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

Gene ID: 311670, updated on 2-Nov-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, Nov 2024]
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 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
    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
    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
    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

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