U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    TRDMT1 tRNA aspartic acid methyltransferase 1 [ Homo sapiens (human) ]

    Gene ID: 1787, updated on 2-May-2024

    Summary

    Official Symbol
    TRDMT1provided by HGNC
    Official Full Name
    tRNA aspartic acid methyltransferase 1provided by HGNC
    Primary source
    HGNC:HGNC:2977
    See related
    Ensembl:ENSG00000107614 MIM:602478; AllianceGenome:HGNC:2977
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    DMNT2; DNMT2; PUMET; RNMT1; MHSAIIP
    Summary
    This gene encodes a protein responsible for the methylation of aspartic acid transfer RNA, specifically at the cytosine-38 residue in the anticodon loop. This enzyme also possesses residual DNA-(cytosine-C5) methyltransferase activity. While similar in sequence and structure to DNA cytosine methyltransferases, this gene is distinct and highly conserved in its function among taxa. [provided by RefSeq, Jun 2010]
    Expression
    Ubiquitous expression in thyroid (RPKM 1.0), endometrium (RPKM 0.6) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See TRDMT1 in Genome Data Viewer
    Location:
    10p13
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (17137336..17201672, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (17155855..17220211, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (17179335..17243671, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3105 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3106 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3107 Neighboring gene uncharacterized LOC105376435 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:16864864-16865015 Neighboring gene MPRA-validated peak881 silencer Neighboring gene MPRA-validated peak882 silencer Neighboring gene MED14-independent group 3 enhancer GRCh37_chr10:16933270-16934469 Neighboring gene cubilin Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:16942960-16943677 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:16970960-16971553 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:17010389-17010952 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:17026880-17027039 Neighboring gene GATA motif-containing MPRA enhancer 283 Neighboring gene Sharpr-MPRA regulatory region 1431 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr10:17104252-17105451 Neighboring gene MPRA-validated peak883 silencer Neighboring gene MPRA-validated peak884 silencer Neighboring gene MED14-independent group 3 enhancer GRCh37_chr10:17157167-17158366 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2181 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:17268719-17268933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3108 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2182 Neighboring gene Sharpr-MPRA regulatory region 14556 Neighboring gene VIM antisense RNA 1 Neighboring gene vimentin Neighboring gene MPRA-validated peak886 silencer Neighboring gene ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6 Neighboring gene ST8SIA6 antisense RNA 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Common genetic loci influencing plasma homocysteine concentrations and their effect on risk of coronary artery disease.
    EBI GWAS Catalog
    Genome wide association and linkage analyses identified three loci-4q25, 17q23.2, and 10q11.21-associated with variation in leukocyte telomere length: the Long Life Family Study.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables tRNA (cytidine-5-)-methyltransferase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables tRNA (cytidine-5-)-methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables tRNA (cytidine-5-)-methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables tRNA methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in response to amphetamine IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within tRNA methylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in tRNA modification IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in tRNA modification TAS
    Traceable Author Statement
    more info
     
    involved_in tRNA stabilization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    tRNA (cytosine(38)-C(5))-methyltransferase
    Names
    DNA (cytosine-5)-methyltransferase-like protein 2
    DNA MTase homolog HsaIIP
    DNA cytosine-5 methyltransferase 2
    DNA methyltransferase-2
    tRNA (cytosine-5-)-methyltransferase
    NP_001307935.1
    NP_001307936.1
    NP_001338148.1
    NP_001338149.1
    NP_001338150.1
    NP_001338151.1
    NP_001338152.1
    NP_004403.1
    XP_005252431.1
    XP_016871290.1
    XP_024303623.1
    XP_047280649.1
    XP_047280650.1
    XP_047280651.1
    XP_047280652.1
    XP_047280653.1
    XP_047280654.1
    XP_054220922.1
    XP_054220923.1
    XP_054220924.1
    XP_054220925.1
    XP_054220926.1
    XP_054220927.1
    XP_054220928.1
    XP_054220929.1
    XP_054220930.1

    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_001321006.2NP_001307935.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform f

      Status: REVIEWED

      Source sequence(s)
      AC067747, AJ223333, AK299027, AW136056
      UniProtKB/TrEMBL
      B4DQZ2
      Conserved Domains (1) summary
      cl17173
      Location:25310
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    2. NM_001321007.2NP_001307936.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform g

      Status: REVIEWED

      Source sequence(s)
      AC067747, AJ223333, AK299027, AL133415, AW136056, BX537961
      UniProtKB/TrEMBL
      B7Z1Y7
      Conserved Domains (1) summary
      cl17173
      Location:1320
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    3. NM_001351219.2NP_001338148.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform h

      Status: REVIEWED

      Source sequence(s)
      AC067747, AF329941, AJ223333, AW136056, HY167774
      UniProtKB/TrEMBL
      A0A0U1U562
      Conserved Domains (1) summary
      cd00315
      Location:4384
      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. NM_001351220.2NP_001338149.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform i

      Status: REVIEWED

      Source sequence(s)
      AA399591, AC067747, AJ223333, AK294100, BF435781, BX117729, CN304214
      UniProtKB/TrEMBL
      A0A0U1U562
      Conserved Domains (1) summary
      cl17173
      Location:4359
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    5. NM_001351221.2NP_001338150.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform j

      Status: REVIEWED

      Source sequence(s)
      AC067747, AF329941, AJ223333, AW136056
      UniProtKB/TrEMBL
      A0A0U1U562
      Conserved Domains (1) summary
      cl17173
      Location:4338
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    6. NM_001351222.2NP_001338151.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform k

      Status: REVIEWED

      Source sequence(s)
      AC067747, AJ223333, AK294100, BF435781, BX494949, CN304214, DC416110
      UniProtKB/TrEMBL
      B7Z1Y7
      Conserved Domains (1) summary
      cl17173
      Location:1281
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    7. NM_001351223.2NP_001338152.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform k

      Status: REVIEWED

      Source sequence(s)
      AC067747, AJ223333, AK294100, BF435781, CN304214, DC416110
      UniProtKB/TrEMBL
      B7Z1Y7
      Conserved Domains (1) summary
      cl17173
      Location:1281
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    8. NM_004412.7NP_004403.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform a

      See identical proteins and their annotated locations for NP_004403.1

      Status: REVIEWED

      Source sequence(s)
      AC067747, AJ223333, AW136056
      Consensus CDS
      CCDS7114.1
      UniProtKB/Swiss-Prot
      B0YJ02, B0YJ03, B0YJ07, B0YJ08, O14717, O43669, Q86WW6
      UniProtKB/TrEMBL
      A0A0U1U562, Q6ICS7
      Related
      ENSP00000367030.3, ENST00000377799.8
      Conserved Domains (1) summary
      cd00315
      Location:4391
      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_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      17137336..17201672 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047424697.1XP_047280653.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X8

    2. XM_047424695.1XP_047280651.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X5

    3. XM_005252374.5XP_005252431.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X2

      UniProtKB/TrEMBL
      A0A0U1U562
      Conserved Domains (1) summary
      cl17173
      Location:4359
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    4. XM_047424696.1XP_047280652.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X7

    5. XM_017015801.2XP_016871290.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X6

      UniProtKB/TrEMBL
      A0A0U1U562
    6. XM_047424694.1XP_047280650.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X4

    7. XM_047424693.1XP_047280649.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X3

    8. XM_024447855.2XP_024303623.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X1

      UniProtKB/TrEMBL
      A0A0U1U562
      Conserved Domains (1) summary
      cl17173
      Location:4352
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    9. XM_047424698.1XP_047280654.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      17155855..17220211 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054364954.1XP_054220929.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X8

    2. XM_054364951.1XP_054220926.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X5

    3. XM_054364948.1XP_054220923.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X2

    4. XM_054364953.1XP_054220928.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X7

    5. XM_054364952.1XP_054220927.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X6

    6. XM_054364950.1XP_054220925.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X4

    7. XM_054364949.1XP_054220924.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X3

    8. XM_054364947.1XP_054220922.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X1

    9. XM_054364955.1XP_054220930.1  tRNA (cytosine(38)-C(5))-methyltransferase isoform X9

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_176081.2: Suppressed sequence

      Description
      NM_176081.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    2. NM_176083.2: Suppressed sequence

      Description
      NM_176083.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    3. NM_176084.1: Suppressed sequence

      Description
      NM_176084.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    4. NM_176085.1: Suppressed sequence

      Description
      NM_176085.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    5. NM_176086.1: Suppressed sequence

      Description
      NM_176086.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.