Gene Gene information from NCBI Gene database.
Entrez ID 1786
Gene name DNA methyltransferase 1
Gene symbol DNMT1
Synonyms (NCBI Gene)
ADCADNAIMCXXC9DNMTHSN1EMCMTm.HsaI
Chromosome 19
Chromosome location 19p13.2
Summary This gene encodes an enzyme that transfers methyl groups to cytosine nucleotides of genomic DNA. This protein is the major enzyme responsible for maintaining methylation patterns following DNA replication and shows a preference for hemi-methylated DNA. Me
SNPs SNP information provided by dbSNP.
23
SNP ID Visualize variation Clinical significance Consequence
rs62621089 G>A Likely-benign, conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, missense variant
rs141856197 G>A Conflicting-interpretations-of-pathogenicity Synonymous variant, coding sequence variant
rs143904813 G>A Likely-benign, conflicting-interpretations-of-pathogenicity, benign Synonymous variant, coding sequence variant
rs143925123 G>A,C Conflicting-interpretations-of-pathogenicity Synonymous variant, coding sequence variant
rs144685297 G>A Conflicting-interpretations-of-pathogenicity 5 prime UTR variant, synonymous variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
157
miRTarBase ID miRNA Experiments Reference
MIRT000020 hsa-miR-148a-3p Luciferase reporter assay 20146264
MIRT004456 hsa-miR-152-3p Luciferase reporter assay 20146264
MIRT000020 hsa-miR-148a-3p qRT-PCRLuciferase reporter assayWestern blot 20483747
MIRT000020 hsa-miR-148a-3p qRT-PCRLuciferase reporter assayWestern blot 20483747
MIRT000020 hsa-miR-148a-3p qRT-PCRLuciferase reporter assayWestern blot 20483747
Transcription factors Transcription factors information provided by TRRUST V2 database.
16
Transcription factor Regulation Reference
APC Repression 12538344
DMAP1 Unknown 20864525
E2F1 Repression 24502362
EP300 Activation 19275888
HBP1 Repression 23249948
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
55
GO ID Ontology Definition Evidence Reference
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IEA
GO:0000122 Process Negative regulation of transcription by RNA polymerase II TAS 10888872
GO:0000792 Component Heterochromatin IEA
GO:0001674 Component Female germ cell nucleus IEA
GO:0003677 Function DNA binding IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
126375 2976 ENSG00000130816
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P26358
Protein name DNA (cytosine-5)-methyltransferase 1 (Dnmt1) (EC 2.1.1.37) (CXXC-type zinc finger protein 9) (DNA methyltransferase HsaI) (DNA MTase HsaI) (M.HsaI) (MCMT)
Protein function Methylates CpG residues. Preferentially methylates hemimethylated DNA. Associates with DNA replication sites in S phase maintaining the methylation pattern in the newly synthesized strand, that is essential for epigenetic inheritance. Associates
PDB 3EPZ , 3PTA , 3SWR , 4WXX , 4YOC , 4Z96 , 4Z97 , 5WVO , 5YDR , 6K3A , 6L1F , 6X9I , 6X9J , 6X9K , 7SFC , 7SFD , 7SFE , 7SFF , 7SFG , 7XI9 , 7XIB , 8V9U , 8XQC
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF06464 DMAP_binding 16 105 DMAP1-binding Domain Domain
PF12047 DNMT1-RFD 399 534 Cytosine specific DNA methyltransferase replication foci domain Domain
PF02008 zf-CXXC 645 691 CXXC zinc finger domain Domain
PF01426 BAH 755 880 BAH domain Domain
PF01426 BAH 931 1100 BAH domain Domain
PF00145 DNA_methylase 1139 1594 C-5 cytosine-specific DNA methylase Domain
Tissue specificity TISSUE SPECIFICITY: Ubiquitous; highly expressed in fetal tissues, heart, kidney, placenta, peripheral blood mononuclear cells, and expressed at lower levels in spleen, lung, brain, small intestine, colon, liver, and skeletal muscle. Isoform 2 is less exp
Sequence
MPARTAPARVPTLAVPAISLPDDVRRRLKDLERDSLTEKECVKEKLNLLHEFLQTEIKNQ
