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    Tyw1 tRNA-yW synthesizing protein 1 homolog (S. cerevisiae) [ Mus musculus (house mouse) ]

    Gene ID: 100929, updated on 23-Jun-2021

    Summary

    Official Symbol
    Tyw1provided by MGI
    Official Full Name
    tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)provided by MGI
    Primary source
    MGI:MGI:2141161
    See related
    Ensembl:ENSMUSG00000056310
    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
    Rsa; Rsafd1; AW125391
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 3.3), placenta adult (RPKM 3.0) and 28 other tissues See more
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    Genomic context

    See Tyw1 in Genome Data Viewer
    Location:
    5; 5 G1.3
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (130284413..130370409)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (130255572..130341568)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (130731489..130817437)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 248 Neighboring gene predicted gene 6598 Neighboring gene SBDS ribosome maturation factor Neighboring gene RIKEN cDNA A330070K13 gene Neighboring gene predicted gene, 40336 Neighboring gene calneuron 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    • Homologs of the Tyw1 gene: The Tyw1 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, S.cerevisiae, E.gossypii, S.pombe, M.oryzae, N.crassa, A.thaliana, rice, and frog.
    • Orthologs

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables 4 iron, 4 sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables FMN binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables iron-sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lyase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables tRNA-4-demethylwyosine synthase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    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
     
    involved_in wybutosine biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1
    Names
    radical S-adenosyl methionine and flavodoxin domain-containing protein 1
    radical S-adenosyl methionine and flavodoxin domains 1
    tRNA wybutosine-synthesizing protein 1 homolog
    tRNA-yW-synthesizing protein
    NP_001015876.1
    NP_849228.1
    XP_006504394.1
    XP_017176073.1
    XP_036020599.1

    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_001015876.2NP_001015876.1  S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 isoform 1

      See identical proteins and their annotated locations for NP_001015876.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      BB619468, BC068126, BY670442, CD551326
      Consensus CDS
      CCDS19712.1
      UniProtKB/Swiss-Prot
      Q8BJM7
      Related
      ENSMUSP00000037173.7, ENSMUST00000040213.13
      Conserved Domains (2) summary
      PRK13762
      Location:340652
      PRK13762; 4-demethylwyosine synthase TYW1
      pfam00258
      Location:73224
      Flavodoxin_1
    2. NM_178897.4NP_849228.1  S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 isoform 2

      See identical proteins and their annotated locations for NP_849228.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences in its 3' end, compared to variant 1, which results in a protein (isoform 2) with a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC113029, AK045279
      Consensus CDS
      CCDS19711.1
      UniProtKB/Swiss-Prot
      Q8BJM7
      UniProtKB/TrEMBL
      A0A0R4J0L2
      Related
      ENSMUSP00000047318.6, ENSMUST00000044204.12
      Conserved Domains (2) summary
      PRK13762
      Location:340374
      PRK13762; 4-demethylwyosine synthase TYW1
      pfam00258
      Location:73224
      Flavodoxin_1

    RNA

    1. NR_153350.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice junction compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC113029

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      130284413..130370409
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006504331.3XP_006504394.1  S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 isoform X1

      See identical proteins and their annotated locations for XP_006504394.1

      UniProtKB/Swiss-Prot
      Q8BJM7
      Conserved Domains (2) summary
      PRK13762
      Location:340652
      PRK13762; 4-demethylwyosine synthase TYW1
      pfam00258
      Location:73224
      Flavodoxin_1
    2. XM_036164706.1XP_036020599.1  S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 isoform X3

      Related
      ENSMUSP00000098226.4, ENSMUST00000100662.10
      Conserved Domains (1) summary
      pfam00258
      Location:73224
      Flavodoxin_1
    3. XM_017320584.3XP_017176073.1  S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase TYW1 isoform X2

      Conserved Domains (1) summary
      PRK13762
      Location:148460
      PRK13762; 4-demethylwyosine synthase TYW1

    RNA

    1. XR_868551.4 RNA Sequence

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