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Aliases for TRDMT1 Gene

Aliases for TRDMT1 Gene

  • TRNA Aspartic Acid Methyltransferase 1 2 3 5
  • DNA (Cytosine-5)-Methyltransferase-Like Protein 2 3 4
  • TRNA (Cytosine(38)-C(5))-Methyltransferase 2 3
  • DNA MTase Homolog HsaIIP 3 4
  • PUMET 3 4
  • DNMT2 3 4
  • DNA (Cytosine-5-)-Methyltransferase 2 2
  • TRNA (Cytosine-5-)-Methyltransferase 3
  • DNA Methyltransferase Homolog HsaIIP 4
  • DNA Cytosine-5 Methyltransferase 2 3
  • DNA Methyltransferase-2 3
  • EC 2.1.1.204 4
  • EC 2.1.1.29 56
  • M.HsaIIP 4
  • EC 2.1.1 56
  • MHSAIIP 3
  • DMNT2 3
  • RNMT1 3

External Ids for TRDMT1 Gene

Previous HGNC Symbols for TRDMT1 Gene

  • DNMT2

Previous GeneCards Identifiers for TRDMT1 Gene

  • GC10M017225

Summaries for TRDMT1 Gene

Entrez Gene Summary for TRDMT1 Gene

  • 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]

GeneCards Summary for TRDMT1 Gene

TRDMT1 (TRNA Aspartic Acid Methyltransferase 1) is a Protein Coding gene. Among its related pathways are Gene Expression and tRNA processing. Gene Ontology (GO) annotations related to this gene include RNA binding and DNA (cytosine-5-)-methyltransferase activity.

UniProtKB/Swiss-Prot for TRDMT1 Gene

  • Specifically methylates cytosine 38 in the anticodon loop of tRNA(Asp).

Tocris Summary for TRDMT1 Gene

  • Protein arginine methyltransferases are enyzmes that catalyze the transfer of methyl groups from S-adenosylmethionine (SAM) to the arginine residues on histones and other proteins. The dysregulation of this methylation is critical in the development of certain cancers.

Gene Wiki entry for TRDMT1 Gene

Additional gene information for TRDMT1 Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRDMT1 Gene

Genomics for TRDMT1 Gene

GeneHancer (GH) Regulatory Elements for TRDMT1 Gene

Promoters and enhancers for TRDMT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10I017198 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 581.1 +1.5 1489 4.5 MLX ZFP64 FEZF1 DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 TRDMT1 LOC105376438 CUBN VIM-AS1 GC10P017139
GH10I017203 Enhancer 1 ENCODE dbSUPER 570.8 -1.5 -1546 0.2 HDAC1 ARNT TCF12 GATA2 CREM ZBTB2 NCOA1 REST ZEB2 ZNF592 TRDMT1 VIM
GH10I017226 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 21 -29.5 -29466 10.6 FEZF1 IRF4 ZNF213 E2F8 ZNF143 SP3 ZFP41 MEF2D ZNF610 ZNF585B VIM-AS1 VIM LOC105376438 TRDMT1 ENSG00000273153 ENSG00000234961
GH10I017205 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 22.4 -4.5 -4460 2.4 ZNF217 JUND POLR2A FOSL2 FOS TRDMT1 VIM ENSG00000234961 CUBN VIM-AS1
GH10I017237 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 12.3 -36.6 -36633 1.9 NCOA3 PKNOX1 MZF1 ZNF121 POLR2B GATA3 ZNF213 E2F8 POLR2A ADNP GC10P017237 VIM-AS1 TRDMT1 VIM ST8SIA6-AS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRDMT1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRDMT1 gene promoter:

Genomic Locations for TRDMT1 Gene

Genomic Locations for TRDMT1 Gene
chr10:17,137,802-17,202,071
(GRCh38/hg38)
Size:
64,270 bases
Orientation:
Minus strand
chr10:17,184,253-17,244,070
(GRCh37/hg19)

Genomic View for TRDMT1 Gene

Genes around TRDMT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRDMT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRDMT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRDMT1 Gene

Proteins for TRDMT1 Gene

  • Protein details for TRDMT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14717-TRDMT_HUMAN
    Recommended name:
    tRNA (cytosine(38)-C(5))-methyltransferase
    Protein Accession:
    O14717
    Secondary Accessions:
    • B0YJ02
    • B0YJ03
    • B0YJ07
    • B0YJ08
    • O43669
    • Q86WW6

    Protein attributes for TRDMT1 Gene

    Size:
    391 amino acids
    Molecular mass:
    44597 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for TRDMT1 Gene

