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    Cstf1 cleavage stimulation factor subunit 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311670, updated on 10-Jul-2024

    Summary

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    Official Symbol
    Cstf1provided by RGD
    Official Full Name
    cleavage stimulation factor subunit 1provided by RGD
    Primary source
    RGD:1309267
    See related
    EnsemblRapid:ENSRNOG00000004775 AllianceGenome:RGD:1309267
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in mRNA 3'-end processing. Predicted to be located in nucleoplasm. Predicted to be part of mRNA cleavage stimulating factor complex. Orthologous to human CSTF1 (cleavage stimulation factor subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Testes (RPKM 94.1), Thymus (RPKM 88.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cstf1 in Genome Data Viewer
    Location:
    3q42
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (181562953..181574727)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (161144522..161156294)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (170380413..170392162)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102550081 Neighboring gene family with sequence similarity 210, member B Neighboring gene aurora kinase A Neighboring gene Cas scaffold protein family member 4 Neighboring gene replication termination factor 2 domain containing 1 Neighboring gene glucosaminyl (N-acetyl) transferase family member 7

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Capping, splicing, and 3' processing are independently stimulated by RNA polymerase II: different functions for different segments of the CTD. Fong N, et al. Genes Dev, 2001 Jul 15. PMID 11459828, Free PMC Article
    2. Pre-mRNA 3'-end processing complex assembly and function. Chan S, et al. Wiley Interdiscip Rev RNA, 2011 May-Jun. PMID 21957020, Free PMC Article
    3. Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Gruber AR, et al. Wiley Interdiscip Rev RNA, 2014 Mar-Apr. PMID 24243805, Free PMC Article
    4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Clone Names

    • MGC109461

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of mRNA cleavage stimulating factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mRNA cleavage stimulating factor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    cleavage stimulation factor subunit 1
    Names
    CF-1 50 kDa subunit
    CSTF 50 kDa subunit
    cleavage stimulation factor 50 kDa subunit
    cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa
    cstF-50

    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_001013161.2 → NP_001013179.1  cleavage stimulation factor subunit 1

      See identical proteins and their annotated locations for NP_001013179.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Conserved Domains (3) summary
      cd00200
      Location:100 → 424
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:116 → 171
      7WD40; WD40 repeat [structural motif]
      pfam16699
      Location:8 → 59
      CSTF1_dimer; Cleavage stimulation factor subunit 1, dimerization domain

    2. NM_001415876.1 → NP_001402805.1  cleavage stimulation factor subunit 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Related
      ENSRNOP00000051976.2, ENSRNOT00000055101.4

    3. NM_001415877.1 → NP_001402806.1  cleavage stimulation factor subunit 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      181562953..181574727
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235683.5 → XP_006235745.1  cleavage stimulation factor subunit 1 isoform X1

      See identical proteins and their annotated locations for XP_006235745.1

      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Conserved Domains (3) summary
      cd00200
      Location:100 → 424
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:116 → 171
      7WD40; WD40 repeat [structural motif]
      pfam16699
      Location:8 → 59
      CSTF1_dimer; Cleavage stimulation factor subunit 1, dimerization domain

    2. XM_039105146.2 → XP_038961074.1  cleavage stimulation factor subunit 1 isoform X1

      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Conserved Domains (3) summary
      cd00200
      Location:100 → 424
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:116 → 171
      7WD40; WD40 repeat [structural motif]
      pfam16699
      Location:8 → 59
      CSTF1_dimer; Cleavage stimulation factor subunit 1, dimerization domain

    3. XM_006235686.5 → XP_006235748.1  cleavage stimulation factor subunit 1 isoform X1

      See identical proteins and their annotated locations for XP_006235748.1

      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Conserved Domains (3) summary
      cd00200
      Location:100 → 424
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:116 → 171
      7WD40; WD40 repeat [structural motif]
      pfam16699
      Location:8 → 59
      CSTF1_dimer; Cleavage stimulation factor subunit 1, dimerization domain

    4. XM_006235682.3 → XP_006235744.1  cleavage stimulation factor subunit 1 isoform X1

      See identical proteins and their annotated locations for XP_006235744.1

      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0
      Conserved Domains (3) summary
      cd00200
      Location:100 → 424
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:116 → 171
      7WD40; WD40 repeat [structural motif]
      pfam16699
      Location:8 → 59
      CSTF1_dimer; Cleavage stimulation factor subunit 1, dimerization domain

    5. XM_006235681.4 → XP_006235743.4  cleavage stimulation factor subunit 1 isoform X1

      UniProtKB/Swiss-Prot
      Q5BJQ6
      UniProtKB/TrEMBL
      A0A8I5Y796, A6KKX0

    RNA

    1. XR_010064638.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BJQ6.1 GenPept UniProtKB/Swiss-Prot:Q5BJQ6

    Gene LinkOut

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

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