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

Summary

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

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_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.

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Variation

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Alleles

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

Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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)

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
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
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

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

NC_000078.7 Reference GRCm39 C57BL/6J

Range

21336298..21365057

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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