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Cpsf1 cleavage and polyadenylation specific factor 1 [ Mus musculus (house mouse) ]

Gene ID: 94230, updated on 26-Sep-2022

Summary

Official Symbol
Cpsf1provided by MGI
Official Full Name
cleavage and polyadenylation specific factor 1provided by MGI
Primary source
MGI:MGI:2679722
See related
Ensembl:ENSMUSG00000034022 AllianceGenome:MGI:2679722
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
Also known as
CPSF160
Summary
Predicted to enable enzyme binding activity and mRNA 3'-UTR AU-rich region binding activity. Predicted to be involved in mRNA polyadenylation. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Predicted to be active in nucleus. Is expressed in central nervous system; sensory organ; thymus; and tooth. Human ortholog(s) of this gene implicated in myopia. Orthologous to human CPSF1 (cleavage and polyadenylation specific factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 37.3), ovary adult (RPKM 29.8) and 28 other tissues See more
Orthologs
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Genomic context

See Cpsf1 in Genome Data Viewer
Location:
15; 15 D3
Exon count:
37
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (76480008..76491861, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (76595808..76607661, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene solute carrier protein 52, member 2 Neighboring gene predicted gene, 35739 Neighboring gene aarF domain containing kinase 5 Neighboring gene solute carrier family 39 (zinc transporter), member 4 Neighboring gene vacuolar protein sorting 28

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA 3'-UTR AU-rich region binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in mRNA polyadenylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA polyadenylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of mRNA cleavage and polyadenylation specificity factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of mRNA cleavage and polyadenylation specificity factor complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
cleavage and polyadenylation specificity factor subunit 1
Names
CPSF 160 kDa subunit
cleavage and polyadenylation specificity factor 160 kDa subunit
NP_001157645.1
NP_001348414.1
NP_444423.1
XP_006521665.1
XP_030104713.1

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_001164173.1NP_001157645.1  cleavage and polyadenylation specificity factor subunit 1 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK155806, BC056388
    Consensus CDS
    CCDS88788.1
    UniProtKB/Swiss-Prot
    Q9EPU4
    UniProtKB/TrEMBL
    A0A2R8VK76
    Related
    ENSMUSP00000155308.2, ENSMUST00000230157.2
    Conserved Domains (3) summary
    COG5161
    Location:11421
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
    pfam03178
    Location:10711406
    CPSF_A; CPSF A subunit region
    pfam10433
    Location:92672
    MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term
  2. NM_001361485.1NP_001348414.1  cleavage and polyadenylation specificity factor subunit 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    BC049941, BC056388
    Conserved Domains (1) summary
    cl26526
    Location:361284
    CPSF_A; CPSF A subunit region
  3. NM_053193.2NP_444423.1  cleavage and polyadenylation specificity factor subunit 1 isoform 2

    See identical proteins and their annotated locations for NP_444423.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    BC056388
    Consensus CDS
    CCDS27577.1
    UniProtKB/Swiss-Prot
    Q9EPU4
    Related
    ENSMUSP00000071794.6, ENSMUST00000071898.7
    Conserved Domains (3) summary
    COG5161
    Location:11435
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
    pfam03178
    Location:10711406
    CPSF_A; CPSF A subunit region
    pfam10433
    Location:92672
    MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    76480008..76491861 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521602.3XP_006521665.1  cleavage and polyadenylation specificity factor subunit 1 isoform X1

    Conserved Domains (1) summary
    COG5161
    Location:361270
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
  2. XM_030248853.2XP_030104713.1  cleavage and polyadenylation specificity factor subunit 1 isoform X2

    Conserved Domains (2) summary
    COG5161
    Location:481087
    SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
    pfam03178
    Location:7371071
    CPSF_A; CPSF A subunit region

RNA

  1. XR_003951451.1 RNA Sequence

    Related
    ENSMUST00000231042.2