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Aliases for CPSF3 Gene

Aliases for CPSF3 Gene

  • Cleavage And Polyadenylation Specific Factor 3, 73kDa 2 3
  • MRNA 3-End-Processing Endonuclease CPSF-73 3 4
  • CPSF73 3 4
  • Cleavage And Polyadenylation Specificity Factor 73 KDa Subunit 4
  • Cleavage And Polyadenylation Specific Factor 3, 73kD Subunit 2
  • Cleavage And Polyadenylation Specificity Factor Subunit 3 3
  • CPSF 73 KDa Subunit 4
  • EC 3.1.27.- 4
  • EC 3.1.27 64
  • CPSF-73 3

External Ids for CPSF3 Gene

Summaries for CPSF3 Gene

Entrez Gene Summary for CPSF3 Gene

  • This gene encodes a member of the metallo-beta-lactamase family. The encoded protein is a 73kDa subunit of the cleavage and polyadenylation specificity factor and functions as an endonuclease that recognizes the pre-mRNA 3'-cleavage site AAUAAA prior to polyadenylation. It also cleaves after the pre-mRNA sequence ACCCA during histone 3'-end pre-mRNA processing. [provided by RefSeq, Oct 2012]

GeneCards Summary for CPSF3 Gene

CPSF3 (Cleavage And Polyadenylation Specific Factor 3, 73kDa) is a Protein Coding gene. Among its related pathways are Gene Expression and mRNA Splicing - Major Pathway. GO annotations related to this gene include RNA binding and endoribonuclease activity. An important paralog of this gene is CPSF3L.

UniProtKB/Swiss-Prot for CPSF3 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. Has endonuclease activity, and functions as mRNA 3-end-processing endonuclease. Also involved in the histone 3-end pre-mRNA processing. U7 snRNP-dependent protein that induces both the 3-endoribonucleolytic cleavage of histone pre-mRNAs and acts as a 5 to 3 exonuclease for degrading the subsequent downstream cleavage product (DCP) of mature histone mRNAs. Cleavage occurs after the 5-ACCCA-3 sequence in the histone pre-mRNA leaving a 3hydroxyl group on the upstream fragment containing the stem loop (SL) and 5 phosphate on the downstream cleavage product (DCP) starting with CU nucleotides. The U7-dependent 5 to 3 exonuclease activity is processive and degrades the DCP RNA substrate even after complete removal of the U7-binding site. Binds to the downstream cleavage product (DCP) of histone pre-mRNAs and the cleaved DCP RNA substrate in a U7 snRNP dependent manner.

Gene Wiki entry for CPSF3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CPSF3 Gene

Genomics for CPSF3 Gene

Genomic Location for CPSF3 Gene

Start:
9,423,537 bp from pter
End:
9,473,110 bp from pter
Size:
49,574 bases
Orientation:
Plus strand

Genomic View for CPSF3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CPSF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CPSF3 Gene

Regulatory Elements for CPSF3 Gene

Proteins for CPSF3 Gene

  • Protein details for CPSF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UKF6-CPSF3_HUMAN
    Recommended name:
    Cleavage and polyadenylation specificity factor subunit 3
    Protein Accession:
    Q9UKF6
    Secondary Accessions:
    • O14769
    • Q53RS2
    • Q96F36

    Protein attributes for CPSF3 Gene

    Size:
    684 amino acids
    Molecular mass:
    77486 Da
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105; Note=Binds 2 Zn(2+) ions per subunit.;
    Quaternary structure:
    • Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with CPSF2, CSTF2 and SYMPK. Interacts with TUT1; the interaction is direct and mediates the recruitment of the CPSF complex on the 3UTR of pre-mRNAs. Interacts with WDR33.

    Three dimensional structures from OCA and Proteopedia for CPSF3 Gene

neXtProt entry for CPSF3 Gene

Proteomics data for CPSF3 Gene at MOPED

Post-translational modifications for CPSF3 Gene

  • Sumoylated on Lys-462, Lys-465 and Lys-545, preferentially by SUMO3.
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys295, Lys306, Lys428, and Lys487

Other Protein References for CPSF3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Domains for CPSF3 Gene

Protein Domains for CPSF3 Gene

UniProtKB/Swiss-Prot:

