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    LOC9272228 leucine--tRNA ligase, cytoplasmic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9272228, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC9272228
    Gene description
    leucine--tRNA ligase, cytoplasmic
    Locus tag
    OSNPB_050241100
    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
    Broad expression in leaves before flowering (RPKM 2.7), roots before flowering (RPKM 2.2) and 6 other tissues See more
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    Genomic context

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    See LOC9272228 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (8624972..8630932)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (8590560..8597040)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC9267948 Neighboring gene WPP domain-interacting tail-anchored protein 1 Neighboring gene triose phosphate/phosphate translocator TPT, chloroplastic-like Neighboring gene E3 ubiquitin-protein ligase EL5-like

    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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables aminoacyl-tRNA editing activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables leucine-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in leucyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    leucine--tRNA ligase, cytoplasmic

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      8624972..8630932
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782130.3 → XP_015637616.1  leucine--tRNA ligase, cytoplasmic

      UniProtKB/TrEMBL
      B7F5U8, Q60EU9
      Conserved Domains (2) summary
      cl00015
      Location:169 → 414
      nt_trans; nucleotidyl transferase superfamily
      cl12020
      Location:413 → 467
      Anticodon_Ia_like; Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains
    Nucleotide Protein
    Heading Accession and Version

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