Inhibition of the nuclear export of poly(A)-containing mRNAs caused by the influenza A virus NS1 protein requires its effector domain. The NS1 effector domain functionally interacts with the cellular 30 kDa subunit of cleavage and polyadenylation specific factor 4, an essential component of the 3' end processing machinery of cellular pre-mRNAs. In influenza virus-infected cells... See more...

Aliases for CPSF4 Gene

Aliases for CPSF4 Gene

  • Cleavage And Polyadenylation Specific Factor 4 2 3 5
  • CPSF30 2 3 4
  • NAR 2 3 4
  • Cleavage And Polyadenylation Specificity Factor 30 KDa Subunit 3 4
  • Cleavage And Polyadenylation Specificity Factor Subunit 4 3 4
  • Cleavage And Polyadenylation Specific Factor 4, 30kDa 2 3
  • NS1 Effector Domain-Binding Protein 1 3 4
  • CPSF 30 KDa Subunit 3 4
  • No Arches Homolog 3 4
  • NEB1 3 4
  • Cleavage And Polyadenylation Specific Factor 4, 30kD Subunit 2
  • No Arches-Like Zinc Finger Protein 3
  • NEB-1 3
  • CPSF4 5
  • Neb-1 4

External Ids for CPSF4 Gene

Previous GeneCards Identifiers for CPSF4 Gene

  • GC07P097571
  • GC07P098634
  • GC07P098647
  • GC07P098619
  • GC07P098682
  • GC07P098874
  • GC07P099036
  • GC07P093673

Summaries for CPSF4 Gene

Entrez Gene Summary for CPSF4 Gene

  • Inhibition of the nuclear export of poly(A)-containing mRNAs caused by the influenza A virus NS1 protein requires its effector domain. The NS1 effector domain functionally interacts with the cellular 30 kDa subunit of cleavage and polyadenylation specific factor 4, an essential component of the 3' end processing machinery of cellular pre-mRNAs. In influenza virus-infected cells, the NS1 protein is physically associated with cleavage and polyadenylation specific factor 4, 30kD subunit. Binding of the NS1 protein to the 30 kDa protein in vitro prevents CPSF binding to the RNA substrate and inhibits 3' end cleavage and polyadenylation of host pre-mRNAs. Thus the NS1 protein selectively inhibits the nuclear export of cellular, and not viral, mRNAs. Multiple alternatively spliced transcript variants that encode different isoforms have been described for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for CPSF4 Gene

CPSF4 (Cleavage And Polyadenylation Specific Factor 4) is a Protein Coding gene. Diseases associated with CPSF4 include Influenza and Gestational Ovarian Choriocarcinoma. Among its related pathways are Processing of Capped Intronless Pre-mRNA and Transport of the SLBP independent Mature mRNA. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is CPSF4L.

UniProtKB/Swiss-Prot Summary for CPSF4 Gene

  • Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. CPSF4 binds RNA polymers with a preference for poly(U).

Gene Wiki entry for CPSF4 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CPSF4 Gene

Genomics for CPSF4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CPSF4 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CPSF4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CPSF4

Top Transcription factor binding sites by QIAGEN in the CPSF4 gene promoter:
  • E2F
  • E2F-1
  • LCR-F1
  • Pax-2
  • Pax-2a
  • Pax-4a
  • Pax-6
  • STAT1
  • STAT1alpha
  • STAT1beta

Genomic Locations for CPSF4 Gene

Latest Assembly
chr7:99,438,912-99,457,373
(GRCh38/hg38)
Size:
18,462 bases
Orientation:
Plus strand

Previous Assembly
chr7:99,036,566-99,054,996
(GRCh37/hg19 by Entrez Gene)
Size:
18,431 bases
Orientation:
Plus strand

chr7:99,036,545-99,054,994
(GRCh37/hg19 by Ensembl)
Size:
18,450 bases
Orientation:
Plus strand

Genomic View for CPSF4 Gene

Genes around CPSF4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CPSF4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CPSF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CPSF4 Gene

