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PYM1 (PYM homolog 1, exon junction complex associated factor)

Identity

Alias (NCBI)PYM
WIBG
HGNC (Hugo) PYM1
HGNC Alias symbPYM
HGNC Alias namepartner of Y14 and Mago
HGNC Previous nameWIBG
HGNC Previous namewithin bgcn homolog (Drosophila)
LocusID (NCBI) 84305
Atlas_Id 77963
Location 12q13.2  [Link to chromosome band 12q13]
Location_base_pair Starts at 55901413 and ends at 55927913 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
HOXC10 (12q13.13) / PYM1 (12q13.2)HOXC6 (12q13.13) / PYM1 (12q13.2)HOXC9 (12q13.13) / PYM1 (12q13.2)
PYM1 (12q13.2) / OAZ1 (19p13.3)PYM1 (12q13.2) / PYM1 (12q13.2)

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)PYM1   30258
Cards
Entrez_Gene (NCBI)PYM1  84305  PYM homolog 1, exon junction complex associated factor
AliasesPYM; WIBG
GeneCards (Weizmann)PYM1
Ensembl hg19 (Hinxton)ENSG00000170473 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000170473 [Gene_View]  ENSG00000170473 [Sequence]  chr12:55901413-55927913 [Contig_View]  PYM1 [Vega]
ICGC DataPortalENSG00000170473
TCGA cBioPortalPYM1
AceView (NCBI)PYM1
Genatlas (Paris)PYM1
WikiGenes84305
SOURCE (Princeton)PYM1
Genetics Home Reference (NIH)PYM1
Genomic and cartography
GoldenPath hg38 (UCSC)PYM1  -     chr12:55901413-55927913 -  12q13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PYM1  -     12q13.2   [Description]    (hg19-Feb_2009)
GoldenPathPYM1 - 12q13.2 [CytoView hg19]  PYM1 - 12q13.2 [CytoView hg38]
ImmunoBaseENSG00000170473
genome Data Viewer NCBIPYM1 [Mapview hg19]  
Gene and transcription
Genbank (Entrez)AJ459406 AK096922 BC006135 BC008292 BC009627
RefSeq transcript (Entrez)NM_001143853 NM_032345
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PYM1
Alternative Splicing GalleryENSG00000170473
Gene ExpressionPYM1 [ NCBI-GEO ]   PYM1 [ EBI - ARRAY_EXPRESS ]   PYM1 [ SEEK ]   PYM1 [ MEM ]
Gene Expression Viewer (FireBrowse)PYM1 [ Firebrowse - Broad ]
GenevisibleExpression of PYM1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84305
GTEX Portal (Tissue expression)PYM1
Human Protein AtlasENSG00000170473-PYM1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BRP8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BRP8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BRP8
Splice isoforms : SwissVarQ9BRP8
PhosPhoSitePlusQ9BRP8
Domains : Interpro (EBI)PYM1    WIBG_mago-bd    WIBG_N_sf   
Domain families : Pfam (Sanger)Mago-bind (PF09282)   
Domain families : Pfam (NCBI)pfam09282   
Domain families : Smart (EMBL)Mago-bind (SM01273)  
Conserved Domain (NCBI)PYM1
DMDM Disease mutations84305
Blocks (Seattle)PYM1
SuperfamilyQ9BRP8
Human Protein Atlas [tissue]ENSG00000170473-PYM1 [tissue]
Peptide AtlasQ9BRP8
HPRD17940
IPIIPI00305092   IPI00790634   IPI00815818   IPI01022711   IPI01022883   IPI01026457   IPI01025977   IPI00743864   
Protein Interaction databases
DIP (DOE-UCLA)Q9BRP8
IntAct (EBI)Q9BRP8
FunCoupENSG00000170473
BioGRIDPYM1
STRING (EMBL)PYM1
ZODIACPYM1
Ontologies - Pathways
QuickGOQ9BRP8
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  RNA binding  protein binding  nucleoplasm  nucleolus  cytoplasm  cytosol  cell junction  exon-exon junction complex  exon-exon junction complex  ribosome binding  positive regulation of translation  exon-exon junction complex disassembly  exon-exon junction complex disassembly  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  RNA binding  RNA binding  protein binding  nucleoplasm  nucleolus  cytoplasm  cytosol  cell junction  exon-exon junction complex  exon-exon junction complex  ribosome binding  positive regulation of translation  exon-exon junction complex disassembly  exon-exon junction complex disassembly  
NDEx NetworkPYM1
Atlas of Cancer Signalling NetworkPYM1
Wikipedia pathwaysPYM1
Orthology - Evolution
OrthoDB84305
GeneTree (enSembl)ENSG00000170473
Phylogenetic Trees/Animal Genes : TreeFamPYM1
HOGENOMQ9BRP8
Homologs : HomoloGenePYM1
Homology/Alignments : Family Browser (UCSC)PYM1
Gene fusions - Rearrangements
Fusion : QuiverPYM1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPYM1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PYM1
dbVarPYM1
ClinVarPYM1
1000_GenomesPYM1 
Exome Variant ServerPYM1
GNOMAD BrowserENSG00000170473
Varsome BrowserPYM1
Genetic variants : HAPMAP84305
Genomic Variants (DGV)PYM1 [DGVbeta]
DECIPHERPYM1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPYM1 
Mutations
ICGC Data PortalPYM1 
TCGA Data PortalPYM1 
Broad Tumor PortalPYM1
OASIS PortalPYM1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPYM1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DPYM1
Mutations and Diseases : HGMDPYM1
BioMutasearch PYM1
DgiDB (Drug Gene Interaction Database)PYM1
DoCM (Curated mutations)PYM1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PYM1 (select a term)
intoGenPYM1
Cancer3DPYM1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETPYM1
MedgenPYM1
Genetic Testing Registry PYM1
NextProtQ9BRP8 [Medical]
TSGene84305
GENETestsPYM1
Target ValidationPYM1
Huge Navigator PYM1 [HugePedia]
snp3D : Map Gene to Disease84305
BioCentury BCIQPYM1
ClinGenPYM1
Clinical trials, drugs, therapy
Protein Interactions : CTD84305
Pharm GKB GenePA142670574
Clinical trialPYM1
Miscellaneous
canSAR (ICR)PYM1 (select the gene name)
HarmonizomePYM1
DataMed IndexPYM1
Probes
Litterature
PubMed38 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePYM1
EVEXPYM1
GoPubMedPYM1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jul 16 16:24:38 CEST 2020
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