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

    Gene ID: 94230, updated on 27-Nov-2024

    Summary

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    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 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, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 37.3), ovary adult (RPKM 29.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cpsf1 in Genome Data Viewer
    Location:
    15 D3; 15 36.13 cM
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 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 STARR-positive B cell enhancer ABC_E3144 Neighboring gene solute carrier protein 52, member 2 Neighboring gene predicted gene, 35739 Neighboring gene STARR-positive B cell enhancer ABC_E9913 Neighboring gene aarF domain containing kinase 5 Neighboring gene STARR-positive B cell enhancer ABC_E1480 Neighboring gene STARR-seq mESC enhancer starr_39057 Neighboring gene solute carrier family 39 (zinc transporter), member 4 Neighboring gene vacuolar protein sorting 28

    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
    • 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. Overexpression of the CstF-64 and CPSF-160 polyadenylation protein messenger RNAs in mouse male germ cells. Dass B, et al. Biol Reprod, 2001 Jun. PMID 11369601
    2. Disruption of mouse poly(A) polymerase mGLD-2 does not alter polyadenylation status in oocytes and somatic cells. Nakanishi T, et al. Biochem Biophys Res Commun, 2007 Dec 7. PMID 17927953
    3. High-throughput analysis of promoter occupancy reveals new targets for Arx, a gene mutated in mental retardation and interneuronopathies. Quillé ML, et al. PLoS One, 2011. PMID 21966449, Free PMC Article
    4. Insights into specificity, redundancy and new cellular functions of C/EBPa and C/EBPb transcription factors through interactome network analysis. Cirilli M, et al. Biochim Biophys Acta Gen Subj, 2017 Feb. PMID 27746211
    5. Affinity purification strategies for proteomic analysis of transcription factor complexes. Giambruno R, et al. J Proteome Res, 2013 Sep 6. PMID 23937658, Free PMC Article

    See all (27) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    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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    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
    		  
    Process Evidence Code Pubs
    involved_in 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
    		  
    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
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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
    		  

    General protein information

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    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_001164173.1 → NP_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/TrEMBL
      A0A2R8VK76
      Related
      ENSMUSP00000155308.2, ENSMUST00000230157.2
      Conserved Domains (3) summary
      COG5161
      Location:1 → 1421
      SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
      pfam03178
      Location:1071 → 1406
      CPSF_A; CPSF A subunit region
      pfam10433
      Location:92 → 672
      MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term

    2. NM_001361485.1 → NP_001348414.1  cleavage and polyadenylation specificity factor subunit 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      BC049941, BC056388
      Conserved Domains (1) summary
      cl26526
      Location:36 → 1284
      CPSF_A; CPSF A subunit region

    3. NM_053193.2 → NP_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:1 → 1435
      SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
      pfam03178
      Location:1071 → 1406
      CPSF_A; CPSF A subunit region
      pfam10433
      Location:92 → 672
      MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term

    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_000081.7 Reference GRCm39 C57BL/6J

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

    mRNA and Protein(s)

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

      Conserved Domains (1) summary
      COG5161
      Location:36 → 1270
      SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]

    2. XM_030248853.2 → XP_030104713.1  cleavage and polyadenylation specificity factor subunit 1 isoform X2

      Conserved Domains (2) summary
      COG5161
      Location:48 → 1087
      SFT1; Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]
      pfam03178
      Location:737 → 1071
      CPSF_A; CPSF A subunit region

    RNA

    1. XR_003951451.1 RNA Sequence

      Related
      ENSMUST00000231042.2
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9EPU4.1 GenPept UniProtKB/Swiss-Prot:Q9EPU4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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