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Aliases for TRMT2A Gene

Aliases for TRMT2A Gene

  • TRNA Methyltransferase 2 Homolog A 2 3 5
  • HpaII Tiny Fragments Locus 9c Protein 3 4
  • HTF9C 3 4
  • TRNA Methyltransferase 2 Homolog A (S. Cerevisiae) 2
  • TRM2 TRNA Methyltransferase 2 Homolog A 3
  • HpaII Tiny Fragments Locus 9C 2
  • EC 2.1.1.- 4

External Ids for TRMT2A Gene

Previous GeneCards Identifiers for TRMT2A Gene

  • GC22M018479
  • GC22M003720

Summaries for TRMT2A Gene

Entrez Gene Summary for TRMT2A Gene

  • The protein encoded by this gene is of unknown function. However, it is orthologous to the mouse Trmt2a gene and contains an RNA methyltransferase domain. Expression of this gene varies during the cell cycle, with aberrant expression being a possible biomarker in certain breast cancers. Several transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Apr 2012]

GeneCards Summary for TRMT2A Gene

TRMT2A (TRNA Methyltransferase 2 Homolog A) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is TRMT2B.

UniProtKB/Swiss-Prot for TRMT2A Gene

  • May be involved in nucleic acid metabolism and/or modifications.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRMT2A Gene

Genomics for TRMT2A Gene

Regulatory Elements for TRMT2A Gene

Enhancers for TRMT2A Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TRMT2A on UCSC Golden Path with GeneCards custom track

Promoters for TRMT2A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRMT2A on UCSC Golden Path with GeneCards custom track

Genomic Location for TRMT2A Gene

20,111,866 bp from pter
20,117,392 bp from pter
5,527 bases
Minus strand

Genomic View for TRMT2A Gene

Genes around TRMT2A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRMT2A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRMT2A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRMT2A Gene

Proteins for TRMT2A Gene

  • Protein details for TRMT2A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    tRNA (uracil-5-)-methyltransferase homolog A
    Protein Accession:
    Secondary Accessions:
    • D3DX25
    • Q32P57
    • Q96ME6
    • Q9H732

    Protein attributes for TRMT2A Gene

    625 amino acids
    Molecular mass:
    68726 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TRMT2A Gene


neXtProt entry for TRMT2A Gene

Proteomics data for TRMT2A Gene at MOPED

Post-translational modifications for TRMT2A Gene

  • Ubiquitination at Lys 187, Lys 242, Lys 290, Lys 314, and Lys 346
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRMT2A Gene

Domains & Families for TRMT2A Gene

Suggested Antigen Peptide Sequences for TRMT2A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family.
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family.
genes like me logo Genes that share domains with TRMT2A: view

No data available for Gene Families for TRMT2A Gene

Function for TRMT2A Gene

Molecular function for TRMT2A Gene

UniProtKB/Swiss-Prot Function:
May be involved in nucleic acid metabolism and/or modifications.

Enzyme Numbers (IUBMB) for TRMT2A Gene

Gene Ontology (GO) - Molecular Function for TRMT2A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0008173 RNA methyltransferase activity IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with TRMT2A: view
genes like me logo Genes that share phenotypes with TRMT2A: view

Animal Models for TRMT2A Gene

MGI Knock Outs for TRMT2A:

Animal Model Products

CRISPR Products

miRNA for TRMT2A Gene

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRMT2A Gene

Localization for TRMT2A Gene

Subcellular locations from

Jensen Localization Image for TRMT2A Gene COMPARTMENTS Subcellular localization image for TRMT2A gene
Compartment Confidence
cytosol 3
nucleus 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for TRMT2A Gene

Pathways & Interactions for TRMT2A Gene

SuperPathways for TRMT2A Gene

No Data Available

Interacting Proteins for TRMT2A Gene

Gene Ontology (GO) - Biological Process for TRMT2A Gene


No data available for Pathways by source and SIGNOR curated interactions for TRMT2A Gene

Drugs & Compounds for TRMT2A Gene

No Compound Related Data Available

Transcripts for TRMT2A Gene

Unigene Clusters for TRMT2A Gene

TRNA methyltransferase 2 homolog A (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRMT2A Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b · 2c ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^
SP1: - - - - - - -
SP2: - - - -
SP3: - - - -
SP4: - - -
SP6: - -
SP7: - - - -
SP8: - -
SP9: -
SP12: - - -
SP13: -

ExUns: 13a · 13b ^ 14 ^ 15a · 15b · 15c · 15d · 15e
SP1: - -
SP2: -
SP3: - -
SP11: -

Relevant External Links for TRMT2A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for TRMT2A Gene

mRNA expression in normal human tissues for TRMT2A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRMT2A Gene

This gene is overexpressed in Lung (49.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for TRMT2A Gene

