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

Gene ID: 1787, updated on 7-Aug-2022

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
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Genomic context

See TRDMT1 in Genome Data Viewer
Location:
10p13
Exon count:
13
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (17137336..17201672, complement)
110 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 cubilin Neighboring gene GATA motif-containing MPRA enhancer 283 Neighboring gene Sharpr-MPRA regulatory region 1431 Neighboring gene Sharpr-MPRA regulatory region 14556 Neighboring gene VIM antisense RNA 1 Neighboring gene vimentin

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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables tRNA (cytosine-5-)-methyltransferase activity EXP
Inferred from Experiment
more info
PubMed 
enables tRNA (cytosine-5-)-methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables tRNA (cytosine-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
 
involved_in tRNA C5-cytosine methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within tRNA methylation 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
PubMed 

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

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

    Status: REVIEWED

    Source sequence(s)
    AC067747, AJ223333, AK299027, AW136056
    UniProtKB/Swiss-Prot
    O14717
    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/Swiss-Prot
    O14717
    UniProtKB/TrEMBL
    B4DQZ2, Q7Z3E4
    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
    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
    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
    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
    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
    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
    O14717, Q86WW6
    UniProtKB/TrEMBL
    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: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

    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

  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

    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)

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.