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    LOC4334546 probable DNA gyrase subunit A, chloroplastic/mitochondrial [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334546, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4334546
    Gene description
    probable DNA gyrase subunit A, chloroplastic/mitochondrial
    Locus tag
    OSNPB_030812000
    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
    GYRA
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 28.7), flower buds (RPKM 25.6) and 6 other tissues See more
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    Genomic context

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    See LOC4334546 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (34983786..34997638, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (34010841..34024735, complement)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4334544 Neighboring gene ADP-ribosylation factor 1-like Neighboring gene U6 spliceosomal RNA Neighboring gene E3 ubiquitin-protein ligase SIRP1-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
    • 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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable DNA gyrase subunit A, chloroplastic/mitochondrial
    Names
    LOC_Os03g59750
    OSJNBa0024F18.37
    OSJNBb0033J23.17
    NP_001405824.1
    XP_015632956.1

    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_001418895.1 → NP_001405824.1  probable DNA gyrase subunit A, chloroplastic/mitochondrial

      Status: VALIDATED

      Source sequence(s)
      AK059281, AP014959
      UniProtKB/Swiss-Prot
      Q75HI0, Q7XZF7

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      34983786..34997638 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777470.3 → XP_015632956.1  probable DNA gyrase subunit A, chloroplastic/mitochondrial isoform X1

      UniProtKB/Swiss-Prot
      Q75HI0, Q7XZF7
      Conserved Domains (2) summary
      PRK05560
      Location:80 → 908
      PRK05560; DNA gyrase subunit A; Validated
      sd00041
      Location:588 → 631
      GyrA-ParC_C; GyrA_CTD repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7XZF7.2 GenPept UniProtKB/Swiss-Prot:Q7XZF7

    Gene LinkOut

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