Proteins for CPSF4 Gene

  • Protein details for CPSF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95639-CPSF4_HUMAN
    Recommended name:
    Cleavage and polyadenylation specificity factor subunit 4
    Protein Accession:
    O95639
    Secondary Accessions:
    • D6W5S8
    • Q6FGE6
    • Q86TF8
    • Q9BTW6

    Protein attributes for CPSF4 Gene

    Size:
    269 amino acids
    Molecular mass:
    30255 Da
    Quaternary structure:
    • Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with FIP1L1.
    • (Microbial infection) Interacts with influenza A virus NS1 blocks processing of pre-mRNAs, thereby preventing nuclear export of host cell mRNAs.
    Miscellaneous:
    • [Isoform 3]: May be due to a competing acceptor splice site.

    Three dimensional structures from OCA and Proteopedia for CPSF4 Gene

    Alternative splice isoforms for CPSF4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CPSF4 Gene

Post-translational modifications for CPSF4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CPSF4 Gene

Domains & Families for CPSF4 Gene

Gene Families for CPSF4 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CPSF4 Gene

InterPro:
Blocks:
  • C2HC-type zinc-finger signature
  • Zn-finger, C-x8-C-x5-C-x3-H type

Suggested Antigen Peptide Sequences for CPSF4 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ52791, highly similar to Cleavage and polyadenylation specificityfactor 30 kDa subunit (B7Z7B0_HUMAN)
  • No arches homolog (CPSF4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O95639

UniProtKB/Swiss-Prot:

CPSF4_HUMAN :
  • Belongs to the CPSF4/YTH1 family.
Family:
  • Belongs to the CPSF4/YTH1 family.
genes like me logo Genes that share domains with CPSF4: view

Function for CPSF4 Gene

Molecular function for CPSF4 Gene

UniProtKB/Swiss-Prot Function:
Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. CPSF4 binds RNA polymers with a preference for poly(U).

Phenotypes From GWAS Catalog for CPSF4 Gene

Gene Ontology (GO) - Molecular Function for CPSF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,HDA 22681889
GO:0005515 protein binding IPI 19136632
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CPSF4: view
genes like me logo Genes that share phenotypes with CPSF4: view

miRNA for CPSF4 Gene

miRTarBase miRNAs that target CPSF4

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CPSF4

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CPSF4 Gene

Localization for CPSF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CPSF4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CPSF4 gene
Compartment Confidence
nucleus 5
extracellular 3
plasma membrane 2
cytosol 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Vesicles (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CPSF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA,TAS --
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex IDA 21102410
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with CPSF4: view

Pathways & Interactions for CPSF4 Gene

genes like me logo Genes that share pathways with CPSF4: view

Pathways by source for CPSF4 Gene

Gene Ontology (GO) - Biological Process for CPSF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation TAS --
GO:0006397 mRNA processing IEA --
GO:0006406 mRNA export from nucleus TAS --
genes like me logo Genes that share ontologies with CPSF4: view

No data available for SIGNOR curated interactions for CPSF4 Gene

Drugs & Compounds for CPSF4 Gene

(1) Additional Compounds for CPSF4 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CPSF4: view

Transcripts for CPSF4 Gene

mRNA/cDNA for CPSF4 Gene

5 REFSEQ mRNAs :
15 NCBI additional mRNA sequence :
13 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CPSF4

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for CPSF4 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b · 10c · 10d · 10e ^ 11a · 11b · 11c · 11d
SP1: - - - - - - - - - -
SP2: - - - - - - - - - - -
SP3: - - - - - - - - - - -
SP4: - - - - - - - -
SP5: - - - - - -
SP6: - - - - - - -
SP7: - - - -
SP8: - - - -
SP9: - -
SP10: -
SP11: - -

Relevant External Links for CPSF4 Gene

GeneLoc Exon Structure for
CPSF4

Expression for CPSF4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CPSF4 Gene

Protein differential expression in normal tissues from HIPED for CPSF4 Gene

This gene is overexpressed in Liver (49.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CPSF4 Gene



Protein tissue co-expression partners for CPSF4 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CPSF4

SOURCE GeneReport for Unigene cluster for CPSF4 Gene:

