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    Trmt9b tRNA methyltransferase 9B [ Mus musculus (house mouse) ]

    Gene ID: 319582, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Trmt9bprovided by MGI
    Official Full Name
    tRNA methyltransferase 9Bprovided by MGI
    Primary source
    MGI:MGI:2442328
    See related
    Ensembl:ENSMUSG00000039620 AllianceGenome:MGI:2442328
    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
    TRM9L; Kiaa1456; 6430573F11Rik
    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. Is expressed in nervous system and retina. Orthologous to human TRMT9B (tRNA methyltransferase 9B (putative)). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in cerebellum adult (RPKM 4.9), frontal lobe adult (RPKM 2.6) and 15 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Trmt9b in Genome Data Viewer
    Location:
    8 A4; 8 23.05 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (36924643..36981738)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (36457485..36514584)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 26150 Neighboring gene ubiquitin-conjugating enzyme E2E 1, UBC4/5 homolog pseudogene Neighboring gene STARR-seq mESC enhancer starr_21216 Neighboring gene STARR-seq mESC enhancer starr_21218 Neighboring gene STARR-seq mESC enhancer starr_21219 Neighboring gene STARR-seq mESC enhancer starr_21224 Neighboring gene predicted gene, 57789 Neighboring gene deleted in liver cancer 1 Neighboring gene STARR-seq mESC enhancer starr_21231 Neighboring gene predicted gene, 53416

    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. Application of long single-stranded DNA donors in genome editing: generation and validation of mouse mutants. Codner GF, et al. BMC Biol, 2018 Jun 21. PMID 29925374, Free PMC Article
    2. A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain. Thompson CL, et al. Neuron, 2014 Jul 16. PMID 24952961, Free PMC Article
    3. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    5. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA modification IEA
    Inferred from Electronic Annotation
    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
    Names
    probable tRNA methyltransferase 9-like protein

    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_001384099.1 → NP_001371028.1  probable tRNA methyltransferase 9B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC168051
      UniProtKB/Swiss-Prot
      Q5DTX8, Q80WQ4, Q8CA94, Q8CAM3
      Conserved Domains (1) summary
      pfam13649
      Location:48 → 135
      Methyltransf_25; Methyltransferase domain

    2. NM_001384103.1 → NP_001371032.1  probable tRNA methyltransferase 9B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC168051
      UniProtKB/Swiss-Prot
      Q5DTX8, Q80WQ4, Q8CA94, Q8CAM3
      Related
      ENSMUSP00000119912.2, ENSMUST00000147525.9
      Conserved Domains (1) summary
      pfam13649
      Location:48 → 135
      Methyltransf_25; Methyltransferase domain

    3. NM_176952.5 → NP_795926.2  probable tRNA methyltransferase 9B isoform 1

      See identical proteins and their annotated locations for NP_795926.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC168051
      Consensus CDS
      CCDS22248.1
      UniProtKB/Swiss-Prot
      Q5DTX8, Q80WQ4, Q8CA94, Q8CAM3
      Related
      ENSMUSP00000127875.2, ENSMUST00000171777.2
      Conserved Domains (1) summary
      pfam13649
      Location:48 → 135
      Methyltransf_25; Methyltransferase domain

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      36924643..36981738
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006509136.5 → XP_006509199.1  probable tRNA methyltransferase 9B isoform X1

      See identical proteins and their annotated locations for XP_006509199.1

      UniProtKB/Swiss-Prot
      Q5DTX8, Q80WQ4, Q8CA94, Q8CAM3
      Conserved Domains (1) summary
      pfam13649
      Location:48 → 135
      Methyltransf_25; Methyltransferase domain

    2. XM_006509138.2 → XP_006509201.1  probable tRNA methyltransferase 9B isoform X4

    3. XM_036154094.1 → XP_036009987.1  probable tRNA methyltransferase 9B isoform X3

      Conserved Domains (1) summary
      pfam13649
      Location:19 → 44
      Methyltransf_25; Methyltransferase domain

    4. XM_036154093.1 → XP_036009986.1  probable tRNA methyltransferase 9B isoform X2

      Conserved Domains (1) summary
      pfam13649
      Location:52 → 77
      Methyltransf_25; Methyltransferase domain

    5. XM_006509137.3 → XP_006509200.1  probable tRNA methyltransferase 9B isoform X3

      Conserved Domains (1) summary
      pfam13649
      Location:19 → 44
      Methyltransf_25; Methyltransferase domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80WQ4.1 GenPept UniProtKB/Swiss-Prot:Q80WQ4

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