Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CPSF4 (cleavage and polyadenylation specific factor 4)

Identity

Alias (NCBI)CPSF30
NAR
NEB-1
NEB1
HGNC (Hugo) CPSF4
HGNC Alias symbNAR
CPSF30
HGNC Previous namecleavage and polyadenylation specific factor 4, 30kD subunit
 cleavage and polyadenylation specific factor 4, 30kDa
LocusID (NCBI) 10898
Atlas_Id 54950
Location 7q22.1  [Link to chromosome band 7q22]
Location_base_pair Starts at 99438943 and ends at 99457373 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)CPSF4   2327
Cards
Entrez_Gene (NCBI)CPSF4    cleavage and polyadenylation specific factor 4
AliasesCPSF30; NAR; NEB-1; NEB1
GeneCards (Weizmann)CPSF4
Ensembl hg19 (Hinxton)ENSG00000160917 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000160917 [Gene_View]  ENSG00000160917 [Sequence]  chr7:99438943-99457373 [Contig_View]  CPSF4 [Vega]
ICGC DataPortalENSG00000160917
TCGA cBioPortalCPSF4
AceView (NCBI)CPSF4
Genatlas (Paris)CPSF4
SOURCE (Princeton)CPSF4
Genetics Home Reference (NIH)CPSF4
Genomic and cartography
GoldenPath hg38 (UCSC)CPSF4  -     chr7:99438943-99457373 +  7q22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CPSF4  -     7q22.1   [Description]    (hg19-Feb_2009)
GoldenPathCPSF4 - 7q22.1 [CytoView hg19]  CPSF4 - 7q22.1 [CytoView hg38]
ImmunoBaseENSG00000160917
genome Data Viewer NCBICPSF4 [Mapview hg19]  
OMIM603052   
Gene and transcription
Genbank (Entrez)AA040394 AI076832 AK301745 AW512538 BC003101
RefSeq transcript (Entrez)NM_001081559 NM_001318160 NM_001318161 NM_001318162 NM_006693
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CPSF4
Alternative Splicing GalleryENSG00000160917
Gene ExpressionCPSF4 [ NCBI-GEO ]   CPSF4 [ EBI - ARRAY_EXPRESS ]   CPSF4 [ SEEK ]   CPSF4 [ MEM ]
Gene Expression Viewer (FireBrowse)CPSF4 [ Firebrowse - Broad ]
GenevisibleExpression of CPSF4 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10898
GTEX Portal (Tissue expression)CPSF4
Human Protein AtlasENSG00000160917-CPSF4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95639   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95639  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95639
Splice isoforms : SwissVarO95639
PhosPhoSitePlusO95639
Domaine pattern : Prosite (Expaxy)ZF_C3H1 (PS50103)    ZF_CCHC (PS50158)   
Domains : Interpro (EBI)Znf-CCCH_3    Znf_CCCH    Znf_CCCH_sf    Znf_CCHC    Znf_CCHC_sf   
Domain families : Pfam (Sanger)zf-CCCH (PF00642)    zf-CCCH_3 (PF15663)    zf-CCHC (PF00098)   
Domain families : Pfam (NCBI)pfam00642    pfam15663    pfam00098   
Domain families : Smart (EMBL)ZnF_C2HC (SM00343)  ZnF_C3H1 (SM00356)  
Conserved Domain (NCBI)CPSF4
Blocks (Seattle)CPSF4
PDB (RSDB)2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
PDB Europe2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
PDB (PDBSum)2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
PDB (IMB)2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
Structural Biology KnowledgeBase2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
SCOP (Structural Classification of Proteins)2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
CATH (Classification of proteins structures)2D9N    2RHK    6DNH    6FBS    6FUW    6URG    6URO   
SuperfamilyO95639
Human Protein Atlas [tissue]ENSG00000160917-CPSF4 [tissue]
Peptide AtlasO95639
HPRD04338
IPIIPI00009137   IPI00029707   IPI00375469   IPI00927478   IPI00924476   IPI00925720   IPI00925041   IPI01014332   IPI00925482   
Protein Interaction databases
DIP (DOE-UCLA)O95639
IntAct (EBI)O95639
BioGRIDCPSF4
STRING (EMBL)CPSF4
ZODIACCPSF4
Ontologies - Pathways
QuickGOO95639
Ontology : AmiGOmRNA splicing, via spliceosome  RNA binding  protein binding  nucleoplasm  nucleoplasm  mRNA cleavage and polyadenylation specificity factor complex  mRNA cleavage and polyadenylation specificity factor complex  termination of RNA polymerase II transcription  tRNA splicing, via endonucleolytic cleavage and ligation  mRNA export from nucleus  zinc ion binding  mRNA 3'-end processing  intracellular membrane-bounded organelle  modification by virus of host mRNA processing  pre-mRNA cleavage required for polyadenylation  sequence-specific double-stranded DNA binding  
Ontology : EGO-EBImRNA splicing, via spliceosome  RNA binding  protein binding  nucleoplasm  nucleoplasm  mRNA cleavage and polyadenylation specificity factor complex  mRNA cleavage and polyadenylation specificity factor complex  termination of RNA polymerase II transcription  tRNA splicing, via endonucleolytic cleavage and ligation  mRNA export from nucleus  zinc ion binding  mRNA 3'-end processing  intracellular membrane-bounded organelle  modification by virus of host mRNA processing  pre-mRNA cleavage required for polyadenylation  sequence-specific double-stranded DNA binding  
Pathways : BIOCARTAPolyadenylation of mRNA [Genes]   
Pathways : KEGGmRNA surveillance pathway    Influenza A   
NDEx NetworkCPSF4
Atlas of Cancer Signalling NetworkCPSF4
Wikipedia pathwaysCPSF4
Orthology - Evolution
OrthoDB10898
GeneTree (enSembl)ENSG00000160917
Phylogenetic Trees/Animal Genes : TreeFamCPSF4
HOGENOMO95639
Homologs : HomoloGeneCPSF4
Homology/Alignments : Family Browser (UCSC)CPSF4
Gene fusions - Rearrangements
Fusion : QuiverCPSF4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCPSF4 [hg38]
dbVarCPSF4
ClinVarCPSF4
MonarchCPSF4
1000_GenomesCPSF4 
Exome Variant ServerCPSF4
GNOMAD BrowserENSG00000160917
Varsome BrowserCPSF4
Genomic Variants (DGV)CPSF4 [DGVbeta]
DECIPHERCPSF4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCPSF4 
Mutations
ICGC Data PortalCPSF4 
TCGA Data PortalCPSF4 
Broad Tumor PortalCPSF4
OASIS PortalCPSF4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCPSF4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCPSF4
Mutations and Diseases : HGMDCPSF4
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 CPSF4
DgiDB (Drug Gene Interaction Database)CPSF4
DoCM (Curated mutations)CPSF4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CPSF4 (select a term)
intoGenCPSF4
Cancer3DCPSF4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603052   
Orphanet
DisGeNETCPSF4
MedgenCPSF4
Genetic Testing Registry CPSF4
NextProtO95639 [Medical]
GENETestsCPSF4
Target ValidationCPSF4
Huge Navigator CPSF4 [HugePedia]
ClinGenCPSF4
Clinical trials, drugs, therapy
MyCancerGenomeCPSF4
Protein Interactions : CTD
Pharm GKB GenePA26844
PharosO95639
Clinical trialCPSF4
Miscellaneous
canSAR (ICR)CPSF4 (select the gene name)
HarmonizomeCPSF4
DataMed IndexCPSF4
Probes
Litterature
PubMed67 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXCPSF4
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 25 19:16:47 CET 2021

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