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    Tyw3 tRNA-yW synthesizing protein 3 homolog (S. cerevisiae) [ Mus musculus (house mouse) ]

    Gene ID: 209584, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tyw3provided by MGI
    Official Full Name
    tRNA-yW synthesizing protein 3 homolog (S. cerevisiae)provided by MGI
    Primary source
    MGI:MGI:2445040
    See related
    Ensembl:ENSMUSG00000047583 AllianceGenome:MGI:2445040
    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
    5230400J09Rik
    Summary
    Predicted to enable tRNA methyltransferase activity. Predicted to be involved in tRNA methylation. Predicted to act upstream of or within methylation and tRNA processing. Predicted to be active in cytoplasm. Orthologous to human TYW3 (tRNA-yW synthesizing protein 3 homolog). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in kidney adult (RPKM 6.8), CNS E11.5 (RPKM 4.0) and 26 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tyw3 in Genome Data Viewer
    Location:
    3 H4; 3 79.24 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (154282157..154302750, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (154576520..154597113, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene voltage-dependent anion channel 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_09339 Neighboring gene predicted gene, 40186 Neighboring gene STARR-positive B cell enhancer ABC_E9581 Neighboring gene STARR-seq mESC enhancer starr_09341 Neighboring gene STARR-positive B cell enhancer ABC_E4607 Neighboring gene crystallin, zeta Neighboring gene STARR-seq mESC enhancer starr_09345 Neighboring gene STARR-seq mESC enhancer starr_09346 Neighboring gene predicted gene 20389 Neighboring gene glutamate rich 3 Neighboring gene TNNI3 interacting kinase Neighboring gene STARR-seq mESC enhancer starr_09349 Neighboring gene leucine rich repeat containing 4 pseudogene

    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. Yin Yang 1 sustains biosynthetic demands during brain development in a stage-specific manner. Zurkirchen L, et al. Nat Commun, 2019 May 16. PMID 31097699, Free PMC Article
    2. Viral Infection-Induced Differential Expression of LncRNAs Associated with Collagen in Mouse Placentas and Amniotic Sacs. Pan J, et al. Am J Reprod Immunol, 2015 Sep. PMID 26073538
    3. The ATG5 interactome links clathrin-mediated vesicular trafficking with the autophagosome assembly machinery. Baines K, et al. Autophagy Rep, 2022. PMID 35449600, Free PMC Article
    4. 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
    5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. Hein MY, et al. Cell, 2015 Oct 22. PMID 26496610

    See all (17) 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 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 wybutosine biosynthetic process 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
    		  

    General protein information

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    Preferred Names
    tRNA wybutosine-synthesizing protein 3 homolog
    Names
    tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase
    tRNA-yW-synthesizing protein 3
    NP_001161830.1
    NP_766062.1

    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_001168358.2 → NP_001161830.1  tRNA wybutosine-synthesizing protein 3 homolog isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 3' coding region, which results in a frameshift, compared to variant 1. It encodes isoform 2, which has a shorter and distinct C-terminus, compared to isoform 1. Variant 2 has an in-frame upstream AUG with a strong Kozak signal but the CDS was annotated at the downstream AUG because the uAUG is only four nucleotides from the predicted transcription start site.
      Source sequence(s)
      AC164292
      UniProtKB/TrEMBL
      E9PYE2
      Related
      ENSMUSP00000131461.2, ENSMUST00000170461.8
      Conserved Domains (1) summary
      pfam02676
      Location:10 → 142
      TYW3; Methyltransferase TYW3

    2. NM_172474.6 → NP_766062.1  tRNA wybutosine-synthesizing protein 3 homolog isoform 1

      See identical proteins and their annotated locations for NP_766062.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1). Variant 1 has an in-frame upstream AUG with a strong Kozak signal but the CDS was annotated at the downstream AUG because the uAUG is only four nucleotides from the predicted transcription start site.
      Source sequence(s)
      AC164292
      Consensus CDS
      CCDS38680.1
      UniProtKB/Swiss-Prot
      Q8BSA9, Q8BSX2
      UniProtKB/TrEMBL
      B2RUA6
      Related
      ENSMUSP00000057828.2, ENSMUST00000052774.8
      Conserved Domains (1) summary
      pfam02676
      Location:10 → 193
      TYW3; Methyltransferase TYW3

    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
      154282157..154302750 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_375504.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BSA9.1 GenPept UniProtKB/Swiss-Prot:Q8BSA9

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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