CPSF3_HUMAN
Family:
  • Belongs to the metallo-beta-lactamase superfamily. RNA-metabolizing metallo-beta-lactamase-like family. CPSF3 subfamily.:
    • Q9UKF6
genes like me logo Genes that share domains with CPSF3: view

No data available for Gene Families for CPSF3 Gene

Function for CPSF3 Gene

Molecular function for CPSF3 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. Has endonuclease activity, and functions as mRNA 3-end-processing endonuclease. Also involved in the histone 3-end pre-mRNA processing. U7 snRNP-dependent protein that induces both the 3-endoribonucleolytic cleavage of histone pre-mRNAs and acts as a 5 to 3 exonuclease for degrading the subsequent downstream cleavage product (DCP) of mature histone mRNAs. Cleavage occurs after the 5-ACCCA-3 sequence in the histone pre-mRNA leaving a 3hydroxyl group on the upstream fragment containing the stem loop (SL) and 5 phosphate on the downstream cleavage product (DCP) starting with CU nucleotides. The U7-dependent 5 to 3 exonuclease activity is processive and degrades the DCP RNA substrate even after complete removal of the U7-binding site. Binds to the downstream cleavage product (DCP) of histone pre-mRNAs and the cleaved DCP RNA substrate in a U7 snRNP dependent manner.

Enzyme Numbers (IUBMB) for CPSF3 Gene

Gene Ontology (GO) - Molecular Function for CPSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding ISS --
GO:0004521 endoribonuclease activity ISS --
GO:0005515 protein binding IPI 18288197
GO:0008409 5-3 exonuclease activity ISS --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CPSF3: view

Phenotypes for CPSF3 Gene

genes like me logo Genes that share phenotypes with CPSF3: view

miRNA for CPSF3 Gene

miRTarBase miRNAs that target CPSF3

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for CPSF3 Gene

Localization for CPSF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CPSF3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CPSF3 Gene COMPARTMENTS Subcellular localization image for CPSF3 gene
Compartment Confidence
nucleus 5
cytosol 2
plasma membrane 1

Gene Ontology (GO) - Cellular Components for CPSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex IDA 18305108
GO:0030529 ribonucleoprotein complex IEA --
genes like me logo Genes that share ontologies with CPSF3: view

Pathways for CPSF3 Gene

genes like me logo Genes that share pathways with CPSF3: view

Gene Ontology (GO) - Biological Process for CPSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006378 mRNA polyadenylation TAS 8929409
GO:0006379 mRNA cleavage TAS 8929409
genes like me logo Genes that share ontologies with CPSF3: view

Compounds for CPSF3 Gene

(2) Novoseek inferred chemical compound relationships for CPSF3 Gene

Compound -log(P) Hits PubMed IDs
adenylate 69.5 26
zinc 0 4
genes like me logo Genes that share compounds with CPSF3: view

Transcripts for CPSF3 Gene

Unigene Clusters for CPSF3 Gene

Cleavage and polyadenylation specific factor 3, 73kDa:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CPSF3 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b ^ 19 ^ 20
SP1: - - - - - - -
SP2: - - -
SP3: -
SP4: - -
SP5:
SP6:

Relevant External Links for CPSF3 Gene

GeneLoc Exon Structure for
CPSF3
ECgene alternative splicing isoforms for
CPSF3

Expression for CPSF3 Gene

mRNA expression in normal human tissues for CPSF3 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CPSF3 Gene

SOURCE GeneReport for Unigene cluster for CPSF3 Gene Hs.515972

genes like me logo Genes that share expressions with CPSF3: view

Orthologs for CPSF3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CPSF3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CPSF3 36
  • 99.42 (n)
  • 99.85 (a)
CPSF3 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CPSF3 36
  • 93.13 (n)
  • 99.56 (a)
CPSF3 37
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CPSF3 36
  • 92.74 (n)
  • 99.42 (a)
CPSF3 37
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cpsf3 36
  • 89.04 (n)
  • 98.54 (a)
Cpsf3 16
Cpsf3 37
  • 99 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CPSF3 37
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CPSF3 37
  • 96 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cpsf3 36
  • 88.56 (n)
  • 98.39 (a)
chicken
(Gallus gallus)
Aves CPSF3 36
  • 82.86 (n)
  • 95.05 (a)
CPSF3 37
  • 96 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CPSF3 37
  • 93 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.16076 36
tropical clawed frog
(Silurana tropicalis)
Amphibia cpsf3 36
  • 78.61 (n)
  • 90.01 (a)
Str.6057 36
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12326 36
zebrafish
(Danio rerio)
Actinopterygii cpsf3 36
  • 75.9 (n)
  • 88.95 (a)
cpsf3 37
  • 88 (a)
OneToOne
wufc32f10 36
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001224 36
  • 61.87 (n)
  • 68.67 (a)
fruit fly
(Drosophila melanogaster)
Insecta Cpsf73 36
  • 62.58 (n)
  • 68.31 (a)
Cpsf73 37
  • 66 (a)
OneToOne
CG1972 38
  • 40 (a)
CG7698 38
  • 65 (a)
worm
(Caenorhabditis elegans)
Secernentea cpsf-3 36
  • 61.52 (n)
  • 61.14 (a)
cpsf-3 37
  • 52 (a)
OneToOne
F10B5.8 38
  • 39 (a)
Y67H2A.1 38
  • 58 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR279C 36
  • 54.43 (n)
  • 51.83 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YSH1 36
  • 56.13 (n)
  • 47.64 (a)
YSH1 37
  • 38 (a)
OneToMany
YSH1 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C04598g 36
  • 55.37 (n)
  • 49.83 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons CPSF73-I 36
  • 57.06 (n)
  • 56.26 (a)
rice
(Oryza sativa)
Liliopsida Os.9048 36
Os03g0852900 36
  • 56.39 (n)
  • 55.24 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU03479 36
  • 51.5 (n)
  • 47.27 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes ysh1 36
  • 55.77 (n)
  • 49.4 (a)
Species with no ortholog for CPSF3:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CPSF3 Gene

ENSEMBL:
Gene Tree for CPSF3 (if available)
TreeFam:
Gene Tree for CPSF3 (if available)

Paralogs for CPSF3 Gene

Paralogs for CPSF3 Gene

Selected SIMAP similar genes for CPSF3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with CPSF3: view

Variants for CPSF3 Gene

Sequence variations from dbSNP and Humsavar for CPSF3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs1128215 -- 9,452,935(+) AGACA(A/G)AAAAC reference, missense
rs2002044 -- 9,430,925(-) TACAT(A/G)CCATA intron-variant
rs3923838 -- 9,468,616(+) ACACT(A/G)ACCtt intron-variant
rs4316913 -- 9,455,161(+) AGATG(A/G)AGTCT intron-variant
rs4496315 -- 9,428,316(+) CATTT(A/G)GCAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CPSF3 Gene

Variant ID Type Subtype PubMed ID
nsv2602 CNV Loss 18451855
nsv514992 CNV Complex 21397061

Relevant External Links for CPSF3 Gene

HapMap Linkage Disequilibrium report
CPSF3

Disorders for CPSF3 Gene

(2) Novoseek inferred disease relationships for CPSF3 Gene

Disease -log(P) Hits PubMed IDs
equine infectious anemia 61.8 1
immunodeficiency 9.79 2
genes like me logo Genes that share disorders with CPSF3: view

No data available for UniProtKB/Swiss-Prot for CPSF3 Gene

Publications for CPSF3 Gene

  1. Human Fip1 is a subunit of CPSF that binds to U-rich RNA elements and stimulates poly(A) polymerase. (PMID: 14749727) Kaufmann I. … Keller W. (EMBO J. 2004) 3 4 23
  2. Polyadenylation factor CPSF-73 is the pre-mRNA 3'-end-processing endonuclease. (PMID: 17128255) Mandel C.R. … Tong L. (Nature 2006) 3 4 23
  3. Conserved motifs in both CPSF73 and CPSF100 are required to assemble the active endonuclease for histone mRNA 3'-end maturation. (PMID: 18688255) Kolev N.G. … Steitz J.A. (EMBO Rep. 2008) 3 4 23
  4. The 73 kDa subunit of the CPSF complex binds to the HIV-1 LTR promoter and functions as a negative regulatory factor that is inhibited by the HIV-1 Tat protein. (PMID: 17669424) de la Vega L. … Calzado M.A. (J. Mol. Biol. 2007) 3 23
  5. The 160-kD subunit of human cleavage-polyadenylation specificity factor coordinates pre-mRNA 3'-end formation. (PMID: 7590244) Murthy K.G. … Manley J.L. (Genes Dev. 1995) 3 23

Products for CPSF3 Gene

Sources for CPSF3 Gene

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