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Aliases for TRMT2B Gene

Aliases for TRMT2B Gene

  • TRNA Methyltransferase 2 Homolog B (S. Cerevisiae) 2 3
  • TRM2 Homolog 3 4
  • EC 2.1.1.35 4 63
  • CXorf34 3 4
  • TRNA (Uracil(54)-C(5))-Methyltransferase Homolog 3
  • TRNA (Uracil-5-)-Methyltransferase Homolog 3
  • TRM2 TRNA Methyltransferase 2 Homolog B 3
  • Chromosome X Open Reading Frame 34 2
  • DJ341D10.3 3

External Ids for TRMT2B Gene

Previous HGNC Symbols for TRMT2B Gene

  • CXorf34

Previous GeneCards Identifiers for TRMT2B Gene

  • GC0XM100150
  • GC0XM100264
  • GC0XM090068

Summaries for TRMT2B Gene

Entrez Gene Summary for TRMT2B Gene

  • This gene encodes a homolog of the TRM2 gene in S. cerevisiae. The yeast gene encodes a tRNA methyltransferase that plays a role in tRNA maturation. The yeast protein also has endo-exonuclease activity and may be involved in DNA double strand break repair. Alternative splicing results in multiple transcripts encoding different isoforms. [provided by RefSeq, Nov 2009]

GeneCards Summary for TRMT2B Gene

TRMT2B (TRNA Methyltransferase 2 Homolog B (S. Cerevisiae)) is a Protein Coding gene. GO annotations related to this gene include S-adenosylmethionine-dependent tRNA (m5U54) methyltransferase activity. An important paralog of this gene is TRMT2A.

UniProtKB/Swiss-Prot for TRMT2B Gene

  • Probable S-adenosyl-L-methionine-dependent methyltransferase that catalyzes the formation of 5-methyl-uridine at position 54 (m5U54) in all tRNA. May also have a role in tRNA stabilization or maturation (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRMT2B Gene

Genomics for TRMT2B Gene

Regulatory Elements for TRMT2B Gene

Genomic Location for TRMT2B Gene

Start:
101,009,345 bp from pter
End:
101,052,116 bp from pter
Size:
42,772 bases
Orientation:
Minus strand

Genomic View for TRMT2B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TRMT2B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRMT2B Gene

Proteins for TRMT2B Gene

  • Protein details for TRMT2B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96GJ1-TRM2_HUMAN
    Recommended name:
    tRNA (uracil(54)-C(5))-methyltransferase homolog
    Protein Accession:
    Q96GJ1
    Secondary Accessions:
    • A6NDG5
    • A6NEI9
    • A6NMG6
    • Q5JPF0
    • Q5JVY6
    • Q96HU7
    • Q96IH9
    • Q9H9K2

    Protein attributes for TRMT2B Gene

    Size:
    504 amino acids
    Molecular mass:
    56476 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TRMT2B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRMT2B Gene

Proteomics data for TRMT2B Gene at MOPED

Selected DME Specific Peptides for TRMT2B Gene

Post-translational modifications for TRMT2B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRMT2B Gene

Domains for TRMT2B Gene

Protein Domains for TRMT2B Gene

Suggested Antigen Peptide Sequences for TRMT2B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96GJ1

UniProtKB/Swiss-Prot:

TRM2_HUMAN :
  • Q96GJ1
Family:
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family.
genes like me logo Genes that share domains with TRMT2B: view

No data available for Gene Families for TRMT2B Gene

Function for TRMT2B Gene

Molecular function for TRMT2B Gene

UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + uracil(54) in tRNA = S-adenosyl-L-homocysteine + 5-methyluracil(54) in tRNA
UniProtKB/Swiss-Prot Function: Probable S-adenosyl-L-methionine-dependent methyltransferase that catalyzes the formation of 5-methyl-uridine at position 54 (m5U54) in all tRNA. May also have a role in tRNA stabilization or maturation (By similarity).

Enzyme Numbers (IUBMB) for TRMT2B Gene

Gene Ontology (GO) - Molecular Function for TRMT2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0008168 methyltransferase activity --
GO:0008173 RNA methyltransferase activity --
GO:0030697 S-adenosylmethionine-dependent tRNA (m5U54) methyltransferase activity IEA --
genes like me logo Genes that share ontologies with TRMT2B: view

Phenotypes for TRMT2B Gene

GenomeRNAi human phenotypes for TRMT2B:
genes like me logo Genes that share phenotypes with TRMT2B: view

miRNA for TRMT2B Gene

miRTarBase miRNAs that target TRMT2B

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for TRMT2B Gene

Localization for TRMT2B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRMT2B Gene COMPARTMENTS Subcellular localization image for TRMT2B gene
Compartment Confidence
mitochondrion 2
cytosol 1
nucleus 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for TRMT2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IEA --
genes like me logo Genes that share ontologies with TRMT2B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TRMT2B Gene

Pathways for TRMT2B Gene

SuperPathways for TRMT2B Gene

No Data Available

Gene Ontology (GO) - Biological Process for TRMT2B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001510 RNA methylation IEA --
GO:0006396 RNA processing IEA --
GO:0008033 tRNA processing IEA --
GO:0032259 methylation --
genes like me logo Genes that share ontologies with TRMT2B: view

