Format

Send to:

Choose Destination

CPSF3 cleavage and polyadenylation specific factor 3 [ Homo sapiens (human) ]

Gene ID: 51692, updated on 9-Feb-2020

Summary

Official Symbol
CPSF3provided by HGNC
Official Full Name
cleavage and polyadenylation specific factor 3provided by HGNC
Primary source
HGNC:HGNC:2326
See related
Ensembl:ENSG00000119203 MIM:606029
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CPSF73; CPSF-73
Summary
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]
Expression
Broad expression in testis (RPKM 20.7), lymph node (RPKM 8.6) and 24 other tissues See more
Orthologs

Genomic context

See CPSF3 in Genome Data Viewer
Location:
2p25.1
Exon count:
19
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (9423537..9473110)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (9563666..9613239)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ArfGAP with SH3 domain, ankyrin repeat and PH domain 2 Neighboring gene eukaryotic translation initiation factor 1 pseudogene 7 Neighboring gene Sharpr-MPRA regulatory region 10317 Neighboring gene integrin subunit beta 1 binding protein 1 Neighboring gene isoamyl acetate hydrolyzing esterase 1 (putative) Neighboring gene uncharacterized LOC107985850 Neighboring gene ADAM metallopeptidase domain 17

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat 73 kDa subunit of the cleavage and polyadenylation specificity factor (CPSF-73) and its homologue RC-68 repress the HIV-1 LTR promoter. The LTR region between -275 to -110 within the 5' upstream region is necessary for the CPSF-73 interaction PubMed
tat HIV-1 Tat interacts with CPSF-73 and counteracts its repressive activity on the HIV-1 LTR promoter. The N-terminal 48 amino acid residues of Tat are sufficient to mediate the interaction with CPSF-73 PubMed
tat HIV-1 Tat specifically increases the expression of the cleavage and polyadenylation specificity factor 73-kDa subunit (CPSF3), and this upregulation is an important regulatory step for both viral and cellular gene expression PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
5'-3' exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
5'-3' exonuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
endoribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoribonuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA phosphodiester bond hydrolysis, endonucleolytic IEA
Inferred from Electronic Annotation
more info
 
mRNA 3'-end processing TAS
Traceable Author Statement
more info
 
mRNA 3'-end processing by stem-loop binding and cleavage IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA 3'-end processing by stem-loop binding and cleavage IDA
Inferred from Direct Assay
more info
PubMed 
mRNA cleavage TAS
Traceable Author Statement
more info
PubMed 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
mRNA polyadenylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
termination of RNA polymerase II transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
mRNA cleavage and polyadenylation specificity factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA cleavage and polyadenylation specificity factor complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
cleavage and polyadenylation specificity factor subunit 3
Names
cleavage and polyadenylation specific factor 3, 73kDa
mRNA 3'-end-processing endonuclease CPSF-73

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001321833.1NP_001308762.1  cleavage and polyadenylation specificity factor subunit 3 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) and variant 3 both encode the same isoform (b).
    Source sequence(s)
    AA635764, BC014106, DA455023, DC420903
    Consensus CDS
    CCDS82417.1
    UniProtKB/TrEMBL
    G5E9W3
    Conserved Domains (5) summary
    smart01027
    Location:209330
    Beta-Casp; Beta-Casp domain
    smart01098
    Location:440646
    CPSF73-100_C; This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins
    COG1236
    Location:1417
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:343383
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16292
    Location:1168
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain
  2. NM_001321834.1NP_001308763.1  cleavage and polyadenylation specificity factor subunit 3 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) and variant 2 both encode the same isoform (b).
    Source sequence(s)
    AA635764, BC014106, DA455023, DC420903
    Consensus CDS
    CCDS82417.1
    UniProtKB/TrEMBL
    G5E9W3
    Related
    ENSP00000418957.1, ENST00000460593.1
    Conserved Domains (5) summary
    smart01027
    Location:209330
    Beta-Casp; Beta-Casp domain
    smart01098
    Location:440646
    CPSF73-100_C; This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins
    COG1236
    Location:1417
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:343383
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16292
    Location:1168
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain
  3. NM_001321835.1NP_001308764.1  cleavage and polyadenylation specificity factor subunit 3 isoform c

    Status: REVIEWED

    Source sequence(s)
    AA635764, BC014106, DA478774, DC420903
    Conserved Domains (5) summary
    smart01027
    Location:107228
    Beta-Casp; Beta-Casp domain
    smart01098
    Location:338544
    CPSF73-100_C; This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins
    COG1236
    Location:18315
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:241281
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cl23716
    Location:1866
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  4. NM_001321836.1NP_001308765.1  cleavage and polyadenylation specificity factor subunit 3 isoform d

    Status: REVIEWED

    Source sequence(s)
    AA635764, AC080162, BC014106, BG773037, DA455023, DC420903
    Conserved Domains (5) summary
    smart01027
    Location:250371
    Beta-Casp; Beta-Casp domain
    smart01098
    Location:481687
    CPSF73-100_C; This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins
    COG1236
    Location:22458
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:384424
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16292
    Location:22209
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain
  5. NM_016207.4NP_057291.1  cleavage and polyadenylation specificity factor subunit 3 isoform a

    See identical proteins and their annotated locations for NP_057291.1

    Status: REVIEWED

    Source sequence(s)
    AA635764, BC020211, DC420903
    Consensus CDS
    CCDS1664.1
    UniProtKB/Swiss-Prot
    Q9UKF6
    Related
    ENSP00000238112.3, ENST00000238112.8
    Conserved Domains (5) summary
    smart01027
    Location:246367
    Beta-Casp; Beta-Casp domain
    smart01098
    Location:477683
    CPSF73-100_C; This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins
    COG1236
    Location:14454
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam07521
    Location:380420
    RMMBL; RNA-metabolizing metallo-beta-lactamase
    cd16292
    Location:12205
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    9423537..9473110
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center