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PRPF39 (pre-mRNA processing factor 39)

Identity

Alias_namesPRP39 pre-mRNA processing factor 39 homolog (yeast)
PRP39 pre-mRNA processing factor 39 homolog (S. cerevisiae)
Alias_symbol (synonym)FLJ20666
FLJ11128
Other alias-
HGNC (Hugo) PRPF39
LocusID (NCBI) 55015
Atlas_Id 72252
Location 14q21.2  [Link to chromosome band 14q21]
Location_base_pair Starts at 45084099 and ends at 45115601 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)
HECTD1 (14q12) / PRPF39 (14q21.2)PRPF39 (14q21.2) / CAPZA2 (7q31.2)PRPF39 (14q21.2) / FAM179B (14q21.2)

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)PRPF39   20314
Cards
Entrez_Gene (NCBI)PRPF39  55015  pre-mRNA processing factor 39
Aliases
GeneCards (Weizmann)PRPF39
Ensembl hg19 (Hinxton)ENSG00000185246 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000185246 [Gene_View]  chr14:45084099-45115601 [Contig_View]  PRPF39 [Vega]
ICGC DataPortalENSG00000185246
TCGA cBioPortalPRPF39
AceView (NCBI)PRPF39
Genatlas (Paris)PRPF39
WikiGenes55015
SOURCE (Princeton)PRPF39
Genetics Home Reference (NIH)PRPF39
Genomic and cartography
GoldenPath hg38 (UCSC)PRPF39  -     chr14:45084099-45115601 +  14q21.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRPF39  -     14q21.2   [Description]    (hg19-Feb_2009)
EnsemblPRPF39 - 14q21.2 [CytoView hg19]  PRPF39 - 14q21.2 [CytoView hg38]
Mapping of homologs : NCBIPRPF39 [Mapview hg19]  PRPF39 [Mapview hg38]
OMIM614907   
Gene and transcription
Genbank (Entrez)AA290697 AI476677 AK000673 AK001990 AK127382
RefSeq transcript (Entrez)NM_017922 NM_018333
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PRPF39
Cluster EST : UnigeneHs.274337 [ NCBI ]
CGAP (NCI)Hs.274337
Alternative Splicing GalleryENSG00000185246
Gene ExpressionPRPF39 [ NCBI-GEO ]   PRPF39 [ EBI - ARRAY_EXPRESS ]   PRPF39 [ SEEK ]   PRPF39 [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF39 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55015
GTEX Portal (Tissue expression)PRPF39
Human Protein AtlasENSG00000185246-PRPF39 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86UA1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86UA1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86UA1
Splice isoforms : SwissVarQ86UA1
PhosPhoSitePlusQ86UA1
Domains : Interpro (EBI)HAT    TPR-like_helical_dom   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Domain families : Smart (EMBL)HAT (SM00386)  
Conserved Domain (NCBI)PRPF39
DMDM Disease mutations55015
Blocks (Seattle)PRPF39
SuperfamilyQ86UA1
Human Protein Atlas [tissue]ENSG00000185246-PRPF39 [tissue]
Peptide AtlasQ86UA1
HPRD17913
IPIIPI00878754   IPI00789246   IPI00383823   IPI01025483   IPI01026578   IPI01024823   IPI00878614   
Protein Interaction databases
DIP (DOE-UCLA)Q86UA1
IntAct (EBI)Q86UA1
FunCoupENSG00000185246
BioGRIDPRPF39
STRING (EMBL)PRPF39
ZODIACPRPF39
Ontologies - Pathways
QuickGOQ86UA1
Ontology : AmiGOcommitment complex  mRNA 5'-splice site recognition  U1 snRNP  pre-mRNA 5'-splice site binding  U2-type prespliceosome  
Ontology : EGO-EBIcommitment complex  mRNA 5'-splice site recognition  U1 snRNP  pre-mRNA 5'-splice site binding  U2-type prespliceosome  
NDEx NetworkPRPF39
Atlas of Cancer Signalling NetworkPRPF39
Wikipedia pathwaysPRPF39
Orthology - Evolution
OrthoDB55015
GeneTree (enSembl)ENSG00000185246
Phylogenetic Trees/Animal Genes : TreeFamPRPF39
HOVERGENQ86UA1
HOGENOMQ86UA1
Homologs : HomoloGenePRPF39
Homology/Alignments : Family Browser (UCSC)PRPF39
Gene fusions - Rearrangements
Fusion: Tumor Portal PRPF39
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF39
dbVarPRPF39
ClinVarPRPF39
1000_GenomesPRPF39 
Exome Variant ServerPRPF39
ExAC (Exome Aggregation Consortium)ENSG00000185246
GNOMAD BrowserENSG00000185246
Genetic variants : HAPMAP55015
Genomic Variants (DGV)PRPF39 [DGVbeta]
DECIPHERPRPF39 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPRPF39 
Mutations
ICGC Data PortalPRPF39 
TCGA Data PortalPRPF39 
Broad Tumor PortalPRPF39
OASIS PortalPRPF39 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRPF39  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRPF39
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PRPF39
DgiDB (Drug Gene Interaction Database)PRPF39
DoCM (Curated mutations)PRPF39 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRPF39 (select a term)
intoGenPRPF39
Cancer3DPRPF39(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614907   
Orphanet
MedgenPRPF39
Genetic Testing Registry PRPF39
NextProtQ86UA1 [Medical]
TSGene55015
GENETestsPRPF39
Target ValidationPRPF39
Huge Navigator PRPF39 [HugePedia]
snp3D : Map Gene to Disease55015
BioCentury BCIQPRPF39
ClinGenPRPF39
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55015
Chemical/Pharm GKB GenePA142671127
Clinical trialPRPF39
Miscellaneous
canSAR (ICR)PRPF39 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRPF39
EVEXPRPF39
GoPubMedPRPF39
iHOPPRPF39
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:23:41 CET 2017

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