SOURCE GeneReport for Unigene cluster for TRMT2A Gene Hs.713579

genes like me logo Genes that share expression patterns with TRMT2A: view

Protein tissue co-expression partners for TRMT2A Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TRMT2A Gene

Orthologs for TRMT2A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TRMT2A Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia TRMT2A 35
  • 80.91 (n)
  • 81.91 (a)
  • 79 (a)
(Canis familiaris)
Mammalia TRMT2A 35
  • 86.38 (n)
  • 87.58 (a)
  • 85 (a)
(Mus musculus)
Mammalia Trmt2a 35
  • 82.82 (n)
  • 86.43 (a)
Trmt2a 16
Trmt2a 36
  • 83 (a)
(Pan troglodytes)
Mammalia TRMT2A 35
  • 99.36 (n)
  • 99.2 (a)
  • 98 (a)
(Rattus norvegicus)
Mammalia Trmt2a 35
  • 82.4 (n)
  • 85.23 (a)
(Monodelphis domestica)
Mammalia TRMT2A 36
  • 67 (a)
(Gallus gallus)
Aves TRMT2A 35
  • 68.34 (n)
  • 71.8 (a)
  • 65 (a)
(Anolis carolinensis)
Reptilia TRMT2A 36
  • 56 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.15843 35
trmt2a 35
  • 62.46 (n)
  • 63.84 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.8434 35
(Danio rerio)
Actinopterygii trmt2a 35
  • 63.75 (n)
  • 61.57 (a)
wufa10b06 35
trmt2a 36
  • 54 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13964 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012408 35
  • 48.01 (n)
  • 44.4 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG3808 35
  • 49.35 (n)
  • 40.5 (a)
CG3808 36
  • 34 (a)
(Caenorhabditis elegans)
Secernentea H24K24.4 35
  • 44.31 (n)
  • 32.94 (a)
H24K24.4 36
  • 28 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRM2 36
  • 14 (a)
TRM2 38
Species with no ortholog for TRMT2A:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRMT2A Gene

Gene Tree for TRMT2A (if available)
Gene Tree for TRMT2A (if available)

Paralogs for TRMT2A Gene

Paralogs for TRMT2A Gene

(1) SIMAP similar genes for TRMT2A Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with TRMT2A: view

Variants for TRMT2A Gene

Sequence variations from dbSNP and Humsavar for TRMT2A Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs447017 - 20,112,635(+) GGAGG(C/G)CTGTG reference, missense, utr-variant-3-prime
VAR_035482 A breast cancer sample
rs34592023 -- 20,112,814(+) GGGGG(-/G)CGCTA intron-variant, reference, frameshift-variant
rs8142540 -- 20,113,911(+) CCTCC(A/G)GCGCC intron-variant
rs9606254 -- 20,112,886(+) GCCCC(C/T)ACCCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRMT2A Gene

Variant ID Type Subtype PubMed ID
nsv435744 CNV Deletion 17901297
nsv828938 CNV Gain 20364138
nsv828939 CNV Loss 20364138
nsv914327 CNV Loss 21882294
nsv471183 CNV Loss 18288195
nsv834133 CNV Loss 17160897
dgv1387e1 CNV Complex 17122850
dgv726n67 CNV Gain 20364138
dgv4855n71 CNV Loss 21882294
dgv4856n71 CNV Loss 21882294
dgv4857n71 CNV Loss 21882294
dgv4858n71 CNV Loss 21882294
dgv4859n71 CNV Loss 21882294
dgv4860n71 CNV Loss 21882294
nsv914347 CNV Loss 21882294

Variation tolerance for TRMT2A Gene

Residual Variation Intolerance Score: 58.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.00; 49.93% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for TRMT2A Gene

Disorders for TRMT2A Gene

Relevant External Links for TRMT2A

Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for TRMT2A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRMT2A Gene

Publications for TRMT2A Gene

  1. HTF9C gene of 22q11.21 region associates with schizophrenia having deficit-sustained attention. (PMID: 18075473) Liu Y.L. … Hwu H.G. (Psychiatr. Genet. 2007) 2 3 23 67
  2. Interactions with single-stranded and double-stranded DNA-binding factors and alternative promoter conformation upon transcriptional activation of the Htf9-a/RanBP1 and Htf9-c genes. (PMID: 9417108) Di Matteo G. … Lavia P. (J. Biol. Chem. 1998) 2 3
  3. Proteomic analysis and identification of cellular interactors of the giant ubiquitin ligase HERC2. (PMID: 25476789) Galligan J.T. … Howley P.M. (J. Proteome Res. 2015) 3
  4. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. (PMID: 25609649) Li X. … Chen J. (Mol. Syst. Biol. 2015) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3

Products for TRMT2A Gene

Sources for TRMT2A Gene