U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    si:dkey-19e4.5 si:dkey-19e4.5 [ Danio rerio (zebrafish) ]

    Gene ID: 570260, updated on 27-Mar-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    si:dkey-19e4.5provided by ZNC
    Official Full Name
    si:dkey-19e4.5provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-1852
    See related
    Ensembl:ENSDARG00000089886 AllianceGenome:ZFIN:ZDB-GENE-030131-1852
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fb82g02; wu:fb82g02
    Summary
    Predicted to enable aminoacyl-tRNA hydrolase activity. Predicted to be active in cytosol and mitochondrion. [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See si:dkey-19e4.5 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (21861087..21873266, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (19800865..19813044, complement)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene LHFPL tetraspan subfamily member 4a Neighboring gene SET domain containing 5 Neighboring gene plexin b1b Neighboring gene THUMP domain containing 3

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables aminoacyl-tRNA hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables aminoacyl-tRNA hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    UBA_like_SF and PTH2 domain-containing protein
    NP_001313497.1
    NP_001313498.1
    NP_001313500.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001326568.1 → NP_001313497.1  UBA_like_SF and PTH2 domain-containing protein isoform 1

      Status: VALIDATED

      Source sequence(s)
      BX005430, EH436131
      UniProtKB/TrEMBL
      A0A8M1P2U1, I3ITK3
      Related
      ENSDARP00000126273.2, ENSDART00000151179.2

    2. NM_001326569.1 → NP_001313498.1  UBA_like_SF and PTH2 domain-containing protein isoform 2

      Status: VALIDATED

      Source sequence(s)
      BX005430, EH446616
      UniProtKB/TrEMBL
      A0A8M1P942, E7F4Q9
      Related
      ENSDARP00000125974.1, ENSDART00000151658.3
      Conserved Domains (2) summary
      cd02430
      Location:60 → 175
      PTH2; Peptidyl-tRNA hydrolase, type 2 (PTH2). Peptidyl-tRNA hydrolase (PTH) activity releases tRNA from the premature translation termination product peptidyl-tRNA, therefore allowing the tRNA and peptide to be reused in protein synthesis. PTH2 is present in ...
      cl21463
      Location:11 → 45
      UBA_like_SF; UBA domain-like superfamily

    3. NM_001326571.1 → NP_001313500.1  UBA_like_SF and PTH2 domain-containing protein isoform 3

      Status: VALIDATED

      Source sequence(s)
      BX005430, EH432166, EH437276
      UniProtKB/TrEMBL
      A0A8M1P3H7, I3IT77
      Related
      ENSDARP00000126135.2, ENSDART00000151152.3

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      21861087..21873266 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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