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Dnmt1 DNA methyltransferase (cytosine-5) 1 [ Mus musculus (house mouse) ]

Gene ID: 13433, updated on 24-Dec-2014
Official Symbol
Dnmt1provided by MGI
Official Full Name
DNA methyltransferase (cytosine-5) 1provided by MGI
Primary source
MGI:MGI:94912
See related
Ensembl:ENSMUSG00000004099
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Dnmt; MCMT; Met1; Cxxc9; MTase; Met-1; Dnmt1o; m.MmuI; MommeD2
See Dnmt1 in Epigenomics, MapViewer
Location:
9 A3; 9 7.66 cM
Exon count:
41
Annotation release Status Assembly Chr Location
104 current GRCm38.p2 (GCF_000001635.22) 9 NC_000075.6 (20907205..20959888, complement)

Chromosome 9 - NC_000075.6Genomic Context describing neighboring genes Neighboring gene peter pan homolog (Drosophila) Neighboring gene eukaryotic translation initiation factor 3, subunit G Neighboring gene microRNA 7081 Neighboring gene sphingosine-1-phosphate receptor 2 Neighboring gene mitochondrial ribosomal protein L4

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA (cytosine-5-)-methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA (cytosine-5-)-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates ISO
Inferred from Sequence Orthology
more info
 
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
DNA binding ISO
Inferred from Sequence Orthology
more info
 
DNA-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
catalytic activity IEA
Inferred from Electronic Annotation
more info
 
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
estrogen receptor binding ISO
Inferred from Sequence Orthology
more info
 
histone deacetylase binding ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
methyl-CpG binding IDA
Inferred from Direct Assay
more info
PubMed 
methyl-CpG binding ISO
Inferred from Sequence Orthology
more info
 
methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
unmethylated CpG binding ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
C-5 methylation of cytosine IDA
Inferred from Direct Assay
more info
PubMed 
DNA hypermethylation ISO
Inferred from Sequence Orthology
more info
 
DNA methylation IDA
Inferred from Direct Assay
more info
PubMed 
DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
DNA methylation on cytosine ISO
Inferred from Sequence Orthology
more info
 
DNA methylation on cytosine within a CG sequence ISO
Inferred from Sequence Orthology
more info
 
S-adenosylhomocysteine metabolic process ISO
Inferred from Sequence Orthology
more info
 
S-adenosylmethioninamine metabolic process ISO
Inferred from Sequence Orthology
more info
 
S-adenosylmethionine metabolic process ISO
Inferred from Sequence Orthology
more info
 
cellular response to amino acid stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to transforming growth factor beta stimulus ISO
Inferred from Sequence Orthology
more info
 
chromatin modification IEA
Inferred from Electronic Annotation
more info
 
gene silencing IDA
Inferred from Direct Assay
more info
PubMed 
maintenance of DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
maintenance of DNA methylation ISO
Inferred from Sequence Orthology
more info
 
metabolic process IEA
Inferred from Electronic Annotation
more info
 
methylation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of histone H3-K9 methylation ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription from RNA polymerase II promoter IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
positive regulation of histone H3-K4 methylation ISO
Inferred from Sequence Orthology
more info
 
regulation of cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to antidepressant ISO
Inferred from Sequence Orthology
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
pericentric heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
protein complex ISO
Inferred from Sequence Orthology
more info
 
replication fork IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
DNA (cytosine-5)-methyltransferase 1
Names
DNA (cytosine-5)-methyltransferase 1
DNA MTase MmuI
DNA methyltransferase MmuI
NP_001186360.2
NP_001186361.1
NP_001186362.1
NP_034196.5

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_001199431.1NP_001186360.2  DNA (cytosine-5)-methyltransferase 1 isoform 1

    See proteins identical to NP_001186360.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest protein (isoform 1). This variant has two upstream in-frame AUGs but N-terminal sequencing and western analysis from PMID: 9830015 (Table I and Figure 2) support the use of the third in-frame AUG.
    Source sequence(s)
    AF162282, AK147143
    Consensus CDS
    CCDS57655.1
    UniProtKB/Swiss-Prot
    P13864
    UniProtKB/TrEMBL
    Q3UHZ3
    Related
    ENSMUSP00000004202, ENSMUST00000004202
    Conserved Domains (7) summary
    COG0270
    Location:11411594
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    PRK13863
    Location:107294
    PRK13863; type IV secretion system T-DNA border endonuclease VirD2; Provisional
    cd04711
    Location:9691104
    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:758881
    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:648694
    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
  2. NM_001199432.1NP_001186361.1  DNA (cytosine-5)-methyltransferase 1 isoform 3

