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pcif1 phosphorylated CTD interacting factor 1 [ Danio rerio (zebrafish) ]

Gene ID: 553360, updated on 4-Jan-2025

Summary

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Official Symbol
pcif1provided by ZNC
Official Full Name
phosphorylated CTD interacting factor 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-120920-2
See related
Ensembl:ENSDARG00000099084 AllianceGenome:ZFIN:ZDB-GENE-120920-2
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
CAPAM; zCAPAM
Summary
Enables S-adenosyl-L-methionine binding activity and mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity. Involved in mRNA processing. Predicted to be active in nucleus. Orthologous to human PCIF1 (phosphorylated CTD interacting factor 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See pcif1 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (55324242..55352678, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (55317924..55344206, complement)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene ubiquitin-conjugating enzyme E2C Neighboring gene deoxynucleotidyltransferase terminal interacting protein 1 Neighboring gene phospholipid transfer protein Neighboring gene cathepsin A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Cap-specific terminal N (6)-methylation of RNA by an RNA polymerase II-associated methyltransferase. Akichika S, et al. Science, 2019 Jan 11. PMID 30467178
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA polymerase II C-terminal domain binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II C-terminal domain binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables S-adenosyl-L-methionine binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity IEA
Inferred from Electronic Annotation
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
involved_in mRNA processing IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of translation ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
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
NP_001410701.1
XP_068077823.1
XP_068077824.1

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_001423772.1 → NP_001410701.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase

    Status: VALIDATED

    Source sequence(s)
    CABZ01085327, CU638700, EB930835, GDQH01020154
    UniProtKB/Swiss-Prot
    A0A0R4IDC3, A0A0R4IKJ1, Q568T9
    Related
    ENSDARP00000135280.1, ENSDART00000172081.2

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    55324242..55352678 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068221723.1 → XP_068077824.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform X1

    UniProtKB/Swiss-Prot
    A0A0R4IDC3, A0A0R4IKJ1, Q568T9

  2. XM_068221722.1 → XP_068077823.1  mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase isoform X1

    UniProtKB/Swiss-Prot
    A0A0R4IDC3, A0A0R4IKJ1, Q568T9
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A0R4IKJ1.1 GenPept UniProtKB/Swiss-Prot:A0A0R4IKJ1

Gene LinkOut

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