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    LOC4344685 DNA topoisomerase 1 beta [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344685, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4344685
    Gene description
    DNA topoisomerase 1 beta
    Locus tag
    OSNPB_080154600
    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
    Also known as
    OJ1066_B03.125
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    Genomic context

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    See LOC4344685 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (3150548..3156567)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (3136760..3142892)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene monocopper oxidase-like protein SKU5 Neighboring gene uncharacterized LOC4344683 Neighboring gene sm-like protein LSM2 Neighboring gene small nucleolar RNA snoR134 Neighboring gene oxysterol-binding protein-related protein 2A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    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
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, 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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA topoisomerase type I (single strand cut, ATP-independent) activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in chromosome segregation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA topoisomerase 1 beta
    Names
    Os08g0154600
    putative DNA topoisomerase I

    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      3150548..3156567
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      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794626.3 → XP_015650112.1  DNA topoisomerase 1 beta

      UniProtKB/TrEMBL
      A2YRB7, B9FZ48, Q84ZL5
      Conserved Domains (2) summary
      smart00435
      Location:513 → 889
      TOPEUc; DNA Topoisomerase I (eukaryota)
      cd03489
      Location:373 → 585
      Topoisomer_IB_N_LdtopoI_like; N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes ...
    Nucleotide Protein
    Heading Accession and Version

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