U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Top3b DNA topoisomerase III beta [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287930, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Top3bprovided by RGD
    Official Full Name
    DNA topoisomerase III betaprovided by RGD
    Primary source
    RGD:1309468
    See related
    EnsemblRapid:ENSRNOG00000001845 AllianceGenome:RGD:1309468
    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 and RNA topoisomerase activity. Predicted to be involved in DNA recombination; DNA repair; and DNA topological change. Predicted to act upstream of or within chromosome segregation. Predicted to be located in condensed chromosome. Predicted to be part of DNA topoisomerase III-beta-TDRD3 complex. Predicted to be active in nucleus. Orthologous to human TOP3B (DNA topoisomerase III beta). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 112.2), Kidney (RPKM 94.5) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Top3b in Genome Data Viewer
    Location:
    11q23
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (97601223..97629678, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (84097018..84125474, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (88346305..88374896, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene mitogen activated protein kinase 1 Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent, 1F Neighboring gene CCHC-type zinc finger, nucleic acid binding protein, pseudogene 1 Neighboring gene V-set pre-B cell surrogate light chain 1A

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Infertility and aneuploidy in mice lacking a type IA DNA topoisomerase III beta. Kwan KY, et al. Proc Natl Acad Sci U S A, 2003 Mar 4. PMID 12591952, Free PMC Article
    2. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
    3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    5. 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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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 RNA topoisomerase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in DNA repair 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 chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of DNA topoisomerase III-beta-TDRD3 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    DNA topoisomerase 3-beta-1
    Names
    topoisomerase (DNA) III beta
    NP_001099331.1
    XP_006248733.1
    XP_006248735.1
    XP_017453382.1
    XP_017453383.1
    XP_017453384.1
    XP_017453385.1
    XP_017453386.1
    XP_017453387.1
    XP_017453388.1
    XP_017453389.1
    XP_038943988.1
    XP_038943989.1
    XP_038943991.1
    XP_063126389.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001105861.1 → NP_001099331.1  DNA topoisomerase 3-beta-1

      See identical proteins and their annotated locations for NP_001099331.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473999
      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Related
      ENSRNOP00000002524.5, ENSRNOT00000002524.7
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    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_086029.1 Reference GRCr8

      Range
      97601223..97629678 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006248671.5 → XP_006248733.1  DNA topoisomerase 3-beta-1 isoform X1

      See identical proteins and their annotated locations for XP_006248733.1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    2. XM_017597900.3 → XP_017453389.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    3. XM_017597893.3 → XP_017453382.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    4. XM_017597894.3 → XP_017453383.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    5. XM_017597895.3 → XP_017453384.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    6. XM_017597897.3 → XP_017453386.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    7. XM_039088061.2 → XP_038943989.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    8. XM_039088060.2 → XP_038943988.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    9. XM_017597896.3 → XP_017453385.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    10. XM_017597898.3 → XP_017453387.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    11. XM_017597899.3 → XP_017453388.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    12. XM_006248673.5 → XP_006248735.1  DNA topoisomerase 3-beta-1 isoform X1

      See identical proteins and their annotated locations for XP_006248735.1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2
      Conserved Domains (2) summary
      cd03362
      Location:3 → 167
      TOPRIM_TopoIA_TopoIII; The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA ...
      pfam01131
      Location:169 → 582
      Topoisom_bac; DNA topoisomerase

    13. XM_063270319.1 → XP_063126389.1  DNA topoisomerase 3-beta-1 isoform X1

      UniProtKB/TrEMBL
      A6JSP3, D4A9Z2

    14. XM_039088063.2 → XP_038943991.1  DNA topoisomerase 3-beta-1 isoform X2

      Conserved Domains (1) summary
      cl30544
      Location:29 → 163
      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 ...

    RNA

    1. XR_005490986.2 RNA Sequence

    2. XR_005490987.2 RNA Sequence

    3. XR_005490988.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools