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    LOC4339896 pentatricopeptide repeat-containing protein At1g11290, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339896, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4339896
    Gene description
    pentatricopeptide repeat-containing protein At1g11290, chloroplastic
    Locus tag
    OSNPB_060112000
    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 leaves before flowering (RPKM 6.0), flower buds (RPKM 3.2) and 6 other tissues See more
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    Genomic context

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    See LOC4339896 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (832336..835215)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (676132..678880)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4339894 Neighboring gene cellulose synthase-like protein D2 Neighboring gene bark storage protein A Neighboring gene 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase 2 Neighboring gene B3 domain-containing protein Os06g0112300-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 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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding 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 RNA modification IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    pentatricopeptide repeat-containing protein At1g11290, chloroplastic
    Names
    Os06g0112000
    P0029D06.20
    pentatricopeptide (PPR) repeat-containing 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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      832336..835215
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788365.3 → XP_015643851.1  pentatricopeptide repeat-containing protein At1g11290, chloroplastic

      UniProtKB/TrEMBL
      A0A0P0WRL2, A3B7P3, Q9LHZ4
      Conserved Domains (2) summary
      PLN03077
      Location:43 → 732
      PLN03077; Protein ECB2; Provisional
      sd00004
      Location:431 → 458
      PPR; PPR repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version

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