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PRPF38B (pre-mRNA processing factor 38B)

Identity

Alias_namesPRP38 pre-mRNA processing factor 38 (yeast) domain containing B
Alias_symbol (synonym)FLJ10330
NET1
Other alias
HGNC (Hugo) PRPF38B
LocusID (NCBI) 55119
Atlas_Id 45509
Location 1p13.3  [Link to chromosome band 1p13]
Location_base_pair Starts at 109234932 and ends at 109244422 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
RNF213 (17q25.3) / PRPF38B (1p13.3)SUMF1 (3p26.1) / PRPF38B (1p13.3)

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)PRPF38B   25512
Cards
Entrez_Gene (NCBI)PRPF38B  55119  pre-mRNA processing factor 38B
AliasesNET1
GeneCards (Weizmann)PRPF38B
Ensembl hg19 (Hinxton)ENSG00000134186 [Gene_View]  chr1:109234932-109244422 [Contig_View]  PRPF38B [Vega]
Ensembl hg38 (Hinxton)ENSG00000134186 [Gene_View]  chr1:109234932-109244422 [Contig_View]  PRPF38B [Vega]
ICGC DataPortalENSG00000134186
TCGA cBioPortalPRPF38B
AceView (NCBI)PRPF38B
Genatlas (Paris)PRPF38B
WikiGenes55119
SOURCE (Princeton)PRPF38B
Genetics Home Reference (NIH)PRPF38B
Genomic and cartography
GoldenPath hg19 (UCSC)PRPF38B  -     chr1:109234932-109244422 +  1p13.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PRPF38B  -     1p13.3   [Description]    (hg38-Dec_2013)
EnsemblPRPF38B - 1p13.3 [CytoView hg19]  PRPF38B - 1p13.3 [CytoView hg38]
Mapping of homologs : NCBIPRPF38B [Mapview hg19]  PRPF38B [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK001192 AL833950 AY211915 BC007757 BC009453
RefSeq transcript (Entrez)NM_018061
RefSeq genomic (Entrez)NC_000001 NC_018912 NT_032977 NW_004929290
Consensus coding sequences : CCDS (NCBI)PRPF38B
Cluster EST : UnigeneHs.342307 [ NCBI ]
CGAP (NCI)Hs.342307
Alternative Splicing GalleryENSG00000134186
Gene ExpressionPRPF38B [ NCBI-GEO ]   PRPF38B [ EBI - ARRAY_EXPRESS ]   PRPF38B [ SEEK ]   PRPF38B [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF38B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55119
GTEX Portal (Tissue expression)PRPF38B
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ5VTL8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ5VTL8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ5VTL8
Splice isoforms : SwissVarQ5VTL8
PhosPhoSitePlusQ5VTL8
Domains : Interpro (EBI)PRP38   
Domain families : Pfam (Sanger)PRP38 (PF03371)   
Domain families : Pfam (NCBI)pfam03371   
Conserved Domain (NCBI)PRPF38B
DMDM Disease mutations55119
Blocks (Seattle)PRPF38B
SuperfamilyQ5VTL8
Human Protein AtlasENSG00000134186
Peptide AtlasQ5VTL8
HPRD07664
IPIIPI00018098   IPI00647851   IPI00646374   
Protein Interaction databases
DIP (DOE-UCLA)Q5VTL8
IntAct (EBI)Q5VTL8
FunCoupENSG00000134186
BioGRIDPRPF38B
STRING (EMBL)PRPF38B
ZODIACPRPF38B
Ontologies - Pathways
QuickGOQ5VTL8
Ontology : AmiGOmRNA processing  RNA splicing  poly(A) RNA binding  precatalytic spliceosome  
Ontology : EGO-EBImRNA processing  RNA splicing  poly(A) RNA binding  precatalytic spliceosome  
Pathways : KEGGSpliceosome   
NDEx NetworkPRPF38B
Atlas of Cancer Signalling NetworkPRPF38B
Wikipedia pathwaysPRPF38B
Orthology - Evolution
OrthoDB55119
GeneTree (enSembl)ENSG00000134186
Phylogenetic Trees/Animal Genes : TreeFamPRPF38B
HOVERGENQ5VTL8
HOGENOMQ5VTL8
Homologs : HomoloGenePRPF38B
Homology/Alignments : Family Browser (UCSC)PRPF38B
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF38B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF38B
dbVarPRPF38B
ClinVarPRPF38B
1000_GenomesPRPF38B 
Exome Variant ServerPRPF38B
ExAC (Exome Aggregation Consortium)PRPF38B (select the gene name)
Genetic variants : HAPMAP55119
Genomic Variants (DGV)PRPF38B [DGVbeta]
DECIPHER (Syndromes)1:109234932-109244422  ENSG00000134186
CONAN: Copy Number AnalysisPRPF38B 
Mutations
ICGC Data PortalPRPF38B 
TCGA Data PortalPRPF38B 
Broad Tumor PortalPRPF38B
OASIS PortalPRPF38B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRPF38B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRPF38B
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 PRPF38B
DgiDB (Drug Gene Interaction Database)PRPF38B
DoCM (Curated mutations)PRPF38B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRPF38B (select a term)
intoGenPRPF38B
Cancer3DPRPF38B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenPRPF38B
Genetic Testing Registry PRPF38B
NextProtQ5VTL8 [Medical]
TSGene55119
GENETestsPRPF38B
Huge Navigator PRPF38B [HugePedia]
snp3D : Map Gene to Disease55119
BioCentury BCIQPRPF38B
ClinGenPRPF38B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55119
Chemical/Pharm GKB GenePA142671126
Clinical trialPRPF38B
Miscellaneous
canSAR (ICR)PRPF38B (select the gene name)
Probes
Litterature
PubMed18 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRPF38B
EVEXPRPF38B
GoPubMedPRPF38B
iHOPPRPF38B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 15:15:48 CEST 2017

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