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    Dnmt1 DNA methyltransferase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 84350, updated on 9-Dec-2024

    Summary

    Official Symbol
    Dnmt1provided by RGD
    Official Full Name
    DNA methyltransferase 1provided by RGD
    Primary source
    RGD:620979
    See related
    EnsemblRapid:ENSRNOG00000039859 AllianceGenome:RGD:620979
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables several functions, including DNA (cytosine-5-)-methyltransferase activity; histone deacetylase binding activity; and nuclear estrogen receptor binding activity. Involved in several processes, including cellular response to lead ion; cellular response to platelet-derived growth factor stimulus; and negative regulation of gene expression via chromosomal CpG island methylation. Located in nucleus. Part of protein-containing complex. Used to study choline deficiency disease and lung carcinoma. Biomarker of several diseases, including choline deficiency disease; congestive heart failure; fetal alcohol spectrum disorder; liver disease (multiple); and type 2 diabetes mellitus. 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, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 213.6), Spleen (RPKM 125.4) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Dnmt1 in Genome Data Viewer
    Location:
    8q13
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (27716797..27763405, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (19440611..19486659, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (21922515..21968495, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA, C/D box 105B Neighboring gene peter pan homolog Neighboring gene eukaryotic translation initiation factor 3, subunit G Neighboring gene spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP, pseudogene 1 Neighboring gene sphingosine-1-phosphate receptor 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA (cytosine-5-)-methyltransferase activity  
    enables DNA (cytosine-5-)-methyltransferase activity PubMed 
    enables DNA (cytosine-5-)-methyltransferase activity  
    enables DNA (cytosine-5-)-methyltransferase activity, acting on CpN substrates  
    enables DNA (cytosine-5-)-methyltransferase activity, acting on CpNpG substrates  
    enables DNA binding  
    enables DNA binding  
    enables DNA-methyltransferase activity  
    enables RNA binding  
    enables S-adenosylmethionine-dependent methyltransferase activity PubMed 
    enables chromatin binding  
    enables histone deacetylase binding PubMed 
    enables lncRNA binding  
    enables lncRNA binding  
    enables methyl-CpG binding  
    enables methyl-CpG binding  
    enables methyltransferase activity  
    enables nuclear estrogen receptor binding PubMed 
    enables promoter-specific chromatin binding  
    enables promoter-specific chromatin binding  
    enables promoter-specific chromatin binding  
    enables protein domain specific binding PubMed 
    enables zinc ion binding  
    enables zinc ion binding  
    Items 1 - 25 of 54
    Process Evidence Code Pubs
    involved_in DNA methylation-dependent constitutive heterochromatin formation  
    involved_in DNA methylation-dependent constitutive heterochromatin formation  
    involved_in DNA-templated transcription  
    acts_upstream_of DNA-templated transcription  
    involved_in cellular response to amino acid stimulus  
    acts_upstream_of_or_within cellular response to amino acid stimulus  
    involved_in cellular response to bisphenol A  
    acts_upstream_of_or_within cellular response to bisphenol A  
    involved_in cellular response to lead ion PubMed 
    involved_in cellular response to nerve growth factor stimulus PubMed 
    involved_in cellular response to platelet-derived growth factor stimulus PubMed 
    involved_in cellular response to transforming growth factor beta stimulus PubMed 
    involved_in chromosomal DNA methylation maintenance following DNA replication  
    acts_upstream_of_or_within chromosomal DNA methylation maintenance following DNA replication  
    involved_in epigenetic programming of gene expression  
    acts_upstream_of_or_within epigenetic programming of gene expression  
    acts_upstream_of_or_within_positive_effect epigenetic programming of gene expression  
    involved_in methylation  
    acts_upstream_of_or_within negative regulation of DNA-templated transcription  
    acts_upstream_of_or_within negative regulation of gene expression  
    involved_in negative regulation of gene expression  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation PubMed 
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of vascular associated smooth muscle cell apoptotic process  
    involved_in negative regulation of vascular associated smooth muscle cell apoptotic process  
    involved_in negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching  
    involved_in negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching  
    involved_in neuron differentiation PubMed 
    involved_in positive regulation of gene expression  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of vascular associated smooth muscle cell proliferation  
    involved_in positive regulation of vascular associated smooth muscle cell proliferation  
    acts_upstream_of_or_within regulation of cell population proliferation  
    acts_upstream_of_or_within regulation of gene expression  
    involved_in response to activity PubMed 
    involved_in response to alcohol PubMed 
    involved_in response to bisphenol A PubMed 
    involved_in response to caffeine PubMed 
    involved_in response to estradiol PubMed 
    involved_in response to ethanol PubMed 
    involved_in response to ionizing radiation PubMed 
    involved_in response to lead ion PubMed 
    involved_in response to lipopolysaccharide PubMed 
    involved_in response to nutrient levels PubMed 
    involved_in response to testosterone PubMed 
    involved_in response to toxic substance PubMed 
    involved_in response to vitamin A PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    Items 1 - 25 of 54
    Component Evidence Code Pubs
    located_in female germ cell nucleus  
    located_in female germ cell nucleus  
    located_in germ cell nucleus  
    located_in heterochromatin  
    located_in mitochondrion PubMed 
    is_active_in nucleus  
    located_in nucleus PubMed 
    located_in nucleus  
    located_in pericentric heterochromatin  
    located_in pericentric heterochromatin  
    part_of protein-containing complex PubMed 
    located_in replication fork  
    located_in replication fork  

    General protein information

    Preferred Names
    DNA (cytosine-5)-methyltransferase 1
    Names
    DNA (cytosine-5-)-methyltransferase 1
    DNA MTase RnoIP
    DNA methyltransferase (cytosine-5) 1
    DNA methyltransferase I
    MCMT
    m.RnoIP
    NP_445806.3
    XP_063122293.1

    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_053354.3NP_445806.3  DNA (cytosine-5)-methyltransferase 1

      See identical proteins and their annotated locations for NP_445806.3

      Status: PROVISIONAL

      Source sequence(s)
      CH473993
      UniProtKB/Swiss-Prot
      P70487, Q9R252, Q9WTX3, Q9WU57, Q9Z330
      UniProtKB/TrEMBL
      A6JNM5, F1LQT9
      Related
      ENSRNOP00000063831.4, ENSRNOT00000064932.6
      Conserved Domains (6) summary
      COG0270
      Location:11421595
      Dcm; Site-specific DNA-cytosine methylase [Replication, recombination and repair]
      cd04711
      Location:9691105
      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:759881
      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:649695
      zf-CXXC; CXXC zinc finger domain
      pfam06464
      Location:16106
      DMAP_binding; DMAP1-binding Domain
      pfam12047
      Location:405540
      DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      27716797..27763405 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063266223.1XP_063122293.1  DNA (cytosine-5)-methyltransferase 1 isoform X1

      UniProtKB/Swiss-Prot
      P70487, Q9R252, Q9WTX3, Q9WU57, Q9Z330
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