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Aliases for TRMT6 Gene

Aliases for TRMT6 Gene

  • TRNA Methyltransferase 6 2 3 5
  • TRNA(M1A58)MTase Subunit TRM6 3 4
  • TRNA (Adenine(58)-N(1))-Methyltransferase Non-Catalytic Subunit TRM6 3
  • TRNA Methyltransferase 6 Homolog (S. Cerevisiae) 2
  • TRNA(M1A58)-Methyltransferase Subunit TRM6 4
  • TRNA Methyltransferase 6 Homolog 3
  • KIAA1153 4
  • CGI-09 3
  • Gcd10p 3
  • GCD10 3
  • TRM6 4

External Ids for TRMT6 Gene

Previous GeneCards Identifiers for TRMT6 Gene

  • GC20M005867
  • GC20M005875
  • GC20M005917

Summaries for TRMT6 Gene

Entrez Gene Summary for TRMT6 Gene

  • This gene encodes a member of the tRNA methyltransferase 6 protein family. A similar protein in yeast is part of a two component methyltransferase, which is involved in the posttranslational modification that produces the modified nucleoside 1-methyladenosine in tRNAs. Modified 1-methyladenosine influences initiator methionine stability and may be involved in the replication of human immunodeficiency virus type 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]

GeneCards Summary for TRMT6 Gene

TRMT6 (TRNA Methyltransferase 6) is a Protein Coding gene. Among its related pathways are tRNA processing and Gene Expression. GO annotations related to this gene include poly(A) RNA binding and translation initiation factor activity.

UniProtKB/Swiss-Prot for TRMT6 Gene

  • Substrate-binding subunit of tRNA (adenine-N(1)-)-methyltransferase, which catalyzes the formation of N(1)-methyladenine at position 58 (m1A58) in initiator methionyl-tRNA.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRMT6 Gene

Genomics for TRMT6 Gene

Regulatory Elements for TRMT6 Gene

Enhancers for TRMT6 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH20F005687 1 FANTOM5 Ensembl 17.2 +261.5 261458 2.6 ELF3 ATF1 MLX ARID4B THRB ZNF48 RAD21 DNMT3B RARA SLC30A9 GPCPD1 TRMT6 MCM8 CHGB LOC105372514
GH20F005918 1.6 FANTOM5 Ensembl ENCODE 15.2 +31.0 31002 2.6 TAF1 JUN MAX ZNF316 ZFHX2 NFE2 MAFK NFE2L2 HLF MAFG MCM8 TRMT6 RNU1-55P GPCPD1 CHGB KANK1P1
GH20F005990 0.4 ENCODE 11.5 -40.9 -40935 1.7 HLF CHD1 CHD4 ZBTB40 MCM8 TRMT6 ENSG00000275632 ENSG00000231961
GH20F005972 1.1 Ensembl ENCODE 11.4 -23.1 -23119 2.3 CHD1 MCM8 TRMT6 CRLS1 CHGB ENSG00000231961 ENSG00000275632
GH20F005979 0.6 ENCODE 11.2 -30.3 -30343 3.1 HLF CEBPB ZNF384 CEBPG POLR2A ZNF580 HMBOX1 NR2F6 MAFK KDM6A MCM8 CRLS1 TRMT6 CHGB ENSG00000275632 ENSG00000231961
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around TRMT6 on UCSC Golden Path with GeneCards custom track

Promoters for TRMT6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000008115 58 3001 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 SLC30A9 KLF13

Genomic Location for TRMT6 Gene

Chromosome:
20
Start:
5,937,235 bp from pter
End:
5,950,558 bp from pter
Size:
13,324 bases
Orientation:
Minus strand

Genomic View for TRMT6 Gene

Genes around TRMT6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRMT6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRMT6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRMT6 Gene

Proteins for TRMT6 Gene

  • Protein details for TRMT6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UJA5-TRM6_HUMAN
    Recommended name:
    tRNA (adenine(58)-N(1))-methyltransferase non-catalytic subunit TRM6
    Protein Accession:
    Q9UJA5
    Secondary Accessions:
    • B4DUV6
    • Q76P92
    • Q9BQV5
    • Q9ULR7
    • Q9Y2Z8

    Protein attributes for TRMT6 Gene

    Size:
    497 amino acids
    Molecular mass:
    55799 Da
    Quaternary structure:
    • tRNA (adenine-N(1)-)-methyltransferase is a heterodimer of TRM6 and TRM61.
    SequenceCaution:
    • Sequence=BAA86467.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAA86467.1; Type=Frameshift; Positions=319; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TRMT6 Gene

    Alternative splice isoforms for TRMT6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRMT6 Gene

Post-translational modifications for TRMT6 Gene

  • Ubiquitination at Lys 112 and Lys 273
  • Modification sites at PhosphoSitePlus

Other Protein References for TRMT6 Gene

No data available for DME Specific Peptides for TRMT6 Gene

Domains & Families for TRMT6 Gene

Protein Domains for TRMT6 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9UJA5

UniProtKB/Swiss-Prot:

TRM6_HUMAN :
  • Belongs to the TRM6/GCD10 family.
Family:
  • Belongs to the TRM6/GCD10 family.
genes like me logo Genes that share domains with TRMT6: view

No data available for Gene Families for TRMT6 Gene

Function for TRMT6 Gene

Molecular function for TRMT6 Gene

UniProtKB/Swiss-Prot Function:
Substrate-binding subunit of tRNA (adenine-N(1)-)-methyltransferase, which catalyzes the formation of N(1)-methyladenine at position 58 (m1A58) in initiator methionyl-tRNA.