Hs.489287

Evidence on tissue expression from TISSUES for CPSF4 Gene

  • Nervous system(4.7)
  • Eye(4.2)
  • Skin(2.6)
  • Lung(2.5)
  • Kidney(2.3)
  • Blood(2.1)
genes like me logo Genes that share expression patterns with CPSF4: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CPSF4 Gene

Orthologs for CPSF4 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CPSF4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CPSF4 29 30
  • 99.63 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia CPSF4 30
  • 96 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia CPSF4 29 30
  • 95.17 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CPSF4 30
  • 94 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia CPSF4 29 30
  • 91.36 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Cpsf4 29 16 30
  • 89.57 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Cpsf4 29
  • 89.3 (n)
Chicken
(Gallus gallus)
Aves CPSF4 29 30
  • 83.68 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CPSF4 30
  • 82 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia cpsf4 29
  • 77.94 (n)
Str.3196 29
African clawed frog
(Xenopus laevis)
Amphibia Xl.25683 29
Zebrafish
(Danio rerio)
Actinopterygii cpsf4 29 30
  • 72.99 (n)
OneToOne
nar 29
Fruit Fly
(Drosophila melanogaster)
Insecta Clp 29 30 31
  • 60.97 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013044 29
  • 59.48 (n)
Worm
(Caenorhabditis elegans)
Secernentea F11A10.3 31
  • 61 (a)
cpsf-4 29 30
  • 53.41 (n)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YTH1 30 32
  • 36 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.9063 30
  • 50 (a)
OneToMany
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.3252 29
Species where no ortholog for CPSF4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for CPSF4 Gene

ENSEMBL:
Gene Tree for CPSF4 (if available)
TreeFam:
Gene Tree for CPSF4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CPSF4: view image
Alliance of Genome Resources:
Additional Orthologs for CPSF4

Paralogs for CPSF4 Gene

Paralogs for CPSF4 Gene

(1) SIMAP similar genes for CPSF4 Gene using alignment to 7 proteins:

  • CPSF4_HUMAN
  • B7Z7B0_HUMAN
  • C9JEV9_HUMAN
  • C9K0K2_HUMAN
  • F8WEL7_HUMAN
  • H7C016_HUMAN
  • H7C419_HUMAN
genes like me logo Genes that share paralogs with CPSF4: view

Variants for CPSF4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CPSF4 Gene

SNP ID Clinical significance and condition Chr 07 pos Variation AA Info Type
rs35303224 Benign: not provided 99,450,781(+) G/A
NM_006693.4(CPSF4):c.483G>A (p.Ser161=)
SYNONYMOUS_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CPSF4 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for CPSF4 Gene

Variant ID Type Subtype PubMed ID
nsv5864 CNV insertion 18451855
nsv831069 CNV loss 17160897
nsv951383 CNV deletion 24416366

Variation tolerance for CPSF4 Gene

Residual Variation Intolerance Score: 40.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.45; 9.78% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CPSF4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CPSF4
Leiden Open Variation Database (LOVD)
CPSF4

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CPSF4 Gene

Disorders for CPSF4 Gene

MalaCards: The human disease database

(8) MalaCards diseases for CPSF4 Gene - From: COP and GCD

- elite association - COSMIC cancer census association via MalaCards
Search CPSF4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CPSF4

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with CPSF4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CPSF4 Gene

Publications for CPSF4 Gene

  1. Influenza virus NS1 protein interacts with the cellular 30 kDa subunit of CPSF and inhibits 3'end formation of cellular pre-mRNAs. (PMID: 9651582) Nemeroff ME … Krug RM (Molecular cell 1998) 2 3 4
  2. The 30-kD subunit of mammalian cleavage and polyadenylation specificity factor and its yeast homolog are RNA-binding zinc finger proteins. (PMID: 9224719) Barabino SM … Keller W (Genes & development 1997) 2 3 4
  3. The poly A polymerase Star-PAP controls 3'-end cleavage by promoting CPSF interaction and specificity toward the pre-mRNA. (PMID: 21102410) Laishram RS … Anderson RA (The EMBO journal 2010) 3 4
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 40
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

Products for CPSF4 Gene

Sources for CPSF4 Gene