U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Tyw5 tRNA-yW synthesizing protein 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301419, updated on 9-Dec-2024

    Summary

    Official Symbol
    Tyw5provided by RGD
    Official Full Name
    tRNA-yW synthesizing protein 5provided by RGD
    Primary source
    RGD:1311269
    See related
    EnsemblRapid:ENSRNOG00000010100 AllianceGenome:RGD:1311269
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    C2orf60; RGD1311269
    Summary
    Predicted to enable several functions, including iron ion binding activity; protein homodimerization activity; and tRNA(Phe) (7-(3-amino-3-carboxypropyl)wyosine37-C2)-hydroxylase activity. Predicted to be involved in wybutosine biosynthetic process. Orthologous to human TYW5 (tRNA-yW synthesizing protein 5). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 61.1), Heart (RPKM 53.6) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Tyw5 in Genome Data Viewer
    Location:
    9q31
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (66455364..66473446, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (58961100..58979188, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (64077841..64096265, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094688 Neighboring gene uncharacterized LOC102549484 Neighboring gene similar to human chromosome 2 open reading frame 69 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene matrix AAA peptidase interacting protein 1 Neighboring gene ribosomal protein L6, pseudogene 7

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables iron ion binding  
    enables protein homodimerization activity  
    enables tRNA binding  
    enables tRNA binding  
    enables tRNA(Phe) (7-(3-amino-3-carboxypropyl)wyosine37-C2)-hydroxylase activity  
    enables tRNA(Phe) (7-(3-amino-3-carboxypropyl)wyosine37-C2)-hydroxylase activity  

    General protein information

    Preferred Names
    tRNA wybutosine-synthesizing protein 5
    NP_001163944.1
    XP_006244972.1
    XP_017451845.1
    XP_017451846.1
    XP_038939226.1
    XP_038939227.1
    XP_063123012.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001170473.1NP_001163944.1  tRNA wybutosine-synthesizing protein 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the protein-coding transcript.
      Source sequence(s)
      BC158619, CK845177, FM112098
      UniProtKB/TrEMBL
      D3ZY75
      Related
      ENSRNOP00000013502.6, ENSRNOT00000013502.8
      Conserved Domains (1) summary
      pfam13621
      Location:17264
      Cupin_8; Cupin-like domain

    RNA

    1. NR_033170.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate donor splice site at an internal exon compared to variant 1, which causes a frame-shift. It is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC158619, CK845177

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      66455364..66473446 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006244910.4XP_006244972.1  tRNA wybutosine-synthesizing protein 5 isoform X2

      Conserved Domains (1) summary
      pfam13621
      Location:17218
      Cupin_8; Cupin-like domain
    2. XM_039083298.2XP_038939226.1  tRNA wybutosine-synthesizing protein 5 isoform X4

      Conserved Domains (1) summary
      cl40423
      Location:15219
      cupin_RmlC-like; RmlC-like cupin superfamily
    3. XM_063266942.1XP_063123012.1  tRNA wybutosine-synthesizing protein 5 isoform X5

      UniProtKB/TrEMBL
      A6IP36
    4. XM_017596357.3XP_017451846.1  tRNA wybutosine-synthesizing protein 5 isoform X3

      Related
      ENSRNOP00000103536.1, ENSRNOT00000147066.1
    5. XM_017596356.3XP_017451845.1  tRNA wybutosine-synthesizing protein 5 isoform X1

      Related
      ENSRNOP00000099526.1, ENSRNOT00000153755.1
    6. XM_039083299.1XP_038939227.1  tRNA wybutosine-synthesizing protein 5 isoform X5

      UniProtKB/TrEMBL
      A6IP36
      Conserved Domains (1) summary
      cl40423
      Location:13120
      cupin_RmlC-like; RmlC-like cupin superfamily
    External link. Please review our privacy policy.