U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Pcf11 PCF11 cleavage and polyadenylation factor subunit [ Mus musculus (house mouse) ]

    Gene ID: 74737, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Pcf11provided by MGI
    Official Full Name
    PCF11 cleavage and polyadenylation factor subunitprovided by MGI
    Primary source
    MGI:MGI:1919579
    See related
    Ensembl:ENSMUSG00000041328 AllianceGenome:MGI:1919579
    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
    2500001H09Rik; 5730417B17Rik
    Summary
    Predicted to enable RNA polymerase II complex binding activity and mRNA binding activity. Predicted to be involved in termination of RNA polymerase II transcription. Predicted to be located in mitochondrion and nucleoplasm. Predicted to be part of mRNA cleavage factor complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human PCF11 (PCF11 cleavage and polyadenylation factor subunit). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 8.7), CNS E11.5 (RPKM 7.9) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Pcf11 in Genome Data Viewer
    Location:
    7 E1; 7 51.56 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (92292666..92319284, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (92643458..92670080, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 31491 Neighboring gene coiled-coil domain containing 90B Neighboring gene ankyrin repeat domain 42 Neighboring gene STARR-positive B cell enhancer ABC_E6571 Neighboring gene predicted gene, 26944 Neighboring gene STARR-positive B cell enhancer ABC_E291 Neighboring gene STARR-seq mESC enhancer starr_19528 Neighboring gene pantothenate kinase 1 pseudogene Neighboring gene predicted gene 2551

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Regulation of Intronic Polyadenylation by PCF11 Impacts mRNA Expression of Long Genes. Wang R, et al. Cell Rep, 2019 Mar 5. PMID 30840896, Free PMC Article
    2. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • KIAA0824

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II complex binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in termination of RNA polymerase II transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in termination of RNA polymerase II transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in termination of RNA polymerase II transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mRNA cleavage factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mRNA cleavage factor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    pre-mRNA cleavage complex 2 protein Pcf11
    Names
    cleavage and polyadenylation factor subunit homolog
    pre-mRNA cleavage complex II protein Pcf11

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_029078.3 → NP_083354.3  pre-mRNA cleavage complex 2 protein Pcf11

      See identical proteins and their annotated locations for NP_083354.3

      Status: VALIDATED

      Source sequence(s)
      AK173035, BC030492, CJ046746
      Consensus CDS
      CCDS52311.1
      UniProtKB/Swiss-Prot
      B2RX07, F6UFZ5, G3X9Z4, Q3TT32, Q3TTQ0, Q69ZY3, Q8K0S1, Q8R2P5, Q99KH9
      UniProtKB/TrEMBL
      A5HLW1
      Related
      ENSMUSP00000113717.2, ENSMUST00000119954.9
      Conserved Domains (1) summary
      cd03562
      Location:19 → 130
      CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      92292666..92319284 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006508272.5 → XP_006508335.1  pre-mRNA cleavage complex 2 protein Pcf11 isoform X1

      UniProtKB/TrEMBL
      A0A9S4HM55
      Related
      ENSMUSP00000115278.2, ENSMUST00000151177.2
      Conserved Domains (3) summary
      PTZ00121
      Location:311 → 471
      PTZ00121; MAEBL; Provisional
      pfam09606
      Location:981 → 1328
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      cd16982
      Location:19 → 145
      CID_Pcf11; CID (CTD-Interacting Domain) of Pcf11
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    G3X9Z4.1 GenPept UniProtKB/Swiss-Prot:G3X9Z4

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous