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PRPF40B (pre-mRNA processing factor 40 homolog B)

Identity

Alias_namesPRP40 pre-mRNA processing factor 40 homolog B (yeast)
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae)
PRP40 homolog, pre-mRNA processing factor B
Alias_symbol (synonym)HYPC
Other alias
HGNC (Hugo) PRPF40B
LocusID (NCBI) 25766
Atlas_Id 72254
Location 12q13.12  [Link to chromosome band 12q13]
Location_base_pair Starts at 49623414 and ends at 49644669 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)
PRPF40B (12q13.12) / DAZAP1 (19p13.3)PRPF40B (12q13.12) / MIDN (19p13.3)PRPF40B (12q13.12) / PRPF40B (12q13.12)

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)PRPF40B   25031
LRG (Locus Reference Genomic)LRG_625
Cards
Entrez_Gene (NCBI)PRPF40B  25766  pre-mRNA processing factor 40 homolog B
AliasesHYPC
GeneCards (Weizmann)PRPF40B
Ensembl hg19 (Hinxton)ENSG00000110844 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000110844 [Gene_View]  chr12:49623414-49644669 [Contig_View]  PRPF40B [Vega]
ICGC DataPortalENSG00000110844
TCGA cBioPortalPRPF40B
AceView (NCBI)PRPF40B
Genatlas (Paris)PRPF40B
WikiGenes25766
SOURCE (Princeton)PRPF40B
Genetics Home Reference (NIH)PRPF40B
Genomic and cartography
GoldenPath hg38 (UCSC)PRPF40B  -     chr12:49623414-49644669 +  12q13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRPF40B  -     12q13.12   [Description]    (hg19-Feb_2009)
EnsemblPRPF40B - 12q13.12 [CytoView hg19]  PRPF40B - 12q13.12 [CytoView hg38]
Mapping of homologs : NCBIPRPF40B [Mapview hg19]  PRPF40B [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF049525 AK027117 AK123353 AL137459 AL834216
RefSeq transcript (Entrez)NM_001031698 NM_012272
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PRPF40B
Cluster EST : UnigeneHs.706827 [ NCBI ]
CGAP (NCI)Hs.706827
Alternative Splicing GalleryENSG00000110844
Gene ExpressionPRPF40B [ NCBI-GEO ]   PRPF40B [ EBI - ARRAY_EXPRESS ]   PRPF40B [ SEEK ]   PRPF40B [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF40B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)25766
GTEX Portal (Tissue expression)PRPF40B
Human Protein AtlasENSG00000110844-PRPF40B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6NWY9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6NWY9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6NWY9
Splice isoforms : SwissVarQ6NWY9
PhosPhoSitePlusQ6NWY9
Domaine pattern : Prosite (Expaxy)FF (PS51676)    WW_DOMAIN_1 (PS01159)    WW_DOMAIN_2 (PS50020)   
Domains : Interpro (EBI)FF_domain    WW_dom   
Domain families : Pfam (Sanger)FF (PF01846)    WW (PF00397)   
Domain families : Pfam (NCBI)pfam01846    pfam00397   
Domain families : Smart (EMBL)FF (SM00441)  WW (SM00456)  
Conserved Domain (NCBI)PRPF40B
DMDM Disease mutations25766
Blocks (Seattle)PRPF40B
SuperfamilyQ6NWY9
Human Protein Atlas [tissue]ENSG00000110844-PRPF40B [tissue]
Peptide AtlasQ6NWY9
HPRD11044
IPIIPI00789604   IPI00646529   IPI00465345   IPI00446681   IPI00873725   IPI01021817   IPI01021489   
Protein Interaction databases
DIP (DOE-UCLA)Q6NWY9
IntAct (EBI)Q6NWY9
FunCoupENSG00000110844
BioGRIDPRPF40B
STRING (EMBL)PRPF40B
ZODIACPRPF40B
Ontologies - Pathways
QuickGOQ6NWY9
Ontology : AmiGOmRNA splicing, via spliceosome  RNA binding  U1 snRNP  nuclear speck  U2-type prespliceosome  
Ontology : EGO-EBImRNA splicing, via spliceosome  RNA binding  U1 snRNP  nuclear speck  U2-type prespliceosome  
Pathways : KEGGSpliceosome   
NDEx NetworkPRPF40B
Atlas of Cancer Signalling NetworkPRPF40B
Wikipedia pathwaysPRPF40B
Orthology - Evolution
OrthoDB25766
GeneTree (enSembl)ENSG00000110844
Phylogenetic Trees/Animal Genes : TreeFamPRPF40B
HOVERGENQ6NWY9
HOGENOMQ6NWY9
Homologs : HomoloGenePRPF40B
Homology/Alignments : Family Browser (UCSC)PRPF40B
Gene fusions - Rearrangements
Tumor Fusion PortalPRPF40B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF40B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF40B
dbVarPRPF40B
ClinVarPRPF40B
1000_GenomesPRPF40B 
Exome Variant ServerPRPF40B
ExAC (Exome Aggregation Consortium)ENSG00000110844
GNOMAD BrowserENSG00000110844
Genetic variants : HAPMAP25766
Genomic Variants (DGV)PRPF40B [DGVbeta]
DECIPHERPRPF40B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPRPF40B 
Mutations
ICGC Data PortalPRPF40B 
TCGA Data PortalPRPF40B 
Broad Tumor PortalPRPF40B
OASIS PortalPRPF40B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRPF40B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRPF40B
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 PRPF40B
DgiDB (Drug Gene Interaction Database)PRPF40B
DoCM (Curated mutations)PRPF40B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRPF40B (select a term)
intoGenPRPF40B
Cancer3DPRPF40B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETPRPF40B
MedgenPRPF40B
Genetic Testing Registry PRPF40B
NextProtQ6NWY9 [Medical]
TSGene25766
GENETestsPRPF40B
Target ValidationPRPF40B
Huge Navigator PRPF40B [HugePedia]
snp3D : Map Gene to Disease25766
BioCentury BCIQPRPF40B
ClinGenPRPF40B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD25766
Chemical/Pharm GKB GenePA143485582
Clinical trialPRPF40B
Miscellaneous
canSAR (ICR)PRPF40B (select the gene name)
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRPF40B
EVEXPRPF40B
GoPubMedPRPF40B
iHOPPRPF40B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:27:16 CET 2017

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