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    Dnmt3a DNA methyltransferase 3 alpha [ Rattus norvegicus (Norway rat) ]

    Gene ID: 444984, updated on 9-Dec-2024

    Summary

    Official Symbol
    Dnmt3aprovided by RGD
    Official Full Name
    DNA methyltransferase 3 alphaprovided by RGD
    Primary source
    RGD:1303336
    See related
    EnsemblRapid:ENSRNOG00000026649 AllianceGenome:RGD:1303336
    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 chromatin binding activity. Involved in several processes, including cellular response to ethanol; hepatocyte apoptotic process; and positive regulation of cellular response to hypoxia. Located in nucleus. Used to study lung carcinoma and middle cerebral artery infarction. Biomarker of congenital heart disease; hepatocellular carcinoma; and prostatitis. Human ortholog(s) of this gene implicated in Tatton-Brown-Rahman syndrome; hematologic cancer (multiple); and stomach cancer. Orthologous to human DNMT3A (DNA methyltransferase 3 alpha). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 116.0), Brain (RPKM 112.0) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Dnmt3a in Genome Data Viewer
    Location:
    6q14
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (32507316..32621678)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (26791517..26902161)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (28205375..28346052)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene ASXL transcriptional regulator 2 Neighboring gene RNA pseudouridine synthase D4, pseudogene 1 Neighboring gene dystrobrevin, beta Neighboring gene basic transcription factor 3, pseudogene 5 Neighboring gene uncharacterized LOC120103494 Neighboring gene Yip1 domain family, member 4 like 1 Neighboring gene EFR3 homolog B Neighboring gene proopiomelanocortin

    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

    Clone Names

    • MGC109195

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA (cytosine-5-)-methyltransferase activity  
    enables DNA (cytosine-5-)-methyltransferase activity  
    enables DNA (cytosine-5-)-methyltransferase activity PubMed 
    enables DNA (cytosine-5-)-methyltransferase activity, acting on CpN substrates  
    enables DNA (cytosine-5-)-methyltransferase activity, acting on CpNpG substrates  
    enables DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II-specific DNA-binding transcription factor binding  
    enables chromatin binding PubMed 
    enables identical protein binding  
    enables lncRNA binding  
    enables metal ion binding  
    enables protein-cysteine methyltransferase activity  
    enables protein-cysteine methyltransferase activity  
    enables unmethylated CpG binding  
    Items 1 - 25 of 35
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA methylation-dependent constitutive heterochromatin formation  
    involved_in DNA methylation-dependent constitutive heterochromatin formation  
    acts_upstream_of_or_within autosome genomic imprinting  
    involved_in autosome genomic imprinting  
    acts_upstream_of_or_within cellular response to amino acid stimulus  
    acts_upstream_of_or_within cellular response to bisphenol A  
    involved_in cellular response to ethanol PubMed 
    involved_in cellular response to hypoxia PubMed 
    acts_upstream_of_or_within epigenetic programming of gene expression  
    acts_upstream_of_or_within genomic imprinting  
    involved_in genomic imprinting  
    involved_in hepatocyte apoptotic process PubMed 
    acts_upstream_of_or_within heterochromatin formation  
    involved_in methylation  
    involved_in negative regulation of DNA-templated transcription  
    acts_upstream_of_or_within 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 gene expression via chromosomal CpG island methylation PubMed 
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in neuron differentiation PubMed 
    involved_in positive regulation of cellular response to hypoxia PubMed 
    acts_upstream_of_or_within post-embryonic development  
    involved_in regulatory ncRNA-mediated heterochromatin formation  
    involved_in response to cocaine 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 nutrient levels PubMed 
    involved_in response to toxic substance PubMed 
    involved_in response to vitamin A PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    acts_upstream_of_or_within spermatogenesis  
    involved_in transposable element silencing by piRNA-mediated DNA methylation  
    involved_in transposable element silencing by piRNA-mediated DNA methylation  
    Items 1 - 25 of 35
    Component Evidence Code Pubs
    located_in XY body  
    part_of catalytic complex  
    located_in chromosome, centromeric region  
    is_active_in cytoplasm  
    located_in cytoplasm  
    located_in cytoplasm PubMed 
    located_in euchromatin  
    located_in euchromatin PubMed 
    located_in heterochromatin  
    located_in nuclear matrix  
    located_in nuclear matrix PubMed 
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus PubMed 
    located_in nucleus  
    located_in nucleus PubMed 

    General protein information

    Preferred Names
    DNA (cytosine-5)-methyltransferase 3A
    Names
    DNA (cytosine-5-)-methyltransferase 3 alpha
    DNA methyltransferase 3A
    cysteine methyltransferase DNMT3A
    NP_001003957.1
    NP_001003958.1
    XP_017449756.1
    XP_017449757.1
    XP_038968589.1
    XP_038968590.1
    XP_038968591.1
    XP_038968592.1
    XP_038968594.1
    XP_038968595.1
    XP_038968596.1
    XP_063118331.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001003957.1NP_001003957.1  DNA (cytosine-5)-methyltransferase 3A isoform 2

      See identical proteins and their annotated locations for NP_001003957.1

      Status: PROVISIONAL

      Source sequence(s)
      BN000396
      UniProtKB/Swiss-Prot
      Q1LZ53
      Conserved Domains (3) summary
      cd05835
      Location:67153
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      cd11729
      Location:264391
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:409572
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    2. NM_001003958.1NP_001003958.1  DNA (cytosine-5)-methyltransferase 3A isoform 1

      See identical proteins and their annotated locations for NP_001003958.1

      Status: PROVISIONAL

      Source sequence(s)
      BN000395
      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...

    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_086024.1 Reference GRCr8

      Range
      32507316..32621678
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017594268.3XP_017449757.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    2. XM_017594267.3XP_017449756.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    3. XM_039112664.1XP_038968592.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Related
      ENSRNOP00000046524.2, ENSRNOT00000047210.5
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    4. XM_039112661.2XP_038968589.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    5. XM_039112666.2XP_038968594.1  DNA (cytosine-5)-methyltransferase 3A isoform X2

      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    6. XM_039112663.2XP_038968591.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    7. XM_039112662.2XP_038968590.1  DNA (cytosine-5)-methyltransferase 3A isoform X1

      UniProtKB/Swiss-Prot
      Q1LZ52, Q1LZ53
      Conserved Domains (4) summary
      cd05835
      Location:286372
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      PTZ00449
      Location:1121
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11729
      Location:483610
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:628791
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    8. XM_063262261.1XP_063118331.1  DNA (cytosine-5)-methyltransferase 3A isoform X4

    9. XM_039112667.2XP_038968595.1  DNA (cytosine-5)-methyltransferase 3A isoform X3

      UniProtKB/TrEMBL
      A6HAG2
      Conserved Domains (3) summary
      cd05835
      Location:106192
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      cd11729
      Location:303430
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:448611
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
    10. XM_039112668.2XP_038968596.1  DNA (cytosine-5)-methyltransferase 3A isoform X5

      Conserved Domains (3) summary
      cd05835
      Location:67153
      Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...
      cd11729
      Location:264391
      ADDz_Dnmt3a; ADDz domain found in DNA (cytosine-5) methyltransferases (C5-MTases) 3a (Dnmt3a)
      cl30459
      Location:409572
      Cyt_C5_DNA_methylase; Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group ...
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