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    Trmt9b tRNA methyltransferase 9B (putative) [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306504, updated on 2-Nov-2024

    Summary

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    Symbol
    Trmt9bprovided by RGD
    Full Name
    tRNA methyltransferase 9B (putative)provided by RGD
    Primary source
    RGD:1304810
    See related
    EnsemblRapid:ENSRNOG00000011253 AllianceGenome:RGD:1304810
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1304810
    Summary
    Predicted to enable tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity and tRNA binding activity. Predicted to be involved in tRNA methylation and tRNA wobble uridine modification. Predicted to be active in cytoplasm and nucleus. Orthologous to human TRMT9B (tRNA methyltransferase 9B (putative)). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 62.0), Adrenal (RPKM 42.5) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trmt9b in Genome Data Viewer
    Location:
    16q12.2
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (62439625..62495526, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (55740551..55792198, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (59316145..59368559, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene DLC1 Rho GTPase activating protein Neighboring gene uncharacterized LOC108348402 Neighboring gene uncharacterized LOC120097448 Neighboring gene ubiquitin-conjugating enzyme E2E 3, pseudogene 2 Neighboring gene sorcin, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. A human tRNA methyltransferase 9-like protein prevents tumour growth by regulating LIN9 and HIF1-α. Begley U, et al. EMBO Mol Med, 2013 Mar. PMID 23381944, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables S-adenosylmethionine-dependent methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA wobble uridine modification IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable tRNA methyltransferase 9B

    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_001107314.1 → NP_001100784.1  probable tRNA methyltransferase 9B

      See identical proteins and their annotated locations for NP_001100784.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473970
      UniProtKB/TrEMBL
      A6IVK2, A6IVK5, D3ZQW3
      Related
      ENSRNOP00000015062.3, ENSRNOT00000015062.5
      Conserved Domains (1) summary
      pfam08241
      Location:50 → 139
      Methyltransf_11; Methyltransferase domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086034.1 Reference GRCr8

      Range
      62439625..62495526 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063275436.1 → XP_063131506.1  probable tRNA methyltransferase 9B isoform X3

      UniProtKB/TrEMBL
      A6IVK9

    2. XM_063275435.1 → XP_063131505.1  probable tRNA methyltransferase 9B isoform X2

    3. XM_006253223.5 → XP_006253285.1  probable tRNA methyltransferase 9B isoform X1

      See identical proteins and their annotated locations for XP_006253285.1

      UniProtKB/TrEMBL
      A6IVK2, A6IVK5, D3ZQW3
      Conserved Domains (1) summary
      pfam08241
      Location:50 → 139
      Methyltransf_11; Methyltransferase domain

    4. XM_006253222.3 → XP_006253284.1  probable tRNA methyltransferase 9B isoform X1

      See identical proteins and their annotated locations for XP_006253284.1

      UniProtKB/TrEMBL
      A6IVK2, A6IVK5, D3ZQW3
      Conserved Domains (1) summary
      pfam08241
      Location:50 → 139
      Methyltransf_11; Methyltransferase domain

    5. XM_039094541.2 → XP_038950469.1  probable tRNA methyltransferase 9B isoform X3

      UniProtKB/TrEMBL
      A6IVK5, A6IVK9
    Nucleotide Protein Strain
    Heading Accession and Version

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