAP (NCI)Hs.533855
Alternative Splicing GalleryENSG00000169062
Gene ExpressionUPF3A [ NCBI-GEO ]   UPF3A [ EBI - ARRAY_EXPRESS ]   UPF3A [ SEEK ]   UPF3A [ MEM ]
Gene Expression Viewer (FireBrowse)UPF3A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)65110
GTEX Portal (Tissue expression)UPF3A
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H1J1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H1J1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H1J1
Splice isoforms : SwissVarQ9H1J1
PhosPhoSitePlusQ9H1J1
Domains : Interpro (EBI)Nonsense_mediated_decay_UPF3    Nucleotide-bd_a/b_plait    RRM_dom   
Domain families : Pfam (Sanger)Smg4_UPF3 (PF03467)   
Domain families : Pfam (NCBI)pfam03467   
Conserved Domain (NCBI)UPF3A
DMDM Disease mutations65110
Blocks (Seattle)UPF3A
PDB (SRS)2L08   
PDB (PDBSum)2L08   
PDB (IMB)2L08   
PDB (RSDB)2L08   
Structural Biology KnowledgeBase2L08   
SCOP (Structural Classification of Proteins)2L08   
CATH (Classification of proteins structures)2L08   
SuperfamilyQ9H1J1
Human Protein AtlasENSG00000169062
Peptide AtlasQ9H1J1
HPRD09274
IPIIPI00011138   IPI00082830   IPI00552066   IPI00908846   
Protein Interaction databases
DIP (DOE-UCLA)Q9H1J1
IntAct (EBI)Q9H1J1
FunCoupENSG00000169062
BioGRIDUPF3A
STRING (EMBL)UPF3A
ZODIACUPF3A
Ontologies - Pathways
QuickGOQ9H1J1
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  nucleocytoplasmic transporter activity  protein binding  nucleus  nucleus  cytoplasm  cytosol  cytosol  nucleocytoplasmic transport  exon-exon junction complex  exon-exon junction complex  telomeric DNA binding  intracellular membrane-bounded organelle  positive regulation of translation  mRNA transport  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  nucleocytoplasmic transporter activity  protein binding  nucleus  nucleus  cytoplasm  cytosol  cytosol  nucleocytoplasmic transport  exon-exon junction complex  exon-exon junction complex  telomeric DNA binding  intracellular membrane-bounded organelle  positive regulation of translation  mRNA transport  
Pathways : KEGGRNA transport    mRNA surveillance pathway   
NDEx NetworkUPF3A
Atlas of Cancer Signalling NetworkUPF3A
Wikipedia pathwaysUPF3A
Orthology - Evolution
OrthoDB65110
GeneTree (enSembl)ENSG00000169062
Phylogenetic Trees/Animal Genes : TreeFamUPF3A
HOVERGENQ9H1J1
HOGENOMQ9H1J1
Homologs : HomoloGeneUPF3A
Homology/Alignments : Family Browser (UCSC)UPF3A
Gene fusions - Rearrangements
Fusion: TCGAUPF3A 13q34 CDC16 13q34 THCA
Fusion Cancer (Beijing)UPF3A [13q34]  -  CDC16 [13q34]  [FUSC004235]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerUPF3A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)UPF3A
dbVarUPF3A
ClinVarUPF3A
1000_GenomesUPF3A 
Exome Variant ServerUPF3A
ExAC (Exome Aggregation Consortium)UPF3A (select the gene name)
Genetic variants : HAPMAP65110
Genomic Variants (DGV)UPF3A [DGVbeta]
DECIPHERUPF3A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisUPF3A 
Mutations
ICGC Data PortalUPF3A 
TCGA Data PortalUPF3A 
Broad Tumor PortalUPF3A
OASIS PortalUPF3A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICUPF3A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDUPF3A
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch UPF3A
DgiDB (Drug Gene Interaction Database)UPF3A
DoCM (Curated mutations)UPF3A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)UPF3A (select a term)
intoGenUPF3A
Cancer3DUPF3A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605530   
Orphanet
MedgenUPF3A
Genetic Testing Registry UPF3A
NextProtQ9H1J1 [Medical]
TSGene65110
GENETestsUPF3A
Target ValidationUPF3A
Huge Navigator UPF3A [HugePedia]
snp3D : Map Gene to Disease65110
BioCentury BCIQUPF3A
ClinGenUPF3A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD65110
Chemical/Pharm GKB GenePA134961553
Clinical trialUPF3A
Miscellaneous
canSAR (ICR)UPF3A (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineUPF3A
EVEXUPF3A
GoPubMedUPF3A
iHOPUPF3A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:37:30 CEST 2017

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