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PRPF4 (pre-mRNA processing factor 4)

Identity

Alias_namesPRP4 pre-mRNA processing factor 4 homolog (yeast)
Alias_symbol (synonym)Prp4p
HPRP4
HPRP4P
PRP4
SNRNP60
Other aliasRP70
HGNC (Hugo) PRPF4
LocusID (NCBI) 9128
Atlas_Id 53784
Location 9q32  [Link to chromosome band 9q32]
Location_base_pair Starts at 113275634 and ends at 113292905 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)

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)PRPF4   17349
Cards
Entrez_Gene (NCBI)PRPF4  9128  pre-mRNA processing factor 4
AliasesHPRP4; HPRP4P; PRP4; Prp4p; 
RP70; SNRNP60
GeneCards (Weizmann)PRPF4
Ensembl hg19 (Hinxton)ENSG00000136875 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000136875 [Gene_View]  chr9:113275634-113292905 [Contig_View]  PRPF4 [Vega]
ICGC DataPortalENSG00000136875
TCGA cBioPortalPRPF4
AceView (NCBI)PRPF4
Genatlas (Paris)PRPF4
WikiGenes9128
SOURCE (Princeton)PRPF4
Genetics Home Reference (NIH)PRPF4
Genomic and cartography
GoldenPath hg38 (UCSC)PRPF4  -     chr9:113275634-113292905 +  9q32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PRPF4  -     9q32   [Description]    (hg19-Feb_2009)
EnsemblPRPF4 - 9q32 [CytoView hg19]  PRPF4 - 9q32 [CytoView hg38]
Mapping of homologs : NCBIPRPF4 [Mapview hg19]  PRPF4 [Mapview hg38]
OMIM607795   615922   
Gene and transcription
Genbank (Entrez)AB209797 AF016369 AK225056 AK313131 AW052006
RefSeq transcript (Entrez)NM_001244926 NM_001322266 NM_001322267 NM_004697
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PRPF4
Cluster EST : UnigeneHs.744014 [ NCBI ]
CGAP (NCI)Hs.744014
Alternative Splicing GalleryENSG00000136875
Gene ExpressionPRPF4 [ NCBI-GEO ]   PRPF4 [ EBI - ARRAY_EXPRESS ]   PRPF4 [ SEEK ]   PRPF4 [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9128
GTEX Portal (Tissue expression)PRPF4
Human Protein AtlasENSG00000136875-PRPF4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO43172   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO43172  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO43172
Splice isoforms : SwissVarO43172
PhosPhoSitePlusO43172
Domaine pattern : Prosite (Expaxy)WD_REPEATS_1 (PS00678)    WD_REPEATS_2 (PS50082)    WD_REPEATS_REGION (PS50294)   
Domains : Interpro (EBI)G-protein_beta_WD-40_rep    PRP4-like    WD40/YVTN_repeat-like_dom    WD40_repeat    WD40_repeat_CS    WD40_repeat_dom   
Domain families : Pfam (Sanger)PRP4 (PF08799)    WD40 (PF00400)   
Domain families : Pfam (NCBI)pfam08799    pfam00400   
Domain families : Smart (EMBL)SFM (SM00500)  WD40 (SM00320)  
Conserved Domain (NCBI)PRPF4
DMDM Disease mutations9128
Blocks (Seattle)PRPF4
PDB (SRS)1MZW    3JCR   
PDB (PDBSum)1MZW    3JCR   
PDB (IMB)1MZW    3JCR   
PDB (RSDB)1MZW    3JCR   
Structural Biology KnowledgeBase1MZW    3JCR   
SCOP (Structural Classification of Proteins)1MZW    3JCR   
CATH (Classification of proteins structures)1MZW    3JCR   
SuperfamilyO43172
Human Protein Atlas [tissue]ENSG00000136875-PRPF4 [tissue]
Peptide AtlasO43172
HPRD08479
IPIIPI00150269   IPI00218435   
Protein Interaction databases
DIP (DOE-UCLA)O43172
IntAct (EBI)O43172
FunCoupENSG00000136875
BioGRIDPRPF4
STRING (EMBL)PRPF4
ZODIACPRPF4
Ontologies - Pathways
QuickGOO43172
Ontology : AmiGORNA splicing, via transesterification reactions  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  protein binding  nucleus  nucleoplasm  spliceosomal complex  spliceosomal complex  RNA processing  RNA splicing  Cajal body  nuclear speck  U6 snRNA binding  U4 snRNA binding  U4/U6 x U5 tri-snRNP complex  U4/U6 x U5 tri-snRNP complex  U4/U6 snRNP  spliceosomal snRNP complex  
Ontology : EGO-EBIRNA splicing, via transesterification reactions  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  protein binding  nucleus  nucleoplasm  spliceosomal complex  spliceosomal complex  RNA processing  RNA splicing  Cajal body  nuclear speck  U6 snRNA binding  U4 snRNA binding  U4/U6 x U5 tri-snRNP complex  U4/U6 x U5 tri-snRNP complex  U4/U6 snRNP  spliceosomal snRNP complex  
Pathways : KEGGSpliceosome   
NDEx NetworkPRPF4
Atlas of Cancer Signalling NetworkPRPF4
Wikipedia pathwaysPRPF4
Orthology - Evolution
OrthoDB9128
GeneTree (enSembl)ENSG00000136875
Phylogenetic Trees/Animal Genes : TreeFamPRPF4
HOVERGENO43172
HOGENOMO43172
Homologs : HomoloGenePRPF4
Homology/Alignments : Family Browser (UCSC)PRPF4
Gene fusions - Rearrangements
Tumor Fusion PortalPRPF4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PRPF4
dbVarPRPF4
ClinVarPRPF4
1000_GenomesPRPF4 
Exome Variant ServerPRPF4
ExAC (Exome Aggregation Consortium)ENSG00000136875
GNOMAD BrowserENSG00000136875
Genetic variants : HAPMAP9128
Genomic Variants (DGV)PRPF4 [DGVbeta]
DECIPHERPRPF4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPRPF4 
Mutations
ICGC Data PortalPRPF4 
TCGA Data PortalPRPF4 
Broad Tumor PortalPRPF4
OASIS PortalPRPF4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPRPF4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPRPF4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PRPF4
DgiDB (Drug Gene Interaction Database)PRPF4
DoCM (Curated mutations)PRPF4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PRPF4 (select a term)
intoGenPRPF4
Cancer3DPRPF4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607795    615922   
Orphanet659   
DisGeNETPRPF4
MedgenPRPF4
Genetic Testing Registry PRPF4
NextProtO43172 [Medical]
TSGene9128
GENETestsPRPF4
Target ValidationPRPF4
Huge Navigator PRPF4 [HugePedia]
snp3D : Map Gene to Disease9128
BioCentury BCIQPRPF4
ClinGenPRPF4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9128
Chemical/Pharm GKB GenePA38448
Clinical trialPRPF4
Miscellaneous
canSAR (ICR)PRPF4 (select the gene name)
Probes
Litterature
PubMed60 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePRPF4
EVEXPRPF4
GoPubMedPRPF4
iHOPPRPF4
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 14:30:30 CET 2017

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