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    LOC4352435 tryptophan--tRNA ligase, cytoplasmic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4352435, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4352435
    Gene description
    tryptophan--tRNA ligase, cytoplasmic
    Locus tag
    OSNPB_120540900
    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 flower buds (RPKM 40.6), mature seeds (RPKM 37.0) and 6 other tissues See more
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    Genomic context

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    See LOC4352435 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 12 NC_089046.1 (22312209..22316415, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 12 NC_029267.1 (21625453..21629702, complement)

    Chromosome 12 - NC_089046.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4352433 Neighboring gene acyl-CoA-binding domain-containing protein 6-like Neighboring gene riboflavin synthase Neighboring gene transfer RNA glycine (anticodon CCC)

    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 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 tryptophan-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in tryptophanyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tryptophan--tRNA ligase, cytoplasmic
    Names
    Os12g0540900

    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_089046.1 Reference ASM3414082v1 Primary Assembly

      Range
      22312209..22316415 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015764760.2 → XP_015620246.1  tryptophan--tRNA ligase, cytoplasmic

      UniProtKB/TrEMBL
      A2ZLB6, A3CI51, Q0IMU5, Q2QP62
      Conserved Domains (1) summary
      PLN02486
      Location:23 → 404
      PLN02486; aminoacyl-tRNA ligase
    Nucleotide Protein
    Heading Accession and Version

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