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    Cpsf2 cleavage and polyadenylation specific factor 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299256, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Cpsf2provided by RGD
    Official Full Name
    cleavage and polyadenylation specific factor 2provided by RGD
    Primary source
    RGD:1309687
    See related
    Ensembl:ENSRNOG00000005733 AllianceGenome:RGD:1309687
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA 3'-end processing by stem-loop binding activity and cleavage; mRNA polyadenylation; and pre-mRNA cleavage required for polyadenylation. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF2 (cleavage and polyadenylation specific factor 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 170.4), Spleen (RPKM 158.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cpsf2 in Genome Data Viewer
    Location:
    6q32
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (126885417..126917634)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (121123941..121152756)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (125870372..125898039)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479251 Neighboring gene LLP homolog, long-term synaptic facilitation factor, pseudogene 1 Neighboring gene NADH:ubiquinone oxidoreductase subunit B1 Neighboring gene solute carrier family 24 member 4 Neighboring gene Ras and Rab interactor 3 Neighboring gene uncharacterized LOC134479252

    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. Conserved motifs in both CPSF73 and CPSF100 are required to assemble the active endonuclease for histone mRNA 3'-end maturation. Kolev NG, et al. EMBO Rep, 2008 Oct. PMID 18688255, Free PMC Article
    2. CKIalpha is associated with and phosphorylates star-PAP and is also required for expression of select star-PAP target messenger RNAs. Gonzales ML, et al. J Biol Chem, 2008 May 2. PMID 18305108, Free PMC Article
    3. The poly A polymerase Star-PAP controls 3'-end cleavage by promoting CPSF interaction and specificity toward the pre-mRNA. Laishram RS, et al. EMBO J, 2010 Dec 15. PMID 21102410, Free PMC Article
    4. Smicl is a novel Smad interacting protein and cleavage and polyadenylation specificity factor associated protein. Collart C, et al. Genes Cells, 2005 Sep. PMID 16115198
    5. 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

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  
    is_active_in postsynapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    cleavage and polyadenylation specificity factor subunit 2
    Names
    cleavage and polyadenylation specific factor 2, 100kDa

    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_001106753.1 → NP_001100223.1  cleavage and polyadenylation specificity factor subunit 2

      See identical proteins and their annotated locations for NP_001100223.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473982
      UniProtKB/TrEMBL
      A6JEJ7, D3Z9E6
      Related
      ENSRNOP00000008612.4, ENSRNOT00000008612.7
      Conserved Domains (4) summary
      smart01027
      Location:243 → 368
      Beta-Casp; Beta-Casp domain
      cd16293
      Location:7 → 204
      CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 and related proteins; MBL-fold metallo-hydrolase domain
      pfam07521
      Location:529 → 591
      RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
      pfam13299
      Location:608 → 779
      CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal

    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_086024.1 Reference GRCr8

      Range
      126885417..126917634
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063261764.1 → XP_063117834.1  cleavage and polyadenylation specificity factor subunit 2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2KA08

    2. XM_063261763.1 → XP_063117833.1  cleavage and polyadenylation specificity factor subunit 2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2KA08

    3. XM_039112070.1 → XP_038967998.1  cleavage and polyadenylation specificity factor subunit 2 isoform X3

      UniProtKB/TrEMBL
      A6JEJ7, D3Z9E6
      Conserved Domains (4) summary
      smart01027
      Location:243 → 368
      Beta-Casp; Beta-Casp domain
      cd16293
      Location:7 → 204
      CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 and related proteins; MBL-fold metallo-hydrolase domain
      pfam07521
      Location:529 → 591
      RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
      pfam13299
      Location:608 → 779
      CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal

    4. XM_063261765.1 → XP_063117835.1  cleavage and polyadenylation specificity factor subunit 2 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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