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

    Gene ID: 228866, updated on 27-Nov-2024

    Summary

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    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, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 33.7), adrenal adult (RPKM 33.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. CAPAM: The mRNA Cap Adenosine N6-Methyltransferase. Cowling VH. Trends Biochem Sci, 2019 Mar. PMID 30679132, Free PMC Article
    2. m(6)Am Methyltransferase PCIF1 Regulates Periodontal Inflammation. Song W, et al. J Dent Res, 2024 Oct. PMID 39290151
    3. Role of PCIF1-mediated 5'-cap N6-methyladeonsine mRNA methylation in colorectal cancer and anti-PD-1 immunotherapy. Wang L, et al. EMBO J, 2023 Jan 16. PMID 36514940, Free PMC Article
    4. PCIF1 Catalyzes m6Am mRNA Methylation to Regulate Gene Expression. Sendinc E, et al. Mol Cell, 2019 Aug 8. PMID 31279659, Free PMC Article
    5. Identification of the m(6)Am Methyltransferase PCIF1 Reveals the Location and Functions of m(6)Am in the Transcriptome. Boulias K, et al. Mol Cell, 2019 Aug 8. PMID 31279658, Free PMC Article

    See all (33) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. m[6]Am Methyltransferase PCIF1 Regulates Periodontal Inflammation.
      Title: m(6)Am Methyltransferase PCIF1 Regulates Periodontal Inflammation.
    2. Role of PCIF1-mediated 5'-cap N6-methyladeonsine mRNA methylation in colorectal cancer and anti-PD-1 immunotherapy.
      Title: Role of PCIF1-mediated 5'-cap N6-methyladeonsine mRNA methylation in colorectal cancer and anti-PD-1 immunotherapy.
    3. The Mammalian Cap-Specific m(6)Am RNA Methyltransferase PCIF1 Regulates Transcript Levels in Mouse Tissues.
      Title: The Mammalian Cap-Specific m(6)Am RNA Methyltransferase PCIF1 Regulates Transcript Levels in Mouse Tissues.
    4. in adult mouse beta cells, Pcif1 limits Pdx1 protein accumulation and thus the expression of insulin and other gene targets important in the maintenance of beta cell mass and function.
      Title: Pcif1 modulates Pdx1 protein stability and pancreatic β cell function and survival in mice.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC25976

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II C-terminal domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II C-terminal domain binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase II C-terminal domain phosphoserine binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II C-terminal domain phosphoserine binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables S-adenosyl-L-methionine binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables S-adenosyl-L-methionine binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    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

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    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)

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

      Status: VALIDATED

      Source sequence(s)
      AL591495
      Conserved Domains (2) summary
      cd00201
      Location:64 → 94
      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:462 → 632
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain

    2. NM_001374127.1 → NP_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:47 → 77
      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:445 → 615
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain

    3. NM_001374128.1 → NP_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:47 → 77
      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:445 → 615
      PCIF1_WW; Phosphorylated CTD interacting factor 1 WW domain

    4. NM_146129.3 → NP_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:47 → 77
      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:445 → 615
      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)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P59114.1 GenPept UniProtKB/Swiss-Prot:P59114

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