Human Gene TRDMT1 (ENST00000377799.8_7) from GENCODE V47lift37

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Description: tRNA aspartic acid methyltransferase 1, transcript variant a (from RefSeq NM_004412.7)
Gencode Transcript: ENST00000377799.8_7
Gencode Gene: ENSG00000107614.22_9
Transcript (Including UTRs)
Position: hg19 chr10:17,179,335-17,243,671 Size: 64,337 Total Exon Count: 11 Strand: -
Coding Region
Position: hg19 chr10:17,191,039-17,243,633 Size: 52,595 Coding Exon Count: 11

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr10:17,179,335-17,243,671)			mRNA (may differ from genome)		Protein (391 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	UniProtKB	Wikipedia
BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: Q6ICS7_HUMAN DESCRIPTION: SubName: Full=DNMT2 protein; SubName: Full=HCG23994, isoform CRA_a; SubName: Full=cDNA FLJ76302, highly similar to Homo sapiens DNA (cytosine-5-)-methyltransferase 2 (DNMT2), transcript variant a, mRNA; SubName: Full=tRNA aspartic acid methyltransferase 1 variant 3; SubName: Full=tRNA aspartic acid methyltransferase 1 variant 4; Flags: Fragment; SIMILARITY: Belongs to the C5-methyltransferase family.

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D001564 Benzo(a)pyrene D000082 Acetaminophen D002794 Choline D003993 Dibutyl Phthalate D004147 Dioxins D005492 Folic Acid D008715 Methionine D013749 Tetrachlorodibenzodioxin D015215 Zidovudine C006780 bisphenol A more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 1.87 RPKM in Brain - Cerebellum Total median expression: 36.52 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-15.70	38	-0.413	Picture	PostScript	Text
3' UTR	-3428.30	11704	-0.293	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR018117 - C5_DNA_meth_AS
IPR001525 - C5_MeTfrase
IPR025813 - tRNA_MeTrfase_TRDMT1

Pfam Domains:
PF00145 - C-5 cytosine-specific DNA methylase

SCOP Domains:
53335 - S-adenosyl-L-methionine-dependent methyltransferases

ModBase Predicted Comparative 3D Structure on Q6ICS7


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details		Gene Details
Gene Sorter	Gene Sorter		Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0008168 methyltransferase activity GO:0008175 tRNA methyltransferase activity GO:0016740 transferase activity Biological Process: GO:0001975 response to amphetamine GO:0030488 tRNA methylation GO:0032259 methylation

Descriptions from all associated GenBank mRNAs


	JD064115 - Sequence 45139 from Patent EP1572962. JD242647 - Sequence 223671 from Patent EP1572962. JD518012 - Sequence 499036 from Patent EP1572962. JD366723 - Sequence 347747 from Patent EP1572962. JD447149 - Sequence 428173 from Patent EP1572962. JD283395 - Sequence 264419 from Patent EP1572962. JD100939 - Sequence 81963 from Patent EP1572962. JD497913 - Sequence 478937 from Patent EP1572962. AK021659 - Homo sapiens cDNA FLJ11597 fis, clone HEMBA1003856. BX537961 - Homo sapiens mRNA; cDNA DKFZp686N1286 (from clone DKFZp686N1286); complete cds. JD072308 - Sequence 53332 from Patent EP1572962. JD345644 - Sequence 326668 from Patent EP1572962. JD345645 - Sequence 326669 from Patent EP1572962. JD266206 - Sequence 247230 from Patent EP1572962. AJ223333 - Homo sapiens mRNA for putative DNA methyltransferase, complete CDS. JD273361 - Sequence 254385 from Patent EP1572962. JD566556 - Sequence 547580 from Patent EP1572962. JD541089 - Sequence 522113 from Patent EP1572962. JD068321 - Sequence 49345 from Patent EP1572962. JD379202 - Sequence 360226 from Patent EP1572962. JD315122 - Sequence 296146 from Patent EP1572962. JD298818 - Sequence 279842 from Patent EP1572962. JD058681 - Sequence 39705 from Patent EP1572962. JD562806 - Sequence 543830 from Patent EP1572962. JD281099 - Sequence 262123 from Patent EP1572962. JD315949 - Sequence 296973 from Patent EP1572962. JD053112 - Sequence 34136 from Patent EP1572962. JD109712 - Sequence 90736 from Patent EP1572962. JD303260 - Sequence 284284 from Patent EP1572962. AF045888 - Homo sapiens putative DNA cytosine methyltransferase DNMT2 (DNMT2) mRNA, complete cds. AF012128 - Homo sapiens putative DNA methyltransferase (DNMT2) mRNA, complete cds. AK291417 - Homo sapiens cDNA FLJ76302 complete cds, highly similar to Homo sapiens DNA (cytosine-5-)-methyltransferase 2 (DNMT2), transcript variant a, mRNA. BC047733 - Homo sapiens tRNA aspartic acid methyltransferase 1, mRNA (cDNA clone MGC:54074 IMAGE:6473993), complete cds. AK299027 - Homo sapiens cDNA FLJ50621 complete cds, highly similar to DNA (cytosine-5)-methyltransferase-like protein 2. JD350080 - Sequence 331104 from Patent EP1572962. HQ637546 - Homo sapiens DNA cytosine-5 methyltransferase 2 isoform D (Dnmt2) mRNA, complete cds, alternatively spliced. HQ637547 - Homo sapiens DNA cytosine-5 methyltransferase 2 isoform E (Dnmt2) mRNA, complete cds, alternatively spliced. HQ637548 - Homo sapiens DNA cytosine-5 methyltransferase 2 isoform F (Dnmt2) mRNA, complete cds, alternatively spliced. HQ637549 - Homo sapiens DNA cytosine-5 methyltransferase 2 isoform G (Dnmt2) mRNA, complete cds, alternatively spliced. KJ896720 - Synthetic construct Homo sapiens clone ccsbBroadEn_06114 TRDMT1 gene, encodes complete protein. CR450316 - Homo sapiens full open reading frame cDNA clone RZPDo834F111D for gene DNMT2, DNA (cytosine-5-)-methyltransferase 2; complete cds; without stopcodon. AK294100 - Homo sapiens cDNA FLJ50466 complete cds, highly similar to DNA (cytosine-5)-methyltransferase-like protein 2. AK303428 - Homo sapiens cDNA FLJ52038 complete cds, highly similar to DNA (cytosine-5)-methyltransferase-like protein 2. JD348835 - Sequence 329859 from Patent EP1572962. JD096301 - Sequence 77325 from Patent EP1572962. JD248246 - Sequence 229270 from Patent EP1572962. AF329940 - Homo sapiens DNA methyltransferase 2b mRNA, partial cds. AF329941 - Homo sapiens DNA methyltransferase 2c mRNA, partial cds. AF329942 - Homo sapiens DNA methyltransferase 2d mRNA, partial cds. AF329943 - Homo sapiens DNA methyltransferase 2e mRNA, partial cds. AF329944 - Homo sapiens DNA methyltransferase 2f mRNA, partial cds.

Other Names for This Gene


	Alternate Gene Symbols: DNMT2 , ENST00000377799.1, ENST00000377799.2, ENST00000377799.3, ENST00000377799.4, ENST00000377799.5, ENST00000377799.6, ENST00000377799.7, hCG_23994 , NM_004412, Q6ICS7, Q6ICS7_HUMAN, TRDMT1 , uc318nvw.1, uc318nvw.2 UCSC ID: ENST00000377799.8_7 RefSeq Accession: NM_004412.7 Protein: Q6ICS7

Gene Model Information


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Methods, Credits, and Use Restrictions


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