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    top1a DNA topoisomerase Ia [ Danio rerio (zebrafish) ]

    Gene ID: 553496, updated on 9-Dec-2024

    Summary

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    Official Symbol
    top1aprovided by ZNC
    Official Full Name
    DNA topoisomerase Iaprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060616-217
    See related
    Ensembl:ENSDARG00000070545 AllianceGenome:ZFIN:ZDB-GENE-060616-217
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    top1l; wu:fc66a02; zgc:136349
    Summary
    Predicted to enable DNA topoisomerase type I (single strand cut, ATP-independent) activity. Predicted to be involved in DNA replication; DNA topological change; and chromosome segregation. Predicted to act upstream of or within rhythmic process. Predicted to be located in chromosome and nucleus. Predicted to be active in nucleolus. Orthologous to human TOP1 (DNA topoisomerase I). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See top1a in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (25296366..25311680)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (25058750..25074064)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene tumor protein p53 inducible nuclear protein 2 Neighboring gene cylindromatosis (turban tumor syndrome) 2 Neighboring gene zinc fingers and homeoboxes 3a Neighboring gene family with sequence similarity 83 member D

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Environmental acidification triggers oxidative stress and enhances globin expression in zebrafish gills. Tiedke J, et al. Biochem Biophys Res Commun, 2013 Nov 22. PMID 24177009
    2. Epigenetic Studies Point to DNA Replication/Repair Genes as a Basis for the Heritable Nature of Long Term Complications in Diabetes. Leontovich AA, et al. J Diabetes Res, 2016. PMID 26981540, Free PMC Article
    3. Chronic reduction in cardiac output induces hypoxic signaling in larval zebrafish even at a time when convective oxygen transport is not required. Kopp R, et al. Physiol Genomics, 2010 Sep. PMID 20571107
    4. Allele-specific gene expression can underlie altered transcript abundance in zebrafish mutants. White RJ, et al. Elife, 2022 Feb 17. PMID 35175196, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA topoisomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA topoisomerase type I (single strand cut, ATP-independent) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA topoisomerase type I (single strand cut, ATP-independent) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA replication IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in DNA topological change IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromosome segregation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within rhythmic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA topoisomerase I, like
    Names
    topoisomerase (DNA) I, like
    NP_001037789.1

    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_001044324.2 → NP_001037789.1  DNA topoisomerase I, like

      See identical proteins and their annotated locations for NP_001037789.1

      Status: VALIDATED

      Source sequence(s)
      BC050952, BC117588, CR548630
      UniProtKB/TrEMBL
      A0A8M1N957, Q1ED17
      Related
      ENSDARP00000065948.6, ENSDART00000065949.8
      Conserved Domains (4) summary
      smart00435
      Location:353 → 730
      TOPEUc; DNA Topoisomerase I (eukaryota)
      pfam01028
      Location:425 → 628
      Topoisom_I; Eukaryotic DNA topoisomerase I, catalytic core
      pfam02919
      Location:208 → 422
      Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment
      pfam14370
      Location:688 → 756
      Topo_C_assoc; C-terminal topoisomerase domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007122.7 Reference GRCz11 Primary Assembly

      Range
      25296366..25311680
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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