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Cpsf3 cleavage and polyadenylation specificity factor 3 [ Mus musculus (house mouse) ]

Gene ID: 54451, updated on 2-Nov-2024

Summary

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Official Symbol
Cpsf3provided by MGI
Official Full Name
cleavage and polyadenylation specificity factor 3provided by MGI
Primary source
MGI:MGI:1859328
See related
Ensembl:ENSMUSG00000054309 AllianceGenome:MGI:1859328
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Enables 5'-3' RNA exonuclease activity; RNA binding activity; and RNA endonuclease activity. Involved in mRNA 3'-end processing by stem-loop binding activity and cleavage. Part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF3 (cleavage and polyadenylation specific factor 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 20.1), CNS E14 (RPKM 16.0) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Cpsf3 in Genome Data Viewer
Location:
12 A1.3; 12 8.3 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (21336298..21365057)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (21286273..21315056)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene ArfGAP with SH3 domain, ankyrin repeat and PH domain 2 Neighboring gene predicted gene, 40855 Neighboring gene integrin beta 1 binding protein 1 Neighboring gene predicted gene, 25821 Neighboring gene STARR-positive B cell enhancer ABC_E1152 Neighboring gene a disintegrin and metallopeptidase domain 17 Neighboring gene isoamyl acetate-hydrolyzing esterase 1 homolog Neighboring gene predicted gene, 22766

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells. Heller-Trulli D, et al. Mol Cell Biol, 2022 Dec 15. PMID 36519931, Free PMC Article
  2. Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1. Vivori C, et al. Genome Biol, 2021 Jun 3. PMID 34082786, Free PMC Article
  3. Studies of the 5' exonuclease and endonuclease activities of CPSF-73 in histone pre-mRNA processing. Yang XC, et al. Mol Cell Biol, 2009 Jan. PMID 18955505, Free PMC Article
  4. Smicl is a novel Smad interacting protein and cleavage and polyadenylation specificity factor associated protein. Collart C, et al. Genes Cells, 2005 Sep. PMID 16115198
  5. Bidirectional control of mRNA translation and synaptic plasticity by the cytoplasmic polyadenylation complex. Udagawa T, et al. Mol Cell, 2012 Jul 27. PMID 22727665, Free PMC Article

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells.
    Title: UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic Potential in 3T3-L1 Cells.
  2. Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1.
    Title: Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • MGC118660

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 5'-3' RNA exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 5'-3' RNA exonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA endonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA endonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA 3'-end processing by stem-loop binding and cleavage IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA 3'-end processing by stem-loop binding and cleavage IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in mRNA 3'-end processing by stem-loop binding and cleavage ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA 3'-end processing by stem-loop binding and cleavage ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of G1/S transition of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of G1/S transition of mitotic cell cycle ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of mRNA cleavage and polyadenylation specificity factor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of mRNA cleavage and polyadenylation specificity factor complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of mRNA cleavage and polyadenylation specificity factor complex ISO
Inferred from Sequence Orthology
more info
  
part_of mRNA cleavage and polyadenylation specificity factor complex ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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

NCBI Reference Sequences (RefSeq)

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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_001364372.1 → NP_001351301.1  cleavage and polyadenylation specificity factor subunit 3 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC156032
    UniProtKB/TrEMBL
    Q3U057, Q3UDS1
    Conserved Domains (2) summary
    COG1236
    Location:2 → 334
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam11718
    Location:359 → 562
    CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term

  2. NM_001364373.1 → NP_001351302.1  cleavage and polyadenylation specificity factor subunit 3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC156032
    Consensus CDS
    CCDS88318.1
    UniProtKB/TrEMBL
    A0A1Y7VLY3, Q497G2
    Related
    ENSMUSP00000152703.2, ENSMUST00000222968.2
    Conserved Domains (2) summary
    COG1236
    Location:14 → 454
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    cd16292
    Location:12 → 205
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain

  3. NM_018813.3 → NP_061283.2  cleavage and polyadenylation specificity factor subunit 3 isoform 1

    See identical proteins and their annotated locations for NP_061283.2

    Status: VALIDATED

    Source sequence(s)
    AK149953, AK158036, BY094575, CF725936
    Consensus CDS
    CCDS25834.1
    UniProtKB/Swiss-Prot
    Q8CIM0, Q9QXK7
    UniProtKB/TrEMBL
    Q3U057, Q3UDS1
    Related
    ENSMUSP00000068148.9, ENSMUST00000067284.10
    Conserved Domains (3) summary
    COG1236
    Location:14 → 454
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    cd16292
    Location:12 → 205
    CPSF3-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 3 and related proteins; MBL-fold metallo-hydrolase domain
    pfam11718
    Location:479 → 682
    CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term

RNA

  1. NR_186677.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC156032

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    21336298..21365057
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006515158.5 → XP_006515221.1  cleavage and polyadenylation specificity factor subunit 3 isoform X2

    UniProtKB/TrEMBL
    Q3U057, Q3UDS1
    Conserved Domains (2) summary
    COG1236
    Location:1 → 417
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam11718
    Location:442 → 645
    CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term

  2. XM_017315136.3 → XP_017170625.1  cleavage and polyadenylation specificity factor subunit 3 isoform X1

    UniProtKB/TrEMBL
    Q3U057, Q3UDS1
    Conserved Domains (2) summary
    COG1236
    Location:12 → 448
    YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]
    pfam11718
    Location:473 → 676
    CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9QXK7.2 GenPept UniProtKB/Swiss-Prot:Q9QXK7

Gene LinkOut

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