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    LOC4346498 D-aminoacyl-tRNA deacylase [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4346498, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4346498
    Gene description
    D-aminoacyl-tRNA deacylase
    Locus tag
    OSNPB_090248000
    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
    Also known as
    OJ1451_A02.32-1; OJ1451_A02.32-2
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 24.2), roots after flowering (RPKM 17.6) and 6 other tissues See more
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    Genomic context

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    See LOC4346498 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (7966383..7979445)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (3620061..3633175)

    Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene GDSL esterase/lipase At2g42990 Neighboring gene auxin transport protein BIG-like Neighboring gene fasciclin-like arabinogalactan protein 2 Neighboring gene FRIGIDA-like protein 3

    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
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables D-aminoacyl-tRNA deacylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in D-amino acid catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    D-aminoacyl-tRNA deacylase
    Names
    GEKO1-like protein
    Os09g0248000
    P0499G10.13-1
    P0499G10.13-2

    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_089043.1 Reference ASM3414082v1 Primary Assembly

      Range
      7966383..7979445
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756545.3 → XP_015612031.1  D-aminoacyl-tRNA deacylase

      UniProtKB/TrEMBL
      Q6K4F9
      Conserved Domains (1) summary
      pfam04414
      Location:69 → 308
      tRNA_deacylase; D-aminoacyl-tRNA deacylase

    RNA

    1. XR_010735045.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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