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    LOC4327960 DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327960, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4327960
    Gene description
    DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic
    Locus tag
    OSNPB_010800900
    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 flower buds (RPKM 11.9), flowers (RPKM 10.4) and 6 other tissues See more
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    Genomic context

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    See LOC4327960 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (34526101..34531325)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (33917383..33924617)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4327959 Neighboring gene probable F-box protein At5g04010 Neighboring gene DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic Neighboring gene uncharacterized LOC4327962

    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
    • 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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables double-stranded DNA 3'-5' DNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables phosphoric diester hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in base-excision repair IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic
    Names
    DNA-(apurinic or apyrimidinic site) lyase, chloroplastic
    Os01g0800900
    Os01g0801000
    P0003D09.13
    P0003D09.14
    P0691E06.45
    P0691E06.46
    putative DNA-(apurinic or apyrimidinic site) lyase (ARP)

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      34526101..34531325
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770176.3 → XP_015625662.1  DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic

      UniProtKB/TrEMBL
      A0A8J8Y9G5, B8AAW4, B9ETS1, Q0JIH7, Q5VQJ9
      Conserved Domains (3) summary
      cd09087
      Location:239 → 497
      Ape1-like_AP-endo; Human Ape1-like subfamily of the ExoIII family apurinic/apyrimidinic (AP) endonucleases
      PLN03124
      Location:29 → 175
      PLN03124; poly [ADP-ribose] polymerase; Provisional
      pfam02037
      Location:89 → 119
      SAP; SAP domain
    Nucleotide Protein
    Heading Accession and Version

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