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

Gene ID: 287930, updated on 18-Sep-2024

Summary

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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 activity. Predicted to be involved in DNA topological change. Predicted to act upstream of or within chromosome segregation. Predicted to be located in condensed chromosome. Predicted to be active in nucleus. Orthologous to human TOP3B (DNA topoisomerase III beta). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 112.2), Kidney (RPKM 94.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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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 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. 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

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Products Interactant Other Gene Complex Source Pubs Description

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 RNA topoisomerase activity IEA
Inferred from Electronic Annotation
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

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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)

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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_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

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