LCDLETKLRKEELSEEGYLAKVKSLLNKDLSLENGAHAYNREVNG
RLENGNQARSEARRV
GMADANSPPKPLSKPRTPRRSKSDGEAKPEPSPSPRITRKSTRQTTITSHFAKGPAKRKP
QEESERAKSDESIKEEDKDQDEKRRRVTSRERVARPLPAEEPERAKSGTRTEKEEERDEK
EEKRLRSQTKEPTPKQKLKEEPDREARAGVQADEDEDGDEKDEKKHRSQPKDLAAKRRPE
EKEPEKVNPQISDEKDEDEKEEKRRKTTPKEPTEKKMARAKTVMNSKTHPPKCIQCGQYL
DDPDLKYGQHPPDAVDEPQMLTNEKLSIFDANESGFESYEALPQHKLTCFSVYCKHGHLC
PIDTGLIEKNIELFFSGSAKPIYDDDPSLEGGVNGKNLGPINEWWITGFDGGEKALIGFS
TSFAEYILMDPSPEYAPIFGLMQEKIYISKIVVEFLQSNSDSTYEDLINKIETT
VPPSGL
NLNRFTEDSLLRHAQFVVEQVESYDEAGDSDEQPIFLTPCMRDLIKLAGVTLGQRRAQAR
RQTIRHSTREKDRGPTKATTTKLVYQIFDTFFAEQIEKDDREDKENAFKRRRCGVCEVCQ
QPECGKCKACKDMVKFGGSGRSKQACQERRC
PNMAMKEADDDEEVDDNIPEMPSPKKMHQ
GKKKKQNKNRISWVGEAVKTDGKKSYYKKVCIDAETLEVGDCVSVIPDDSSKPLYLARVT
ALWEDSSNGQMFHAHWFCAGTDTVLGATSDPLELFLVDECEDMQLSYIHSKVKVIYKAPS
ENWAMEGGMDPESLLEGDDGKTYFYQLWYDQDYARFESPP
KTQPTEDNKFKFCVSCARLA
EMRQKEIPRVLEQLEDLDSRVLYYSATKNGILYRVGDGVYLPPEAFTFNIKLSSPVKRPR
KEPVDEDLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIFCPKKSNGRPNETDIKIRVNK
FYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPECVQVYSMGGP
NRFYFLEAYNAKSKSFEDPP
NHARSPGNKGKGKGKGKGKPKSQACEPSEPEIEIKLPKLR
TLDVFSGCGGLSEGFHQAGISDTLWAIEMWDPAAQAFRLNNPGSTVFTEDCNILLKLVMA
GETTNSRGQRLPQKGDVEMLCGGPPCQGFSGMNRFNSRTYSKFKNSLVVSFLSYCDYYRP
RFFLLENVRNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAP
GEKLPLFPEPLHVFAPRACQLSVVVDDKKFVSNITRLSSGPFRTITVRDTMSDLPEVRNG
ASALEISYNGEPQSWFQRQLRGAQYQPILRDHICKDMSALVAARMRHIPLAPGSDWRDLP
NIEVRLSDGTMARKLRYTHHDRKNGRSSSGALRGVCSCVEAGKACDPAARQFNTLIPWCL
PHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFP
DTYRLFGNILDKHRQVGNAVPPPLAKAIGLEIKL
CMLAKARESASAKIKEEEAAKD
Sequence length 1616
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Cysteine and methionine metabolism
Metabolic pathways
MicroRNAs in cancer
  PRC2 methylates histones and DNA
SUMOylation of DNA methylation proteins
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
1416
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Autosomal dominant cerebellar ataxia, deafness and narcolepsy Likely pathogenic; Pathogenic rs2145253354, rs199473690, rs397509391, rs397509392, rs397509393, rs2038416963 RCV002249028
RCV002283444
RCV000043631
RCV000043632
RCV000043633
RCV001254069
Charcot-Marie-Tooth disease Likely pathogenic; Pathogenic rs199473690 RCV000789093
Hereditary sensory neuropathy-deafness-dementia syndrome Likely pathogenic; Pathogenic rs1599366421, rs2145253737, rs199473692, rs199473690, rs199473691, rs397509391, rs397509392, rs397509393 RCV001378601
RCV001385365
RCV000149568
RCV000022529
RCV000022530
RCV003447103
RCV002513639
RCV003447104
Pituitary stalk interruption syndrome Likely pathogenic rs2038202226 RCV001257292
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Acute myeloid leukemia Likely benign; Benign rs56093633, rs117294281, rs142903301 RCV005918935
RCV005889724
RCV005891441
Ataxia Uncertain significance rs1057518769 RCV000415045
Beckwith-Wiedemann syndrome Conflicting classifications of pathogenicity; Uncertain significance rs138841970, rs150331990, rs757460628 RCV000625705
RCV000625704
RCV000625706
Cervical cancer Benign; Likely benign rs117294281, rs142903301, rs2513836247 RCV005889726
RCV005891445
RCV005931529
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Acute On Chronic Liver Failure Stimulate 38452586
Adenocarcinoma Associate 25923331
Adenocarcinoma Bronchiolo Alveolar Associate 19484794
Adenocarcinoma of Lung Associate 32945503, 34045189
Adenomatous Polyposis Coli Associate 21347319
Adrenocortical Carcinoma Associate 37528470
Allergic Fungal Sinusitis Stimulate 35328422
Alzheimer Disease Associate 18628954, 19117641, 23308199, 23365052, 36646969
Amyotrophic Lateral Sclerosis Associate 26210997, 38013317
Aneuploidy Associate 32057913