Gene Ontology (GO) - Molecular Function for TRMT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with TRMT6: view
genes like me logo Genes that share phenotypes with TRMT6: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRMT6 Gene

Localization for TRMT6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRMT6 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRMT6 Gene COMPARTMENTS Subcellular localization image for TRMT6 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TRMT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0031515 tRNA (m1A) methyltransferase complex IEA --
genes like me logo Genes that share ontologies with TRMT6: view

Pathways & Interactions for TRMT6 Gene

genes like me logo Genes that share pathways with TRMT6: view

Pathways by source for TRMT6 Gene

Gene Ontology (GO) - Biological Process for TRMT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0030488 tRNA methylation IEA --
genes like me logo Genes that share ontologies with TRMT6: view

No data available for SIGNOR curated interactions for TRMT6 Gene

Transcripts for TRMT6 Gene

Unigene Clusters for TRMT6 Gene

TRNA methyltransferase 6 homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRMT6 Gene

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

Relevant External Links for TRMT6 Gene

GeneLoc Exon Structure for
TRMT6
ECgene alternative splicing isoforms for
TRMT6

Expression for TRMT6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRMT6 Gene

Protein differential expression in normal tissues from HIPED for TRMT6 Gene

This gene is overexpressed in Lung (47.0) and Breast (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRMT6 Gene



Protein tissue co-expression partners for TRMT6 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRMT6 Gene:

TRMT6

SOURCE GeneReport for Unigene cluster for TRMT6 Gene:

Hs.128791

mRNA Expression by UniProt/SwissProt for TRMT6 Gene:

Q9UJA5-TRM6_HUMAN
Tissue specificity: Expressed in brain, liver, testis and ovary.
genes like me logo Genes that share expression patterns with TRMT6: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for TRMT6 Gene

Orthologs for TRMT6 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRMT6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRMT6 34 35
  • 99.66 (n)
dog
(Canis familiaris)
Mammalia TRMT6 35
  • 93 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRMT6 34 35
  • 92.35 (n)
rat
(Rattus norvegicus)
Mammalia Trmt6 34
  • 87.37 (n)
mouse
(Mus musculus)
Mammalia Trmt6 34 16 35
  • 86.09 (n)
oppossum
(Monodelphis domestica)
Mammalia TRMT6 35
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 80 (a)
OneToMany
-- 35
  • 67 (a)
OneToMany
chicken
(Gallus gallus)
Aves TRMT6 34 35
  • 74.32 (n)
lizard
(Anolis carolinensis)
Reptilia TRMT6 35
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trmt6 34
  • 67.31 (n)
Str.254 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.5761 34
zebrafish
(Danio rerio)
Actinopterygii trmt6 34 35
  • 62.15 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG9596 34 35
  • 45.42 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009904 34
  • 44.99 (n)
worm
(Caenorhabditis elegans)
Secernentea ZK858.7 34 35
  • 44.67 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes GCD10 35 37
  • 23 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G45730 34
  • 47.4 (n)
rice
(Oryza sativa)
Liliopsida Os04g0112300 34
  • 46.03 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 39 (a)
OneToOne
Species where no ortholog for TRMT6 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)

Evolution for TRMT6 Gene

ENSEMBL:
Gene Tree for TRMT6 (if available)
TreeFam:
Gene Tree for TRMT6 (if available)

Paralogs for TRMT6 Gene

No data available for Paralogs for TRMT6 Gene

Variants for TRMT6 Gene

Sequence variations from dbSNP and Humsavar for TRMT6 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type
rs1005517 -- 5,944,573(+) ATATG(C/G)ACTGT intron-variant
rs10485494 -- 5,938,732(+) CTAAT(C/G)AAGAC intron-variant
rs111352845 -- 5,944,300(+) TCACA(A/T)AACAA intron-variant
rs111364632 -- 5,952,486(+) TGGAT(C/G)GATTC nc-transcript-variant, upstream-variant-2KB, reference, missense
rs111442540 -- 5,939,052(+) CCCAC(C/T)TTGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRMT6 Gene

Variant ID Type Subtype PubMed ID
nsv819052 CNV loss 19587683
nsv833905 CNV gain 17160897

Variation tolerance for TRMT6 Gene

Residual Variation Intolerance Score: 9.54% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.41; 85.59% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRMT6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRMT6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRMT6 Gene

Disorders for TRMT6 Gene

Relevant External Links for TRMT6

Genetic Association Database (GAD)
TRMT6
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRMT6

No disorders were found for TRMT6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRMT6 Gene

Publications for TRMT6 Gene

  1. The bipartite structure of the tRNA m1A58 methyltransferase from S. cerevisiae is conserved in humans. (PMID: 16043508) Ozanick S. … Anderson J.T. (RNA 2005) 2 3 4 64
  2. Genome-wide association studies identify loci associated with age at menarche and age at natural menopause. (PMID: 19448621) He C. … Chasman D.I. (Nat. Genet. 2009) 3 46 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. 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) 3 4 64
  5. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4 64

Products for TRMT6 Gene

Sources for TRMT6 Gene

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