    See proteins identical to NP_001186361.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses a different splice site and contains a different first exon, which results in the use of a downstream, in-frame, start codon, compared to variant 1. The resulting protein (isoform 3) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AF036007, AF162282, AK136213, AK147143
    Consensus CDS
    CCDS57653.1
    UniProtKB/TrEMBL
    J3QNW0
    UniProtKB/Swiss-Prot
    P13864
    UniProtKB/TrEMBL
    Q3UHZ3
    UniProtKB/TrEMBL
    Q3UWN4
    Related
    ENSMUSP00000136982, ENSMUST00000177754
    Conserved Domains (5) summary
    COG0270
    Location:10221475
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    cd04711
    Location:850985
    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:639762
    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:529575
    zf-CXXC; CXXC zinc finger domain
    pfam12047
    Location:286421
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain
  3. NM_001199433.1NP_001186362.1  DNA (cytosine-5)-methyltransferase 1 isoform 4

    See proteins identical to NP_001186362.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains a different first exon, which results in the use of a downstream, in-frame, start codon, compared to variant 1. The resulting protein (isoform 4) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AF036009, AF175432, AK147143, CK636383
    Consensus CDS
    CCDS57654.1
    UniProtKB/Swiss-Prot
    P13864
    UniProtKB/TrEMBL
    Q3UHZ3
    Related
    ENSMUSP00000136669, ENSMUST00000178110
    Conserved Domains (5) summary
    COG0270
    Location:10231476
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    cd04711
    Location:851986
    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:640763
    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:530576
    zf-CXXC; CXXC zinc finger domain
    pfam12047
    Location:287422
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain
  4. NM_010066.4NP_034196.5  DNA (cytosine-5)-methyltransferase 1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses a different splice site, compared to variant 1. The resulting protein (isoform 2) is shorter by 1 amino acid when it is compared to isoform 1. This variant has two upstream in-frame AUGs but N-terminal sequencing and western analysis from PMID: 9830015 (Table I and Figure 2) support the use of the third in-frame AUG.
    Source sequence(s)
    AC170598, AF162282, AK147143
    UniProtKB/Swiss-Prot
    P13864
    UniProtKB/TrEMBL
    Q3UHZ3
    Conserved Domains (6) summary
    COG0270
    Location:11401593
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    cd04711
    Location:9681103
    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:757880
    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:647693
    zf-CXXC; CXXC zinc finger domain
    pfam06464
    Location:16106
    DMAP_binding; DMAP1-binding Domain
    pfam12047
    Location:404539
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 104

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

Reference GRCm38.p2 C57BL/6J

Genomic

  1. NC_000075.6 

    Range
    20907205..20959888
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006509988.1XP_006510051.1  

    Conserved Domains (7) summary
    COG0270
    Location:12001653
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    PRK13863
    Location:160353
    PRK13863; type IV secretion system T-DNA border endonuclease VirD2; Provisional
    cd04711
    Location:10281163
    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:817940
    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:707753
    zf-CXXC; CXXC zinc finger domain
    pfam06464
    Location:69159
    DMAP_binding; DMAP1-binding Domain
    pfam12047
    Location:464599
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain
  2. XM_006509987.1XP_006510050.1  

    Conserved Domains (6) summary
    COG0270
    Location:12011654
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    cd04711
    Location:10291164
    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:818941
    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:708754
    zf-CXXC; CXXC zinc finger domain
    pfam06464
    Location:69159
    DMAP_binding; DMAP1-binding Domain
    pfam12047
    Location:465600
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain
  3. XM_006509989.1XP_006510052.1  

    See proteins identical to XP_006510052.1

    UniProtKB/TrEMBL
    J3QNW0
    Conserved Domains (5) summary
    COG0270
    Location:10221475
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    cd04711
    Location:850985
    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:639762
    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:529575
    zf-CXXC; CXXC zinc finger domain
    pfam12047
    Location:286421
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain
  4. XM_006509990.1XP_006510053.1  

    Conserved Domains (6) summary
    COG0270
    Location:10291482
    Dcm; Site-specific DNA methylase [DNA replication, recombination, and repair]
    PRK13863
    Location:4182
    PRK13863; type IV secretion system T-DNA border endonuclease VirD2; Provisional
    cd04711
    Location:857992
    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:646769
    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:536582
    zf-CXXC; CXXC zinc finger domain
    pfam12047
    Location:293428
    DNMT1-RFD; Cytosine specific DNA methyltransferase replication foci domain

Alternate Mm_Celera

Genomic

  1. AC_000031.1 

    Range
    18175904..18228582
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)