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    ltn1 listerin E3 ubiquitin protein ligase 1 [ Danio rerio (zebrafish) ]

    Gene ID: 100000122, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ltn1provided by ZNC
    Official Full Name
    listerin E3 ubiquitin protein ligase 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-091204-127
    See related
    Ensembl:ENSDARG00000003984 AllianceGenome:ZFIN:ZDB-GENE-091204-127
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:dkey-175g6.5
    Summary
    Predicted to enable ribosomal large subunit binding activity and ubiquitin protein ligase activity. Predicted to be involved in rescue of stalled ribosome and ribosome-associated ubiquitin-dependent protein catabolic process. Predicted to be located in cytoplasm. Predicted to be part of RQC complex. Predicted to be active in cytosol. Orthologous to human LTN1 (listerin E3 ubiquitin protein ligase 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ltn1 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (23099883..23138730)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (23130423..23169278)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 25 member 1a Neighboring gene notchless homolog 1 (Drosophila) Neighboring gene cell adhesion molecule 2a Neighboring gene si:ch73-122g19.1 Neighboring gene CD209 antigen-like protein A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Efficient genome-wide mutagenesis of zebrafish genes by retroviral insertions. Wang D, et al. Proc Natl Acad Sci U S A, 2007 Jul 24. PMID 17640903, Free PMC Article
    2. Functional characterization of zebrafish orthologs of the human Beta 3-Glucosyltransferase B3GLCT gene mutated in Peters Plus Syndrome. Weh E, et al. PLoS One, 2017. PMID 28926587, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ribosomal large subunit binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rescue of stalled ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ribosome-associated ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of RQC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RQC complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    RING finger protein 160; E3 ubiquitin-protein ligase listerin
    XP_001340400.3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007121.7 Reference GRCz11 Primary Assembly

      Range
      23099883..23138730
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_001340364.8 → XP_001340400.3  E3 ubiquitin-protein ligase listerin

      UniProtKB/TrEMBL
      A0A8M1Q1V9, E7F4K2
      Related
      ENSDARP00000013392.7, ENSDART00000022170.9
      Conserved Domains (1) summary
      cl17238
      Location:1699 → 1746
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    Nucleotide Protein
    Heading Accession and Version

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