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    LOC4340093 palmitoyl-acyl carrier protein thioesterase, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340093, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4340093
    Gene description
    palmitoyl-acyl carrier protein thioesterase, chloroplastic
    Locus tag
    OSNPB_060143400
    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 roots before flowering (RPKM 61.2), leaves before flowering (RPKM 40.6) and 6 other tissues See more
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    Genomic context

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    See LOC4340093 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (2432320..2437072)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (2274694..2279492)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene probable 1-deoxy-D-xylulose-5-phosphate synthase, chloroplastic Neighboring gene superoxide dismutase [Fe] 2, chloroplastic-like Neighboring gene pentatricopeptide repeat-containing protein At4g02750 Neighboring gene pre-mRNA splicing factor SR-like 1 Neighboring gene probable sulfate transporter 3.4

    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 acyl carrier activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables fatty acyl-[ACP] hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in fatty acid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    palmitoyl-acyl carrier protein thioesterase, chloroplastic
    Names
    Os06g0143400
    P0535G04.36
    putative acyl-ACP thioesterase

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      2432320..2437072
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788934.3 → XP_015644420.1  palmitoyl-acyl carrier protein thioesterase, chloroplastic

      UniProtKB/TrEMBL
      A2Y957, A3B8B2, Q9SNP5
      Conserved Domains (1) summary
      PLN02370
      Location:1 → 427
      PLN02370; acyl-ACP thioesterase
    Nucleotide Protein
    Heading Accession and Version

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