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    LOC4327816 E3 ubiquitin-protein ligase listerin [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327816, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4327816
    Gene description
    E3 ubiquitin-protein ligase listerin
    Locus tag
    OSNPB_010977600
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in roots after flowering (RPKM 23.8), flower buds (RPKM 18.8) and 6 other tissues See more
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    Genomic context

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    See LOC4327816 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (43856103..43868755, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (43202488..43215263, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene pentatricopeptide repeat-containing protein At3g16610 Neighboring gene transfer RNA lysine (anticodon CUU) Neighboring gene ABC transporter B family member 20 Neighboring gene mitochondrial uncoupling protein 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ribosomal large subunit binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in rescue of stalled ribosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RQC complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase listerin
    Names
    Os01g0977600
    P0020E09.22-1
    zinc finger protein-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      43856103..43868755 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015757213.3 → XP_015612699.1  E3 ubiquitin-protein ligase listerin

      UniProtKB/TrEMBL
      A0A0P0VDT2, B9EX16, Q5JNB3
      Conserved Domains (1) summary
      COG5219
      Location:1718 → 1921
      COG5219; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
    Nucleotide Protein
    Heading Accession and Version

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