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    LOC4329352 uncharacterized LOC4329352 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329352, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4329352
    Gene description
    uncharacterized LOC4329352
    Locus tag
    OSNPB_020474300
    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
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    Genomic context

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    See LOC4329352 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (16622688..16639001)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (16163635..16180259)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107280087 Neighboring gene F-box only protein 8 Neighboring gene importin beta-like SAD2 Neighboring gene uncharacterized LOC136355470

    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 topological change IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    uncharacterized protein LOC4329352
    Names
    DNA topoisomerase 1

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      16622688..16639001
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771682.3 → XP_015627168.1  uncharacterized protein LOC4329352 isoform X2

      UniProtKB/TrEMBL
      B9EZZ0
      Conserved Domains (5) summary
      cd03363
      Location:282 → 409
      TOPRIM_TopoIA_TopoI; TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the ...
      PRK06599
      Location:281 → 978
      PRK06599; DNA topoisomerase I; Validated
      cd00186
      Location:414 → 863
      TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
      pfam01396
      Location:896 → 930
      zf-C4_Topoisom; Topoisomerase DNA binding C4 zinc finger
      pfam13368
      Location:960 → 1019
      Toprim_C_rpt; Topoisomerase C-terminal repeat

    2. XM_015771680.3 → XP_015627166.1  uncharacterized protein LOC4329352 isoform X1

      UniProtKB/TrEMBL
      B9EZZ0
      Conserved Domains (5) summary
      cd03363
      Location:282 → 409
      TOPRIM_TopoIA_TopoI; TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the ...
      PRK06599
      Location:281 → 978
      PRK06599; DNA topoisomerase I; Validated
      cd00186
      Location:414 → 863
      TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
      pfam01396
      Location:896 → 930
      zf-C4_Topoisom; Topoisomerase DNA binding C4 zinc finger
      pfam13368
      Location:960 → 1019
      Toprim_C_rpt; Topoisomerase C-terminal repeat
    Nucleotide Protein
    Heading Accession and Version

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