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    LOC4349253 putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4349253, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4349253
    Gene description
    putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial
    Locus tag
    OSNPB_100540100
    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 11.9), leaves after flowering (RPKM 6.3) and 6 other tissues See more
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    Genomic context

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    See LOC4349253 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 10 NC_089044.1 (21747068..21753599, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 10 NC_029265.1 (21058215..21061329, complement)

    Chromosome 10 - NC_089044.1Genomic Context describing neighboring genes Neighboring gene protein PLASTID MOVEMENT IMPAIRED 1 Neighboring gene monosaccharide-sensing protein 2 Neighboring gene RING-H2 finger protein ATL80 Neighboring gene uncharacterized LOC4349254 Neighboring gene uncharacterized LOC9270734 Neighboring gene uncharacterized LOC4349255

    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial
    Names
    Os10g0540100

    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_089044.1 Reference ASM3414082v1 Primary Assembly

      Range
      21747068..21753599 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066304977.1 → XP_066161074.1  putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial

      UniProtKB/TrEMBL
      A3C6X6, Q336W7

    2. XM_015758310.2 → XP_015613796.1  putative pentatricopeptide repeat-containing protein At3g25060, mitochondrial

      UniProtKB/TrEMBL
      A2Z9T6, A3C6X6, Q336W7
      Conserved Domains (2) summary
      PLN03077
      Location:97 → 679
      PLN03077; Protein ECB2; Provisional
      sd00004
      Location:378 → 404
      PPR; PPR repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version

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