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    Pcif1 phosphorylated CTD interacting factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 228866, updated on 9-Dec-2024

    Summary

    Official Symbol
    Pcif1provided by MGI
    Official Full Name
    phosphorylated CTD interacting factor 1provided by MGI
    Primary source
    MGI:MGI:2443858
    See related
    Ensembl:ENSMUSG00000039849 AllianceGenome:MGI:2443858
    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
    CAPAM; C20orf67; 2310022K11Rik; F730014I05Rik
    Summary
    Enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity. Predicted to be involved in mRNA processing; negative regulation of translation; and positive regulation of translation. Predicted to be located in intercellular bridge; microtubule cytoskeleton; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human PCIF1 (phosphorylated CTD interacting factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 33.7), adrenal adult (RPKM 33.6) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Pcif1 in Genome Data Viewer
    Location:
    2 H3; 2 85.27 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (164721288..164733360)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (164879368..164891440)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6018 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:164659262-164659371 Neighboring gene neuralized E3 ubiquitin protein ligase 2 Neighboring gene cathepsin A Neighboring gene phospholipid transfer protein Neighboring gene STARR-seq mESC enhancer starr_06339 Neighboring gene RIKEN cDNA 4930445K14 gene Neighboring gene STARR-positive B cell enhancer ABC_E6019 Neighboring gene STARR-positive B cell enhancer ABC_E2059 Neighboring gene predicted gene, 46775 Neighboring gene zinc finger protein 335 Neighboring gene STARR-seq mESC enhancer starr_06342 Neighboring gene zinc finger protein 335, opposite strand Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:164764412-164764521 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:164768440-164768694 Neighboring gene matrix metallopeptidase 9

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (6)  1 citation
    • Targeted (2) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC25976

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in methylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of translation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
     
    located_in microtubule cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    located_in microtubule cytoskeleton 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 IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase
    Names
    PDX1 C-terminal inhibiting factor 1
    cap-specific adenosine methyltransferase
    phosphorylated CTD interacting factor PCIF1
    NP_001361055.1
    NP_001361056.1
    NP_001361057.1
    NP_666241.1

    NCBI Reference Sequences (RefSeq)

    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_001374126.1NP_001361055.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL591495
      Conserved Domains (2) summary
      cd00201
      Location:6494
      WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
      pfam12237
      Location:462632
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain
    2. NM_001374127.1NP_001361056.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL591495
      Consensus CDS
      CCDS17064.1
      UniProtKB/Swiss-Prot
      P59114
      UniProtKB/TrEMBL
      Q542C3
      Conserved Domains (2) summary
      cd00201
      Location:4777
      WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
      pfam12237
      Location:445615
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain
    3. NM_001374128.1NP_001361057.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL591495
      Consensus CDS
      CCDS17064.1
      UniProtKB/Swiss-Prot
      P59114
      UniProtKB/TrEMBL
      Q542C3
      Conserved Domains (2) summary
      cd00201
      Location:4777
      WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
      pfam12237
      Location:445615
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain
    4. NM_146129.3NP_666241.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform 2

      See identical proteins and their annotated locations for NP_666241.1

      Status: VALIDATED

      Source sequence(s)
      AK089358
      Consensus CDS
      CCDS17064.1
      UniProtKB/Swiss-Prot
      P59114
      UniProtKB/TrEMBL
      Q542C3
      Related
      ENSMUSP00000039555.4, ENSMUST00000041643.5
      Conserved Domains (2) summary
      cd00201
      Location:4777
      WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
      pfam12237
      Location:445615
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      164721288..164733360
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)