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

Gene ID: 74737, updated on 2-Nov-2024

Summary

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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, Nov 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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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. 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

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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

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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)

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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_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

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