    Alternative splice isoforms for TRDMT1 Gene

neXtProt entry for TRDMT1 Gene

Selected DME Specific Peptides for TRDMT1 Gene

O14717:
  • QQDSDLSV
  • LMSPPCQPFTR
  • MILMSPPCQPFTRIG

Post-translational modifications for TRDMT1 Gene

No Post-translational modifications

Domains & Families for TRDMT1 Gene

Gene Families for TRDMT1 Gene

Protein Domains for TRDMT1 Gene

Graphical View of Domain Structure for InterPro Entry

O14717

UniProtKB/Swiss-Prot:

TRDMT_HUMAN :
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.
Family:
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.
genes like me logo Genes that share domains with TRDMT1: view

Function for TRDMT1 Gene

Molecular function for TRDMT1 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + cytosine(38) in tRNA = S-adenosyl-L-homocysteine + 5-methylcytosine(38) in tRNA.
UniProtKB/Swiss-Prot Function:
Specifically methylates cytosine 38 in the anticodon loop of tRNA(Asp).

Enzyme Numbers (IUBMB) for TRDMT1 Gene

Phenotypes From GWAS Catalog for TRDMT1 Gene

Gene Ontology (GO) - Molecular Function for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0008168 methyltransferase activity IEA --
GO:0008175 tRNA methyltransferase activity IDA 16424344
GO:0016428 tRNA (cytosine-5-)-methyltransferase activity EXP 16424344
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with TRDMT1: view
genes like me logo Genes that share phenotypes with TRDMT1: view

Animal Models for TRDMT1 Gene

MGI Knock Outs for TRDMT1:

Animal Model Products

CRISPR Products

miRNA for TRDMT1 Gene

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRDMT1 Gene

Localization for TRDMT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRDMT1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRDMT1 gene
Compartment Confidence
nucleus 5
cytoskeleton 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Centrosome (2)
  • Nucleoli (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA 16424344
genes like me logo Genes that share ontologies with TRDMT1: view

Pathways & Interactions for TRDMT1 Gene

genes like me logo Genes that share pathways with TRDMT1: view

Pathways by source for TRDMT1 Gene

Gene Ontology (GO) - Biological Process for TRDMT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001975 response to amphetamine IEA --
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0030488 tRNA methylation IDA 16424344
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with TRDMT1: view

No data available for SIGNOR curated interactions for TRDMT1 Gene

Drugs & Compounds for TRDMT1 Gene

(5) Drugs for TRDMT1 Gene - From: DrugBank, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Glycerol Approved, Investigational Pharma Target 175
Pentamidine Approved, Investigational Pharma Target, other 43
s-adenosylhomocysteine Experimental Pharma Target 0
TC-E 5003 Pharma PRMT1 inhibitor, potent, Selective PRMT1 inhibitor 0

(7) Additional Compounds for TRDMT1 Gene - From: Novoseek, HMDB, and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
5-methylcytosine
  • 4-Amino-5-methyl-2-(1H)-Pyrimidinone
  • 4-Amino-5-methyl-2-pyrimidinol
  • 5-Methyl-Cytosine
  • 5-Methylcytosine
  • 5-Methylcytosine>96
554-01-8
s-adenosylmethionine
  • (3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine
  • 2-S-Adenosyl-L-methionine
  • 5'-Deoxyadenosine-5'-L-methionine disulfate ditosylate
  • 5'-Deoxyadenosine-5'-L-methionine disulphate ditosylate
  • Active methionine
29908-03-0
Furamidine dihydrochloride
55368-40-6
SGC 707

(5) Tocris Compounds for TRDMT1 Gene

Compound Action Cas Number
C 21 Selective PRMT1 inhibitor 1229236-78-5
Furamidine dihydrochloride Selective PRMT1 inhibitor 55368-40-6
SGC 707 Potent and selective allosteric inhibitor of PRMT3
TC-E 5003 Selective PRMT1 inhibitor 17328-16-4
UNC 2327 Allosteric inhibitor of PRMT3 1426152-53-5
genes like me logo Genes that share compounds with TRDMT1: view

Transcripts for TRDMT1 Gene

Unigene Clusters for TRDMT1 Gene

TRNA aspartic acid methyltransferase 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRDMT1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b
SP1: - -
SP2: - - -
SP3:
SP4:

Relevant External Links for TRDMT1 Gene

GeneLoc Exon Structure for
TRDMT1
ECgene alternative splicing isoforms for
TRDMT1

Expression for TRDMT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRDMT1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRDMT1 Gene

This gene is overexpressed in Saliva (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRDMT1 Gene



Protein tissue co-expression partners for TRDMT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRDMT1 Gene:

TRDMT1

SOURCE GeneReport for Unigene cluster for TRDMT1 Gene:

Hs.351665

mRNA Expression by UniProt/SwissProt for TRDMT1 Gene:

O14717-TRDMT_HUMAN
Tissue specificity: Ubiquitous. Higher expression in testis, ovary and thymus and at much lower levels in spleen, prostate, colon, small intestine, and peripheral blood leukocytes.

