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    Tyw5 tRNA-yW synthesizing protein 5 [ Mus musculus (house mouse) ]

    Gene ID: 68736, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Tyw5provided by MGI
    Official Full Name
    tRNA-yW synthesizing protein 5provided by MGI
    Primary source
    MGI:MGI:1915986
    See related
    Ensembl:ENSMUSG00000048495 AllianceGenome:MGI:1915986
    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
    1110034B05Rik
    Summary
    Predicted to enable several functions, including iron ion binding activity; protein homodimerization activity; and tRNAPhe (7-(3-amino-3-carboxypropyl)wyosine37-C2)-hydroxylase activity. Predicted to be involved in wybutosine biosynthetic process. Predicted to act upstream of or within tRNA processing. Orthologous to human TYW5 (tRNA-yW synthesizing protein 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in bladder adult (RPKM 4.4), placenta adult (RPKM 4.0) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tyw5 in Genome Data Viewer
    Location:
    1 C1.3; 1 28.78 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (57427394..57445833, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (57388235..57406674, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930558J18 gene Neighboring gene RIKEN cDNA 1700066M21 gene Neighboring gene STARR-seq mESC enhancer starr_00984 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:57463249-57463358 Neighboring gene matrix AAA peptidase interacting protein 1 Neighboring gene predicted gene, 22371 Neighboring gene predicted gene, 53555 Neighboring gene STARR-seq mESC enhancer starr_00987

    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. Crystal structure of a novel JmjC-domain-containing protein, TYW5, involved in tRNA modification. Kato M, et al. Nucleic Acids Res, 2011 Mar. PMID 20972222, Free PMC Article
    2. The genetic program of hematopoietic stem cells. Phillips RL, et al. Science, 2000 Jun 2. PMID 10834841
    3. 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
    4. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    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 (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ37953, MGC117744

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables 2-oxoglutarate-dependent dioxygenase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables iron ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA(Phe) (7-(3-amino-3-carboxypropyl)wyosine37-C2)-hydroxylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    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
    		  
    involved_in wybutosine biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    tRNA wybutosine-synthesizing protein 5
    Names
    jmjC domain-containing protein C2orf60 homolog
    tRNA yW-synthesizing enzyme 5
    tRNA(Phe) (7-(3-amino-3-carboxypropyl)wyosine(37)-C(2))-hydroxylase
    NP_001032831.2
    NP_001289891.1
    NP_001289892.1
    NP_001289893.1
    XP_011236889.1
    XP_017177819.1
    XP_036009262.1

    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_001037742.2 → NP_001032831.2  tRNA wybutosine-synthesizing protein 5 isoform 1

      See identical proteins and their annotated locations for NP_001032831.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) uses an alternate in-frame splice site and lacks an alternate in-frame exon in the 5' coding region, compared to variant 4. The resulting protein (isoform 1) is shorter than isoform 4.
      Source sequence(s)
      AC161493, BC099495, BC132289, BU697704
      Consensus CDS
      CCDS14966.2
      UniProtKB/Swiss-Prot
      A2RSX7, Q3UT82, Q4KL17
      Related
      ENSMUSP00000125427.2, ENSMUST00000162686.8
      Conserved Domains (1) summary
      pfam13621
      Location:17 → 255
      Cupin_8; Cupin-like domain

    2. NM_001302962.1 → NP_001289891.1  tRNA wybutosine-synthesizing protein 5 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) encodes the longest isoform (4).
      Source sequence(s)
      AC161493, BC099495, BC144765, BU697704, CF951173
      UniProtKB/TrEMBL
      G3UW53
      Related
      ENSMUSP00000128576.2, ENSMUST00000160837.8
      Conserved Domains (1) summary
      pfam13621
      Location:17 → 257
      Cupin_8; Cupin-like domain

    3. NM_001302963.1 → NP_001289892.1  tRNA wybutosine-synthesizing protein 5 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks an alternate internal exon, uses an alternate in-frame splice site in the 5' coding region, and uses an in-frame downstream start codon compared to variant 4. The resulting protein (isoform 5) is shorter than isoform 4.
      Source sequence(s)
      AC161493, BC099495, BC144765
      Conserved Domains (1) summary
      cl21464
      Location:13 → 115
      cupin_like; Conserved domain found in cupin and related proteins

    4. NM_001302964.1 → NP_001289893.1  tRNA wybutosine-synthesizing protein 5 isoform 3

      See identical proteins and their annotated locations for NP_001289893.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate internal exon and uses an in-frame downstream start codon compared to variant 4. The resulting protein (isoform 3) has a shorter N-terminus than isoform 4.
      Source sequence(s)
      AC161493, BC099495, BC144766
      Conserved Domains (1) summary
      pfam13621
      Location:13 → 120
      Cupin_8; Cupin-like 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_000067.7 Reference GRCm39 C57BL/6J

      Range
      57427394..57445833 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017322330.1 → XP_017177819.1  tRNA wybutosine-synthesizing protein 5 isoform X2

      Conserved Domains (1) summary
      pfam13621
      Location:26 → 162
      Cupin_8; Cupin-like domain

    2. XM_011238587.2 → XP_011236889.1  tRNA wybutosine-synthesizing protein 5 isoform X3

      See identical proteins and their annotated locations for XP_011236889.1

      Conserved Domains (1) summary
      pfam13621
      Location:13 → 120
      Cupin_8; Cupin-like domain

    3. XM_036153369.1 → XP_036009262.1  tRNA wybutosine-synthesizing protein 5 isoform X1

      Conserved Domains (1) summary
      pfam13621
      Location:37 → 183
      Cupin_8; Cupin-like domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001114102.1: Suppressed sequence

      Description
      NM_001114102.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A2RSX7.2 GenPept UniProtKB/Swiss-Prot:A2RSX7

    Gene LinkOut

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

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