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    Trmt13 tRNA methyltransferase 13 [ Mus musculus (house mouse) ]

    Gene ID: 229780, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Trmt13provided by MGI
    Official Full Name
    tRNA methyltransferase 13provided by MGI
    Primary source
    MGI:MGI:1925219
    See related
    Ensembl:ENSMUSG00000033439 AllianceGenome:MGI:1925219
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Ccdc76; A330067P21; 4631408H19Rik; A930028L21Rik
    Summary
    Predicted to enable tRNA methyltransferase activity. Predicted to be involved in tRNA methylation. Predicted to act upstream of or within methylation. Orthologous to human TRMT13 (tRNA methyltransferase 13 homolog). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in heart adult (RPKM 5.5), CNS E11.5 (RPKM 4.6) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Trmt13 in Genome Data Viewer
    Location:
    3 G1; 3 50.4 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (116365706..116408236, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (116576061..116614587, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast) pseudogene Neighboring gene splicing factor, arginine/serine-rich pseudogene Neighboring gene leucine rich repeat containing 39 Neighboring gene STARR-seq mESC enhancer starr_08780 Neighboring gene STARR-positive B cell enhancer ABC_E1630 Neighboring gene SAS-6 centriolar assembly protein Neighboring gene STARR-seq mESC enhancer starr_08781 Neighboring gene STARR-seq mESC enhancer starr_08784 Neighboring gene major facilitator superfamily domain containing 14A Neighboring gene STARR-seq mESC enhancer starr_08785 Neighboring gene STARR-positive B cell enhancer ABC_E3464 Neighboring gene STARR-seq mESC enhancer starr_08789 Neighboring gene microRNA 3473h

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Diversity in mechanism and function of tRNA methyltransferases. Swinehart WE, et al. RNA Biol, 2015. PMID 25626150, Free PMC Article
    2. tRNA modifications regulate translation during cellular stress. Gu C, et al. FEBS Lett, 2014 Nov 28. PMID 25304425, Free PMC Article
    3. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    4. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA 2'-O-methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    tRNA:m(4)X modification enzyme TRM13 homolog
    Names
    coiled-coil domain containing 76
    coiled-coil domain-containing protein 76
    tRNA [Gm4] methyltransferase
    tRNA guanosine-2'-O-methyltransferase TRM13 homolog
    tRNA methyltransferase 13 homolog
    NP_084292.1
    XP_006501487.1
    XP_011238413.1
    XP_011238414.1
    XP_030108459.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_030016.3 → NP_084292.1  tRNA:m(4)X modification enzyme TRM13 homolog

      See identical proteins and their annotated locations for NP_084292.1

      Status: VALIDATED

      Source sequence(s)
      AC131038, AK039588
      Consensus CDS
      CCDS38612.1
      UniProtKB/Swiss-Prot
      Q8BYH3
      Related
      ENSMUSP00000047320.5, ENSMUST00000041524.11
      Conserved Domains (3) summary
      pfam05206
      Location:165 → 469
      TRM13; Methyltransferase TRM13
      pfam05253
      Location:59 → 80
      zf-U11-48K; U11-48K-like CHHC zinc finger
      pfam11722
      Location:17 → 45
      zf-TRM13_CCCH; CCCH zinc finger in TRM13 protein

    RNA

    1. NR_152258.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC131038, AK041636, AK163561

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      116365706..116408236 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030252599.2 → XP_030108459.1  tRNA:m(4)X modification enzyme TRM13 homolog isoform X3

      UniProtKB/TrEMBL
      V9GWW9
      Related
      ENSMUSP00000138868.2, ENSMUST00000184963.8
      Conserved Domains (3) summary
      pfam05253
      Location:59 → 80
      zf-U11-48K; U11-48K-like CHHC zinc finger
      pfam11722
      Location:17 → 45
      zf-TRM13_CCCH; CCCH zinc finger in TRM13 protein
      cl17173
      Location:165 → 273
      AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

    2. XM_006501424.3 → XP_006501487.1  tRNA:m(4)X modification enzyme TRM13 homolog isoform X2

      See identical proteins and their annotated locations for XP_006501487.1

      Conserved Domains (1) summary
      pfam05206
      Location:24 → 328
      TRM13; Methyltransferase TRM13

    3. XM_011240112.3 → XP_011238414.1  tRNA:m(4)X modification enzyme TRM13 homolog isoform X2

      See identical proteins and their annotated locations for XP_011238414.1

      Conserved Domains (1) summary
      pfam05206
      Location:24 → 328
      TRM13; Methyltransferase TRM13

    4. XM_011240111.2 → XP_011238413.1  tRNA:m(4)X modification enzyme TRM13 homolog isoform X1

      Conserved Domains (1) summary
      pfam05206
      Location:84 → 388
      TRM13; Methyltransferase TRM13
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BYH3.1 GenPept UniProtKB/Swiss-Prot:Q8BYH3

    Gene LinkOut

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