Evidence on tissue expression from TISSUES for TRDMT1 Gene

  • Blood(4)
  • Heart(4)
genes like me logo Genes that share expression patterns with TRDMT1: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRDMT1 Gene

Orthologs for TRDMT1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRDMT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRDMT1 33 34
  • 99.49 (n)
dog
(Canis familiaris)
Mammalia TRDMT1 33 34
  • 90.03 (n)
cow
(Bos Taurus)
Mammalia TRDMT1 33 34
  • 89.12 (n)
mouse
(Mus musculus)
Mammalia Trdmt1 33 16 34
  • 83.25 (n)
rat
(Rattus norvegicus)
Mammalia Trdmt1 33
  • 80.77 (n)
oppossum
(Monodelphis domestica)
Mammalia TRDMT1 34
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRDMT1 34
  • 53 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRDMT1 33 34
  • 72.92 (n)
lizard
(Anolis carolinensis)
Reptilia TRDMT1 34
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trdmt1 33
  • 66.32 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC53207 33
zebrafish
(Danio rerio)
Actinopterygii trdmt1 33 34
  • 61.74 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012836 33
  • 51.14 (n)
fruit fly
(Drosophila melanogaster)
Insecta Mt2 33 34
  • 50.2 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons DNMT2 33
  • 48.65 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes pmt1 33
  • 52.1 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 45 (a)
OneToOne
Species where no ortholog for TRDMT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TRDMT1 Gene

ENSEMBL:
Gene Tree for TRDMT1 (if available)
TreeFam:
Gene Tree for TRDMT1 (if available)

Paralogs for TRDMT1 Gene

(2) SIMAP similar genes for TRDMT1 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with TRDMT1: view

No data available for Paralogs for TRDMT1 Gene

Variants for TRDMT1 Gene

Sequence variations from dbSNP and Humsavar for TRDMT1 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000058417 -- 17,195,628(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000073296 -- 17,169,005(-) A/G intron_variant
rs1000126837 -- 17,189,901(-) C/G genic_upstream_transcript_variant, intron_variant
rs1000136523 -- 17,150,095(-) C/T genic_downstream_transcript_variant, intron_variant
rs1000204890 -- 17,184,915(-) A/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TRDMT1 Gene

Variant ID Type Subtype PubMed ID
nsv831801 CNV gain 17160897
nsv508571 CNV deletion 20534489
nsv1045115 CNV gain 25217958
nsv1039697 CNV loss 25217958
esv2733606 CNV deletion 23290073

Variation tolerance for TRDMT1 Gene

Residual Variation Intolerance Score: 60.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.25; 40.49% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRDMT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRDMT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRDMT1 Gene

Disorders for TRDMT1 Gene

Additional Disease Information for TRDMT1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for TRDMT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRDMT1 Gene

Publications for TRDMT1 Gene

  1. Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2. (PMID: 16424344) Goll MG … Bestor TH (Science (New York, N.Y.) 2006) 2 3 4 22 58
  2. A candidate mammalian DNA methyltransferase related to pmt1p of fission yeast. (PMID: 9425235) Yoder JA … Bestor TH (Human molecular genetics 1998) 2 3 4 22 58
  3. A systematic search for DNA methyltransferase polymorphisms reveals a rare DNMT3L variant associated with subtelomeric hypomethylation. (PMID: 19246518) El-Maarri O … Chédin F (Human molecular genetics 2009) 3 22 44 58
  4. Cloning and analysis of a novel human putative DNA methyltransferase. (PMID: 9599025) Van den Wyngaert I … Luyten WH (FEBS letters 1998) 3 4 22 58
  5. Investigation of genetic susceptibility factors for human longevity - a targeted nonsynonymous SNP study. (PMID: 20800603) Flachsbart F … Nebel A (Mutation research 2010) 3 44 58

Products for TRDMT1 Gene

Sources for TRDMT1 Gene

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