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    LOC4324565 peptide deformylase 1A, chloroplastic-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324565, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4324565
    Gene description
    peptide deformylase 1A, chloroplastic-like
    Locus tag
    OSNPB_010555800
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    PDF1A; OsPDF1A; OsJ_02204; OsJ_002139
    Expression
    Broad expression in flowers (RPKM 6.3), flower buds (RPKM 5.5) and 5 other tissues See more
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    Genomic context

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    See LOC4324565 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (21524007..21525646, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (20954027..20955679, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4324562 Neighboring gene uncharacterized LOC107279849 Neighboring gene uncharacterized LOC4324564 Neighboring gene chaperone protein dnaJ 49 Neighboring gene uncharacterized LOC112937657

    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. Rice peptide deformylase PDF1B is crucial for development of chloroplasts. Moon S, et al. Plant Cell Physiol, 2008 Oct. PMID 18718933
    2. 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 peptide deformylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in peptidyl-methionine modification IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    peptide deformylase 1A, chloroplastic
    Names
    LOC_Os01g37510
    PDF 1A
    NP_001415066.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001428137.1 → NP_001415066.1  peptide deformylase 1A, chloroplastic

      Status: VALIDATED

      Source sequence(s)
      AK062551, AP014957, EU213045
      UniProtKB/Swiss-Prot
      A2ZUB7, B6RGY0, B9EXI6, Q0JLZ1

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      21524007..21525646 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B6RGY0.1 GenPept UniProtKB/Swiss-Prot:B6RGY0

    Gene LinkOut

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