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    Top1mt DNA topoisomerase I mitochondrial [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300029, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Top1mtprovided by RGD
    Official Full Name
    DNA topoisomerase I mitochondrialprovided by RGD
    Primary source
    RGD:1303177
    See related
    EnsemblRapid:ENSRNOG00000007500 AllianceGenome:RGD:1303177
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA topoisomerase type I (single strand cut, ATP-independent) activity. Predicted to be involved in DNA replication and DNA topological change. Predicted to be located in mitochondrion and nucleoplasm. Predicted to be active in mitochondrial nucleoid. Orthologous to human TOP1MT (DNA topoisomerase I mitochondrial). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 46.2), Testes (RPKM 42.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Top1mt in Genome Data Viewer
    Location:
    7q34
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (109223269..109248855, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (107338092..107368125, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (116688801..116714421, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 41 Neighboring gene GLI family zinc finger 4 Neighboring gene uncharacterized LOC134479926 Neighboring gene rhophilin, Rho GTPase binding protein 1 Neighboring gene U6 spliceosomal RNA

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Thirteen-exon-motif signature for vertebrate nuclear and mitochondrial type IB topoisomerases. Zhang H, et al. Nucleic Acids Res, 2004. PMID 15096574, Free PMC Article
    2. The layered structure of human mitochondrial DNA nucleoids. Bogenhagen DF, et al. J Biol Chem, 2008 Feb 8. PMID 18063578
    3. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding 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
    		  
    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
    		  
    involved_in DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in mitochondrial nucleoid IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrial nucleoid ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA topoisomerase I, mitochondrial
    Names
    DNA topoisomerase 1, mitochondrial
    mitochondrial topoisomerase I
    topoisomerase (DNA) I, mitochondrial
    NP_001002798.1
    XP_006241846.1
    XP_017450252.1
    XP_038934735.1
    XP_063119342.1

    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_001002798.1 → NP_001002798.1  DNA topoisomerase I, mitochondrial

      See identical proteins and their annotated locations for NP_001002798.1

      Status: PROVISIONAL

      Source sequence(s)
      BK001786
      UniProtKB/Swiss-Prot
      Q6IM78
      UniProtKB/TrEMBL
      A0A8I6ADZ0, A6HS14
      Related
      ENSRNOP00000105400.1, ENSRNOT00000155631.1
      Conserved Domains (4) summary
      smart00435
      Location:189 → 565
      TOPEUc; DNA Topoisomerase I (eukaryota)
      pfam01028
      Location:261 → 464
      Topoisom_I; Eukaryotic DNA topoisomerase I, catalytic core
      pfam02919
      Location:44 → 258
      Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment
      pfam14370
      Location:523 → 591
      Topo_C_assoc; C-terminal topoisomerase domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      109223269..109248855 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039078807.2 → XP_038934735.1  DNA topoisomerase I, mitochondrial isoform X2

      UniProtKB/TrEMBL
      A0A8I6ADZ0
      Conserved Domains (2) summary
      smart00435
      Location:98 → 474
      TOPEUc; DNA Topoisomerase I (eukaryota)
      pfam02919
      Location:1 → 167
      Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment

    2. XM_017594763.3 → XP_017450252.1  DNA topoisomerase I, mitochondrial isoform X2

      UniProtKB/TrEMBL
      A0A8I6ADZ0
      Conserved Domains (2) summary
      smart00435
      Location:98 → 474
      TOPEUc; DNA Topoisomerase I (eukaryota)
      pfam02919
      Location:1 → 167
      Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment

    3. XM_006241784.5 → XP_006241846.1  DNA topoisomerase I, mitochondrial isoform X1

      UniProtKB/TrEMBL
      A0A0G2JWV0, A0A8I6ADZ0
      Related
      ENSRNOP00000070025.2, ENSRNOT00000088064.3
      Conserved Domains (4) summary
      smart00435
      Location:166 → 542
      TOPEUc; DNA Topoisomerase I (eukaryota)
      pfam01028
      Location:238 → 441
      Topoisom_I; Eukaryotic DNA topoisomerase I, catalytic core
      pfam02919
      Location:21 → 235
      Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment
      pfam14370
      Location:500 → 568
      Topo_C_assoc; C-terminal topoisomerase domain

    4. XM_063263272.1 → XP_063119342.1  DNA topoisomerase I, mitochondrial isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6IM78.1 GenPept UniProtKB/Swiss-Prot:Q6IM78

    Gene LinkOut

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