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dnmt1 DNA (cytosine-5-)-methyltransferase 1 [ Danio rerio (zebrafish) ]

Gene ID: 30430, updated on 5-Jan-2025

Summary

Official Symbol
dnmt1provided by ZNC
Official Full Name
DNA (cytosine-5-)-methyltransferase 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-990714-15
See related
Ensembl:ENSDARG00000030756 AllianceGenome:ZFIN:ZDB-GENE-990714-15
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
ddn; mta; cb983; dmnt1; cb1075; fb05h01; wu:fb05h01
Summary
Enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates. Acts upstream of or within several processes, including camera-type eye development; digestive system development; and hemopoiesis. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; immature eye; nervous system; neural tube; and pectoral fin. Human ortholog(s) of this gene implicated in Graves' disease; autosomal dominant cerebellar ataxia, deafness and narcolepsy; hereditary sensory neuropathy; hereditary sensory neuropathy type 1E; and lung non-small cell carcinoma. Orthologous to human DNMT1 (DNA methyltransferase 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
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Genomic context

See dnmt1 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (54591218..54607216, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (54336616..54352604, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene purinergic receptor P2Y11 Neighboring gene eukaryotic translation initiation factor 3, subunit G Neighboring gene sphingosine-1-phosphate receptor 2 Neighboring gene intercellular adhesion molecule 3

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA (cytosine-5-)-methyltransferase activity  
enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates PubMed 
enables DNA binding  
enables chromatin binding  
enables metal ion binding  
enables methyltransferase activity  
enables transferase activity  
enables zinc ion binding  
Process Evidence Code Pubs
acts_upstream_of_or_within B cell differentiation PubMed 
acts_upstream_of_or_within DNA methylation-dependent constitutive heterochromatin formation  
acts_upstream_of_or_within Kupffer's vesicle development PubMed 
acts_upstream_of_or_within T cell differentiation in thymus PubMed 
acts_upstream_of_or_within cartilage development PubMed 
acts_upstream_of_or_within definitive hemopoiesis PubMed 
acts_upstream_of_or_within definitive hemopoiesis PubMed 
acts_upstream_of_or_within determination of left/right symmetry PubMed 
acts_upstream_of_or_within determination of left/right symmetry PubMed 
acts_upstream_of_or_within digestive tract development PubMed 
acts_upstream_of_or_within epigenetic regulation of gene expression PubMed 
acts_upstream_of_or_within exocrine pancreas development PubMed 
acts_upstream_of_or_within granulocyte differentiation PubMed 
acts_upstream_of_or_within granulocyte differentiation PubMed 
acts_upstream_of_or_within intrahepatic bile duct development PubMed 
acts_upstream_of_or_within lens development in camera-type eye PubMed 
acts_upstream_of_or_within liver development PubMed 
acts_upstream_of_or_within liver development PubMed 
acts_upstream_of_or_within methylation  
acts_upstream_of_or_within negative regulation of gene expression via chromosomal CpG island methylation PubMed 
acts_upstream_of_or_within pancreas development PubMed 
acts_upstream_of_or_within retina layer formation PubMed 
acts_upstream_of_or_within retina morphogenesis in camera-type eye PubMed 
Component Evidence Code Pubs
located_in nucleus  

General protein information

Preferred Names
DNA (cytosine-5)-methyltransferase 1
NP_571264.2
XP_017208641.1

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_131189.2NP_571264.2  DNA (cytosine-5)-methyltransferase 1

    Status: VALIDATED

    Source sequence(s)
    CU571160
    UniProtKB/TrEMBL
    A0A8M1PAS3, F1RCN0
    Related
    ENSDARP00000013243.3, ENSDART00000021977.5
    Conserved Domains (6) summary
    COG0270
    Location:10221482
    Dcm; Site-specific DNA-cytosine methylase [Replication, recombination and repair]
    cd04711
    Location:846982
    BAH_Dnmt1_II; BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG ...
    cd04760
    Location:634755
    BAH_Dnmt1_I; BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG ...
    pfam02008
    Location:525570
    zf-CXXC; CXXC zinc finger domain
    pfam06464
    Location:595
    DMAP_binding; DMAP1-binding Domain
    pfam12047
    Location:280415
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain

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_007114.7 Reference GRCz11 Primary Assembly

    Range
    54591218..54607216 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017353152.3XP_017208641.1  DNA (cytosine-5)-methyltransferase 1 isoform X1

    UniProtKB/TrEMBL
    A0A8M6YUX4
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