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

Gene ID: 228866, updated on 7-May-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
Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity; S-adenosyl-L-methionine binding activity; and mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity. Involved in mRNA methylation. 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, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 33.7), adrenal adult (RPKM 33.6) and 28 other tissues See more
Orthologs
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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 (5)  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

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 phosphoserine binding ISO
Inferred from Sequence Orthology
more info
 
enables S-adenosyl-L-methionine binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within methylation 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
 
Component Evidence Code Pubs
located_in intercellular bridge ISO
Inferred from Sequence Orthology
more info
 
located_in microtubule cytoskeleton ISO
Inferred from Sequence Orthology
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
 

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)

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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_001374126.1NP_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)