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Aliases for TRMT13 Gene

Aliases for TRMT13 Gene

  • TRNA Methyltransferase 13 Homolog (S. Cerevisiae) 2 3
  • Coiled-Coil Domain-Containing Protein 76 3 4
  • Coiled-Coil Domain Containing 76 2 3
  • CCDC76 3 4
  • TRNA Guanosine-2-O-Methyltransferase TRM13 Homolog 3
  • TRNA:M(4)X Modification Enzyme TRM13 Homolog 3
  • TRNA [Gm4] Methyltransferase 3
  • EC 2.1.1.225 4

External Ids for TRMT13 Gene

Previous Symbols for TRMT13 Gene

  • CCDC76

Summaries for TRMT13 Gene

GeneCards Summary for TRMT13 Gene

TRMT13 (TRNA Methyltransferase 13 Homolog (S. Cerevisiae)) is a Protein Coding gene. GO annotations related to this gene include methyltransferase activity.

UniProtKB/Swiss-Prot for TRMT13 Gene

  • tRNA methylase which 2-O-methylates cytidine(4) in tRNA(Pro) and tRNA(Gly)(GCC), and adenosine(4) in tRNA(His).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRMT13 Gene

Genomics for TRMT13 Gene

Genomic Location for TRMT13 Gene

Start:
100,133,113 bp from pter
End:
100,150,498 bp from pter
Size:
17,386 bases
Orientation:
Plus strand

Genomic View for TRMT13 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TRMT13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRMT13 Gene

No data available for Regulatory Elements for TRMT13 Gene

Proteins for TRMT13 Gene

  • Protein details for TRMT13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NUP7-TRM13_HUMAN
    Recommended name:
    tRNA:m(4)X modification enzyme TRM13 homolog
    Protein Accession:
    Q9NUP7
    Secondary Accessions:
    • Q5VVL0
    • Q9NW65

    Protein attributes for TRMT13 Gene

    Size:
    481 amino acids
    Molecular mass:
    54247 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TRMT13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRMT13 Gene

Proteomics data for TRMT13 Gene at MOPED

Post-translational modifications for TRMT13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRMT13 Gene

No data available for DME Specific Peptides for TRMT13 Gene

Domains for TRMT13 Gene

Protein Domains for TRMT13 Gene

UniProtKB/Swiss-Prot:

TRM13_HUMAN
Family:
  • Belongs to the TRM13 family.:
    • Q9NUP7
Similarity:
  • Contains 1 CHHC-type zinc finger.:
    • Q9NUP7
genes like me logo Genes that share domains with TRMT13: view

No data available for Gene Families for TRMT13 Gene

Function for TRMT13 Gene

Molecular function for TRMT13 Gene

UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing 2-O-methyluridine
UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + cytidine(4) in tRNA(Pro) = S-adenosyl-L-homocysteine + 2-O-methylcytidine(4) in tRNA(Pro)
UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + cytidine(4) in tRNA(Gly)(GCC) = S-adenosyl-L-homocysteine + 2-O-methylcytidine(4) in tRNA(Gly)(GCC)
UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + adenosine(4) in tRNA(His) = S-adenosyl-L-homocysteine + 2-O-methyladenosine(4) in tRNA(His)
UniProtKB/Swiss-Prot Function: tRNA methylase which 2-O-methylates cytidine(4) in tRNA(Pro) and tRNA(Gly)(GCC), and adenosine(4) in tRNA(His).

Enzyme Numbers (IUBMB) for TRMT13 Gene

Gene Ontology (GO) - Molecular Function for TRMT13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008168 methyltransferase activity --
GO:0008175 tRNA methyltransferase activity IBA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TRMT13: view

miRNA for TRMT13 Gene

miRTarBase miRNAs that target TRMT13

No data available for Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for TRMT13 Gene

Localization for TRMT13 Gene

No data available for Gene Ontology (GO) - Cellular Components for TRMT13 Gene

Pathways for TRMT13 Gene

SuperPathways for TRMT13 Gene

No Data Available

Interacting Proteins for TRMT13 Gene

STRING Interaction Network Preview (showing 3 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000359160%0d%0a9606.ENSP00000385269%0d%0a9606.ENSP00000387286%0d%0a9606.ENSP00000310226%0d%0a
Selected Interacting proteins: ENSP00000359160 for TRMT13 Gene via STRING

