Atlas of Genetics and Cytogenetics in Oncology and Haematology

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PRPF4 (pre-mRNA processing factor 4)

Identity

Alias (NCBI)HPRP4
HPRP4P
PRP4
Prp4p
RP70
SNRNP60
HGNC (Hugo) PRPF4
HGNC Alias symbPrp4p
HPRP4
HPRP4P
PRP4
SNRNP60
HGNC Alias namePRP4/STK/WD splicing factor
 U4/U6 small nuclear ribonucleoprotein Prp4
HGNC Previous namePRP4 pre-mRNA processing factor 4 homolog (yeast)
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    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]  ENSG00000136875 [Sequence]  chr9:113275634-113292905 [Contig_View]  PRPF4 [Vega]
ICGC DataPortalENSG00000136875
TCGA cBioPortalPRPF4
AceView (NCBI)PRPF4
Genatlas (Paris)PRPF4
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)
GoldenPathPRPF4 - 9q32 [CytoView hg19]  PRPF4 - 9q32 [CytoView hg38]
ImmunoBaseENSG00000136875
genome Data Viewer NCBIPRPF4 [Mapview hg19]  
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
Alternative Splicing GalleryENSG00000136875
Gene ExpressionPRPF4 [ NCBI-GEO ]   PRPF4 [ EBI - ARRAY_EXPRESS ]   PRPF4 [ SEEK ]   PRPF4 [ MEM ]
Gene Expression Viewer (FireBrowse)PRPF4 [ Firebrowse - Broad ]
GenevisibleExpression of PRPF4 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    PRP4-like_sf    WD40/YVTN_repeat-like_dom_sf    WD40_repeat    WD40_repeat_CS    WD40_repeat_dom    WD40_repeat_dom_sf   
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
Blocks (Seattle)PRPF4
PDB (RSDB)1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
PDB Europe1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
PDB (PDBSum)1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
PDB (IMB)1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
Structural Biology KnowledgeBase1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
SCOP (Structural Classification of Proteins)1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
CATH (Classification of proteins structures)1MZW    3JCR    5O9Z    6AH0    6AHD    6QW6    6QX9   
SuperfamilyO43172
Human Protein Atlas [tissue]ENSG00000136875-PRPF4 [tissue]
Peptide AtlasO43172
HPRD08479
IPIIPI00150269   IPI00218435   
Protein Interaction databases
DIP (DOE-UCLA)O43172
IntAct (EBI)O43172
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  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  U2-type precatalytic spliceosome  spliceosomal snRNP complex  
Ontology : EGO-EBIRNA splicing, via transesterification reactions  mRNA splicing, via spliceosome  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  U2-type precatalytic spliceosome  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
HOGENOMO43172
Homologs : HomoloGenePRPF4
Homology/Alignments : Family Browser (UCSC)PRPF4
Gene fusions - Rearrangements
Fusion : QuiverPRPF4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPRPF4 [hg38]
dbVarPRPF4
ClinVarPRPF4
MonarchPRPF4
1000_GenomesPRPF4 
Exome Variant ServerPRPF4
GNOMAD BrowserENSG00000136875
Varsome BrowserPRPF4
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]  
Somatic Mutations in Cancer : COSMIC3DPRPF4
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] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607795    615922   
Orphanet659   
DisGeNETPRPF4
MedgenPRPF4
Genetic Testing Registry PRPF4
NextProtO43172 [Medical]
GENETestsPRPF4
Target ValidationPRPF4
Huge Navigator PRPF4 [HugePedia]
ClinGenPRPF4
Clinical trials, drugs, therapy
MyCancerGenomePRPF4
Protein Interactions : CTD
Pharm GKB GenePA38448
PharosO43172
Clinical trialPRPF4
Miscellaneous
canSAR (ICR)PRPF4 (select the gene name)
HarmonizomePRPF4
DataMed IndexPRPF4
Probes
Litterature
PubMed96 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPRPF4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Fri Jan 1 18:33:08 CET 2021
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