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PRPF38A (pre-mRNA processing factor 38A)

Identity

Alias_namesPRP38 pre-mRNA processing factor 38 (yeast) domain containing A
Alias_symbol (synonym)FLJ14936
Prp38
Other aliasPRP38A
HGNC (Hugo) PRPF38A
LocusID (NCBI) 84950
Atlas_Id 72251
Location 1p32.3  [Link to chromosome band 1p32]
Location_base_pair Starts at 52404547 and ends at 52418320 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CCL4 (17q12) / PRPF38A (1p32.3)PRPF38A (1p32.3) / ABCD3 (1p21.3)

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)PRPF38A   25930
Cards
Entrez_Gene (NCBI)PRPF38A  84950  pre-mRNA processing factor 38A
AliasesPRP38A; Prp38
GeneCards (Weizmann)PRPF38A
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chr1:52404547-52418320 [Contig_View]  PRPF38A [Vega]
TCGA cBioPortalPRPF38A
AceView (NCBI)PRPF38A
Genatlas (Paris)PRPF38A
WikiGenes84950
SOURCE (Princeton)PRPF38A
Genetics Home Reference (NIH)PRPF38A
Genomic and cartography
GoldenPath hg38 (UCSC)PRPF38A  -     chr1:52404547-52418320 +  1p32.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRPF38A  -     1p32.3   [Description]    (hg19-Feb_2009)
EnsemblPRPF38A - 1p32.3 [CytoView hg19]  PRPF38A - 1p32.3 [CytoView hg38]
Mapping of homologs : NCBIPRPF38A [Mapview hg19]  PRPF38A [Mapview hg38]
OMIM617031   
Gene and transcription
Genbank (Entrez)AK027842 AK092038 AK315621 BC000777 BC063655
RefSeq transcript (Entrez)NM_032284 NM_032864
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PRPF38A
Cluster EST : UnigeneHs.5301 [ NCBI ]
CGAP (NCI)Hs.5301
Gene ExpressionPRPF38A [ NCBI-GEO ]   PRPF38A [ EBI - ARRAY_EXPRESS ]   PRPF38A [ SEEK ]   PRPF38A [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF38A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84950
GTEX Portal (Tissue expression)PRPF38A
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8NAV1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8NAV1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8NAV1
Splice isoforms : SwissVarQ8NAV1
PhosPhoSitePlusQ8NAV1
Domains : Interpro (EBI)PRP38    PRP38_C   
Domain families : Pfam (Sanger)PRP38 (PF03371)    PRP38_assoc (PF12871)   
Domain families : Pfam (NCBI)pfam03371    pfam12871   
Conserved Domain (NCBI)PRPF38A
DMDM Disease mutations84950
Blocks (Seattle)PRPF38A
PDB (SRS)4RZ9    4RZA    5F5S   
PDB (PDBSum)4RZ9    4RZA    5F5S   
PDB (IMB)4RZ9    4RZA    5F5S   
PDB (RSDB)4RZ9    4RZA    5F5S   
Structural Biology KnowledgeBase4RZ9    4RZA    5F5S   
SCOP (Structural Classification of Proteins)4RZ9    4RZA    5F5S   
CATH (Classification of proteins structures)4RZ9    4RZA    5F5S   
SuperfamilyQ8NAV1
Peptide AtlasQ8NAV1
HPRD10972
IPIIPI00171390   IPI00386847   IPI00896537   
Protein Interaction databases
DIP (DOE-UCLA)Q8NAV1
IntAct (EBI)Q8NAV1
BioGRIDPRPF38A
STRING (EMBL)PRPF38A
ZODIACPRPF38A
Ontologies - Pathways
QuickGOQ8NAV1
Ontology : AmiGOmRNA splicing, via spliceosome  RNA binding  protein binding  nucleus  nucleoplasm  nuclear membrane  precatalytic spliceosome  
Ontology : EGO-EBImRNA splicing, via spliceosome  RNA binding  protein binding  nucleus  nucleoplasm  nuclear membrane  precatalytic spliceosome  
Pathways : KEGGSpliceosome   
NDEx NetworkPRPF38A
Atlas of Cancer Signalling NetworkPRPF38A
Wikipedia pathwaysPRPF38A
Orthology - Evolution
OrthoDB84950
Phylogenetic Trees/Animal Genes : TreeFamPRPF38A
HOVERGENQ8NAV1
HOGENOMQ8NAV1
Homologs : HomoloGenePRPF38A
Homology/Alignments : Family Browser (UCSC)PRPF38A
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF38A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF38A
dbVarPRPF38A
ClinVarPRPF38A
1000_GenomesPRPF38A 
Exome Variant ServerPRPF38A
ExAC (Exome Aggregation Consortium)PRPF38A (select the gene name)
Genetic variants : HAPMAP84950
Genomic Variants (DGV)PRPF38A [DGVbeta]
DECIPHERPRPF38A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPRPF38A 
Mutations
ICGC Data PortalPRPF38A 
TCGA Data PortalPRPF38A 
Broad Tumor PortalPRPF38A
OASIS PortalPRPF38A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRPF38A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRPF38A
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 PRPF38A
DgiDB (Drug Gene Interaction Database)PRPF38A
DoCM (Curated mutations)PRPF38A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRPF38A (select a term)
intoGenPRPF38A
Cancer3DPRPF38A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM617031   
Orphanet
MedgenPRPF38A
Genetic Testing Registry PRPF38A
NextProtQ8NAV1 [Medical]
TSGene84950
GENETestsPRPF38A
Target ValidationPRPF38A
Huge Navigator PRPF38A [HugePedia]
snp3D : Map Gene to Disease84950
BioCentury BCIQPRPF38A
ClinGenPRPF38A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84950
Chemical/Pharm GKB GenePA142671125
Clinical trialPRPF38A
Miscellaneous
canSAR (ICR)PRPF38A (select the gene name)
Probes
Litterature
PubMed23 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRPF38A
EVEXPRPF38A
GoPubMedPRPF38A
iHOPPRPF38A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:35:21 CEST 2017

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