Gene Ontology (GO) - Biological Process for TRMT13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008033 tRNA processing --
GO:0030488 tRNA methylation IBA --
GO:0032259 methylation --
genes like me logo Genes that share ontologies with TRMT13: view

No data available for Pathways by source for TRMT13 Gene

Transcripts for TRMT13 Gene

Unigene Clusters for TRMT13 Gene

TRNA methyltransferase 13 homolog (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRMT13 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b · 8c · 8d ^ 9a · 9b · 9c ^ 10a · 10b · 10c ^ 11 ^ 12
SP1: -
SP2: - -
SP3: - - - -
SP4: -
SP5: - -
SP6: - -
SP7: -
SP8:
SP9:

Relevant External Links for TRMT13 Gene

GeneLoc Exon Structure for
TRMT13
ECgene alternative splicing isoforms for
TRMT13

Expression for TRMT13 Gene

mRNA expression in normal human tissues for TRMT13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for TRMT13 Gene

SOURCE GeneReport for Unigene cluster for TRMT13 Gene Hs.729095

genes like me logo Genes that share expressions with TRMT13: view

Orthologs for TRMT13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRMT13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CCDC76 37
  • 99 (a)
OneToOne
TRMT13 36
  • 99.72 (n)
  • 99.38 (a)
cow
(Bos Taurus)
Mammalia CCDC76 36
  • 92.45 (n)
  • 90.64 (a)
CCDC76 37
  • 91 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRMT13 37
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trmt13 36
  • 86.88 (n)
  • 86.53 (a)
Trmt13 16
Trmt13 37
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TRMT13 37
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRMT13 37
  • 74 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trmt13 36
  • 88.49 (n)
  • 86.32 (a)
chicken
(Gallus gallus)
Aves TRMT13 36
  • 68.67 (n)
  • 65.74 (a)
TRMT13 37
  • 62 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRMT13 37
  • 63 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.31050 36
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.18070 36
trmt13 36
  • 61.82 (n)
  • 60.28 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9602 36
zebrafish
(Danio rerio)
Actinopterygii trmt13 36
  • 63.01 (n)
  • 61.42 (a)
trmt13 37
  • 57 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000681 36
  • 45.71 (n)
  • 40.26 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG18048 36
  • 46.65 (n)
  • 36.93 (a)
CG18048 37
  • 32 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea Y49A3A.3 36
  • 46.15 (n)
  • 33.24 (a)
Y49A3A.3 37
  • 29 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL163W 36
  • 40.27 (n)
  • 34.13 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRM13 36
  • 49.43 (n)
  • 38.64 (a)
TRM13 37
  • 29 (a)
OneToOne
TRM13 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E07547g 36
  • 46.01 (n)
  • 36.46 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G01880 36
  • 48.19 (n)
  • 38.54 (a)
rice
(Oryza sativa)
Liliopsida Os03g0833200 36
  • 44.34 (n)
  • 32.55 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes trm13 36
  • 49.26 (n)
  • 38.87 (a)
Species with no ortholog for TRMT13:
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRMT13 Gene

ENSEMBL:
Gene Tree for TRMT13 (if available)
TreeFam:
Gene Tree for TRMT13 (if available)

Paralogs for TRMT13 Gene

No data available for Paralogs for TRMT13 Gene

Variants for TRMT13 Gene

Sequence variations from dbSNP and Humsavar for TRMT13 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs499479 -- 100,147,119(-) CAAAA(C/T)GTAGG intron-variant
rs506044 -- 100,146,375(-) GATTA(C/T)TCATT intron-variant
rs561119 -- 100,138,335(-) ACTTA(C/T)GTTGT intron-variant
rs588353 -- 100,146,586(+) CTGCA(A/T)CCTCC intron-variant
rs608038 -- 100,141,552(-) gagtt(C/T)gacac intron-variant

Relevant External Links for TRMT13 Gene

HapMap Linkage Disequilibrium report
TRMT13

No data available for Structural Variations from Database of Genomic Variants (DGV) for TRMT13 Gene

Disorders for TRMT13 Gene

No disorders were found for TRMT13 Gene.

No data available for UniProtKB/Swiss-Prot for TRMT13 Gene

Publications for TRMT13 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  2. 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
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4
  4. Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis. (PMID: 11799066) Weinmann A.S. … Farnham P.J. (Genes Dev. 2002) 2 3
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3

Products for TRMT13 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate TRMT13
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for TRMT13
    • Block miRNA regulation of TRMT13 using miScript Target Protectors

    Sources for TRMT13 Gene

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