No data available for Pathways by source for TRMT2B Gene

Compounds for TRMT2B Gene

(1) HMDB Compounds for TRMT2B Gene

Compound Synonyms Cas Number PubMed IDs
Ribothymidine
  • 1-b-D-Ribofuranosylthymine
1463-10-1
genes like me logo Genes that share compounds with TRMT2B: view

Transcripts for TRMT2B Gene

Unigene Clusters for TRMT2B Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for TRMT2B Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b · 8c · 8d · 8e ^ 9a · 9b · 9c ^
SP1: - - - - -
SP2: -
SP3: - - - -
SP4: - - - - - - - - -
SP5: - - - -
SP6: - - - - - -
SP7: - - -
SP8:
SP9: - - - - - - - -
SP10: - - - - - - - - - - - - - - - - -
SP11: - - - - - - - - - - - - - - - -
SP12: - - - -
SP13: - - - - - - - -
SP14: - - - - - - - -
SP15: - - - - - - - - - - - -
SP16: - - - - - - -
SP17: - - - - - - -
SP18: - - - - - - - - - -
SP19: - - - - - - - - -
SP20: - - -
SP21: - - - - - - - - - - - - - - - - - - - -
SP22: - - - - - - - - -
SP23: - - - - - -
SP24: - - - - -

ExUns: 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b
SP1:
SP2: -
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8: - - - -
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:
SP19:
SP20:
SP21:
SP22:
SP23:
SP24:

Relevant External Links for TRMT2B Gene

GeneLoc Exon Structure for
TRMT2B
ECgene alternative splicing isoforms for
TRMT2B

Expression for TRMT2B Gene

mRNA expression in normal human tissues for TRMT2B Gene

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for TRMT2B Gene

SOURCE GeneReport for Unigene cluster for TRMT2B Gene Hs.496501

genes like me logo Genes that share expressions with TRMT2B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TRMT2B Gene

Orthologs for TRMT2B Gene

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

Orthologs for TRMT2B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRMT2B 35
  • 99.93 (n)
  • 99.8 (a)
TRMT2B 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRMT2B 35
  • 85.31 (n)
  • 78.47 (a)
dog
(Canis familiaris)
Mammalia TRMT2B 35
  • 83.07 (n)
  • 73.45 (a)
TRMT2B 36
  • 70 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trmt2b 35
  • 82.35 (n)
  • 76.27 (a)
Trmt2b 16
Trmt2b 36
  • 76 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 56 (a)
OneToMany
-- 36
  • 54 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia TRMT2B 36
  • 67 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 36
  • 60 (a)
OneToMany
-- 36
  • 59 (a)
OneToMany
LOC100858909 35
  • 67.77 (n)
  • 65.17 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia trmt2b 35
  • 60.2 (n)
  • 54.5 (a)
zebrafish
(Danio rerio)
Actinopterygii trmt2b 35
  • 58.5 (n)
  • 55.73 (a)
trmt2b 36
  • 52 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG3808 36
  • 25 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea H24K24.4 36
  • 23 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRM2 36
  • 13 (a)
OneToMany
Species with no ortholog for TRMT2B:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • rat (Rattus norvegicus)
  • 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 TRMT2B Gene

ENSEMBL:
Gene Tree for TRMT2B (if available)
TreeFam:
Gene Tree for TRMT2B (if available)

Paralogs for TRMT2B Gene

Paralogs for TRMT2B Gene

Selected SIMAP similar genes for TRMT2B Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for TRMT2B Gene

genes like me logo Genes that share paralogs with TRMT2B: view

Variants for TRMT2B Gene

Sequence variations from dbSNP and Humsavar for TRMT2B Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs1014906 -- 101,040,564(+) AATTT(G/T)CATTA intron-variant
rs1142752 -- 101,009,613(-) cagtg(A/G)gctga utr-variant-3-prime
rs2014006 -- 101,009,606(-) ctgaa(A/T)ttgtg utr-variant-3-prime
rs2093316 -- 101,024,068(+) gtcac(A/G)aactc intron-variant
rs3087903 -- 101,049,495(+) AAAAA(A/G)AAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRMT2B Gene

Variant ID Type Subtype PubMed ID
nsv517937 CNV Gain 19592680
nsv515758 CNV Gain 19592680
nsv7013 CNV Loss 18451855

Relevant External Links for TRMT2B Gene

HapMap Linkage Disequilibrium report
TRMT2B
Locus Specific Mutation Databases (LSDB)
TRMT2B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRMT2B Gene

Disorders for TRMT2B Gene

No disorders were found for TRMT2B Gene.

No data available for UniProtKB/Swiss-Prot for TRMT2B Gene

Publications for TRMT2B Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 2 3 4
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3
  3. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PMID: 21139048) Danielsen J.M. … Nielsen M.L. (Mol. Cell Proteomics 2011) 3
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 4

Products for TRMT2B Gene

Sources for TRMT2B Gene

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