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PRPF39 (pre-mRNA processing factor 39)

Identity

Alias (NCBI)-
HGNC (Hugo) PRPF39
HGNC Alias symbFLJ20666
FLJ11128
HGNC Previous namePRP39 pre-mRNA processing factor 39 homolog (yeast)
 PRP39 pre-mRNA processing factor 39 homolog (S. cerevisiae)
LocusID (NCBI) 55015
Atlas_Id 72252
Location 14q21.2  [Link to chromosome band 14q21]
Location_base_pair Starts at 45084116 and ends at 45116282 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    pre-mRNA processing factor 39
Aliases
GeneCards (Weizmann)PRPF39
Ensembl hg19 (Hinxton)ENSG00000185246 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000185246 [Gene_View]  ENSG00000185246 [Sequence]  chr14:45084116-45116282 [Contig_View]  PRPF39 [Vega]
ICGC DataPortalENSG00000185246
TCGA cBioPortalPRPF39
AceView (NCBI)PRPF39
Genatlas (Paris)PRPF39
SOURCE (Princeton)PRPF39
Genetics Home Reference (NIH)PRPF39
Genomic and cartography
GoldenPath hg38 (UCSC)PRPF39  -     chr14:45084116-45116282 +  14q21.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRPF39  -     14q21.2   [Description]    (hg19-Feb_2009)
GoldenPathPRPF39 - 14q21.2 [CytoView hg19]  PRPF39 - 14q21.2 [CytoView hg38]
ImmunoBaseENSG00000185246
Genome Data Viewer NCBIPRPF39 [Mapview hg19]  
OMIM614907   
Gene and transcription
Genbank (Entrez)AA290697 AI476677 AK000673 AK001990 AK127382
RefSeq transcript (Entrez)NM_017922 NM_018333
Consensus coding sequences : CCDS (NCBI)PRPF39
Gene ExpressionPRPF39 [ NCBI-GEO ]   PRPF39 [ EBI - ARRAY_EXPRESS ]   PRPF39 [ SEEK ]   PRPF39 [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF39 [ Firebrowse - Broad ]
GenevisibleExpression of PRPF39 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
PhosPhoSitePlusQ86UA1
Domains : Interpro (EBI)HAT    TPR-like_helical_dom_sf   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Domain families : Smart (EMBL)HAT (SM00386)  
Conserved Domain (NCBI)PRPF39
SuperfamilyQ86UA1
AlphaFold pdb e-kbQ86UA1   
Human Protein Atlas [tissue]ENSG00000185246-PRPF39 [tissue]
HPRD17913
Protein Interaction databases
DIP (DOE-UCLA)Q86UA1
IntAct (EBI)Q86UA1
BioGRIDPRPF39
STRING (EMBL)PRPF39
ZODIACPRPF39
Ontologies - Pathways
QuickGOQ86UA1
Ontology : AmiGOcommitment complex  mRNA 5'-splice site recognition  protein binding  U1 snRNP  U2-type prespliceosome  
Ontology : EGO-EBIcommitment complex  mRNA 5'-splice site recognition  protein binding  U1 snRNP  U2-type prespliceosome  
NDEx NetworkPRPF39
Atlas of Cancer Signalling NetworkPRPF39
Wikipedia pathwaysPRPF39
Orthology - Evolution
OrthoDB55015
GeneTree (enSembl)ENSG00000185246
Phylogenetic Trees/Animal Genes : TreeFamPRPF39
Homologs : HomoloGenePRPF39
Homology/Alignments : Family Browser (UCSC)PRPF39
Gene fusions - Rearrangements
Fusion : QuiverPRPF39
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF39
dbVarPRPF39
ClinVarPRPF39
MonarchPRPF39
1000_GenomesPRPF39 
Exome Variant ServerPRPF39
GNOMAD BrowserENSG00000185246
Varsome BrowserPRPF39
ACMGPRPF39 variants
VarityQ86UA1
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]  
Somatic Mutations in Cancer : COSMIC3DPRPF39
Mutations and Diseases : HGMDPRPF39
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaPRPF39
DgiDB (Drug Gene Interaction Database)PRPF39
DoCM (Curated mutations)PRPF39
CIViC (Clinical Interpretations of Variants in Cancer)PRPF39
Cancer3DPRPF39
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614907   
Orphanet
DisGeNETPRPF39
MedgenPRPF39
Genetic Testing Registry PRPF39
NextProtQ86UA1 [Medical]
GENETestsPRPF39
Target ValidationPRPF39
Huge Navigator PRPF39 [HugePedia]
ClinGenPRPF39
Clinical trials, drugs, therapy
MyCancerGenomePRPF39
Protein Interactions : CTDPRPF39
Pharm GKB GenePA142671127
PharosQ86UA1
Clinical trialPRPF39
Miscellaneous
canSAR (ICR)PRPF39
HarmonizomePRPF39
DataMed IndexPRPF39
Probes
Litterature
PubMed28 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPRPF39
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 16:17:14 CEST 2021

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