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    Thumpd3 THUMP domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 14911, updated on 21-Dec-2024

    Summary

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    Official Symbol
    Thumpd3provided by MGI
    Official Full Name
    THUMP domain containing 3provided by MGI
    Primary source
    MGI:MGI:1277973
    See related
    Ensembl:ENSMUSG00000030264 AllianceGenome:MGI:1277973
    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
    Gtrosa26as; Gt(ROSA)26asSor
    Summary
    Predicted to enable tRNA (guanine(6)-N2)-methyltransferase activity and tRNA (guanine(7)-N2)-methyltransferase activity. Predicted to be involved in tRNA methylation. Predicted to be located in cytosol and nucleolus. Is expressed in central nervous system; craniocervical region bone; and sensory organ. Orthologous to human THUMPD3 (THUMP domain containing 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 10.3), placenta adult (RPKM 8.3) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Thumpd3 in Genome Data Viewer
    Location:
    6 E3; 6 52.73 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (113023292..113045239)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (113046302..113068278)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_17031 Neighboring gene STARR-positive B cell enhancer ABC_E4853 Neighboring gene predicted gene, 23244 Neighboring gene predicted gene, 43868 Neighboring gene gene trap ROSA 26, Philippe Soriano Neighboring gene predicted gene, 22591 Neighboring gene STARR-seq mESC enhancer starr_17032 Neighboring gene STARR-seq mESC enhancer starr_17033 Neighboring gene SET domain containing 5 Neighboring gene lipoma HMGIC fusion partner-like protein 4

    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. Disruption of overlapping transcripts in the ROSA beta geo 26 gene trap strain leads to widespread expression of beta-galactosidase in mouse embryos and hematopoietic cells. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 1997 Apr 15. PMID 9108056, Free PMC Article
    2. Promoter traps in embryonic stem cells: a genetic screen to identify and mutate developmental genes in mice. Friedrich G, et al. Genes Dev, 1991 Sep. PMID 1653172
    3. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article
    4. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    5. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables tRNA (guanine(6)-N2)-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA (guanine(6)-N2)-methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables tRNA (guanine(7)-N2)-methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA (guanine(7)-N2)-methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA (guanine) methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA methylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    tRNA (guanine(6)-N(2))-methyltransferase THUMP3; tRNA (guanine(6)-N2)-methyltransferase THUMP3
    Names
    THUMP domain-containing protein 3
    gene trap ROSA 26 antisense, Philippe Soriano
    gtROSA26asSor
    NP_001342195.1
    NP_001396883.1
    NP_001396884.1
    NP_032214.1
    XP_036021758.1

    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_001355266.2 → NP_001342195.1  tRNA (guanine(6)-N(2))-methyltransferase THUMP3

      Status: VALIDATED

      Source sequence(s)
      AC155722
      Consensus CDS
      CCDS20410.1
      UniProtKB/Swiss-Prot
      P97770, Q99M45, Q9D3P0
      Conserved Domains (2) summary
      cd11715
      Location:42 → 288
      THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
      pfam01170
      Location:295 → 480
      UPF0020; Putative RNA methylase family UPF0020

    2. NM_001409954.1 → NP_001396883.1  tRNA (guanine(6)-N(2))-methyltransferase THUMP3

      Status: VALIDATED

      Source sequence(s)
      AC155722
      UniProtKB/Swiss-Prot
      P97770, Q99M45, Q9D3P0

    3. NM_001409955.1 → NP_001396884.1  tRNA (guanine(6)-N(2))-methyltransferase THUMP3

      Status: VALIDATED

      Source sequence(s)
      AC155722
      UniProtKB/Swiss-Prot
      P97770, Q99M45, Q9D3P0

    4. NM_008188.4 → NP_032214.1  tRNA (guanine(6)-N(2))-methyltransferase THUMP3

      See identical proteins and their annotated locations for NP_032214.1

      Status: VALIDATED

      Source sequence(s)
      AC155722
      Consensus CDS
      CCDS20410.1
      UniProtKB/Swiss-Prot
      P97770, Q99M45, Q9D3P0
      Related
      ENSMUSP00000032398.9, ENSMUST00000032398.15
      Conserved Domains (2) summary
      cd11715
      Location:42 → 288
      THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
      pfam01170
      Location:295 → 480
      UPF0020; Putative RNA methylase family UPF0020

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      113023292..113045239
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036165865.1 → XP_036021758.1  tRNA (guanine(6)-N2)-methyltransferase THUMP3 isoform X1

      UniProtKB/Swiss-Prot
      P97770, Q99M45, Q9D3P0
      Conserved Domains (2) summary
      cd11715
      Location:42 → 288
      THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
      pfam01170
      Location:295 → 480
      UPF0020; Putative RNA methylase family UPF0020
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P97770.1 GenPept UniProtKB/Swiss-Prot:P97770

    Gene LinkOut

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