Mouse Gene Top2b (ENSMUST00000017629.11) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus topoisomerase (DNA) II beta (Top2b), mRNA. (from RefSeq NM_009409)
Gencode Transcript: ENSMUST00000017629.11
Gencode Gene: ENSMUSG00000017485.11
Transcript (Including UTRs)
   Position: mm10 chr14:16,365,179-16,435,462 Size: 70,284 Total Exon Count: 36 Strand: +
Coding Region
   Position: mm10 chr14:16,365,679-16,430,466 Size: 64,788 Coding Exon Count: 36 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:16,365,179-16,435,462)mRNA (may differ from genome)Protein (1612 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TOP2B_MOUSE
DESCRIPTION: RecName: Full=DNA topoisomerase 2-beta; EC=5.99.1.3; AltName: Full=DNA topoisomerase II, beta isozyme;
FUNCTION: Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks. Indirectly involved in vitamin D- coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR- mediated transrepression of the CYP27B1 gene (By similarity).
CATALYTIC ACTIVITY: ATP-dependent breakage, passage and rejoining of double-stranded DNA.
SUBUNIT: Homodimer. Component of the WINAC complex, at least composed of SMARCA2, SMARCA4, SMARCB1, SMARCC1, SMARCC2, SMARCD1, SMARCE1, ACTL6A, BAZ1B/WSTF, ARID1A, SUPT16H, CHAF1A and TOP2B (By similarity).
INTERACTION: Q9WVE0:Aicda; NbExp=3; IntAct=EBI-2325586, EBI-3835567;
SUBCELLULAR LOCATION: Nucleus, nucleolus.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR (By similarity).
MISCELLANEOUS: Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.
SIMILARITY: Belongs to the type II topoisomerase family.
SIMILARITY: Contains 1 Toprim domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -254.00500-0.508 Picture PostScript Text
3' UTR -1412.514996-0.283 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR024946 - Arg_repress_C-like
IPR003594 - ATPase-like_ATP-bd
IPR012542 - DTHCT
IPR020568 - Ribosomal_S5_D2-typ_fold
IPR014721 - Ribosomal_S5_D2-typ_fold_subgr
IPR001241 - Topo_IIA
IPR002205 - Topo_IIA_A/C
IPR013758 - Topo_IIA_A/C_ab
IPR013757 - Topo_IIA_A_a
IPR013759 - Topo_IIA_B/N_ab
IPR013506 - Topo_IIA_bsu_dom2
IPR013760 - Topo_IIA_cen
IPR018522 - TopoIIA_CS
IPR006171 - Toprim_domain

Pfam Domains:
PF00204 - DNA gyrase B
PF00521 - DNA gyrase/topoisomerase IV, subunit A
PF01751 - Toprim domain
PF02518 - Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
PF08070 - DTHCT (NUC029) region
PF16898 - C-terminal associated domain of TOPRIM

SCOP Domains:
55874 - ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
54211 - Ribosomal protein S5 domain 2-like
56719 - Type II DNA topoisomerase

ModBase Predicted Comparative 3D Structure on Q64511
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene Details    Gene Details
Gene Sorter    Gene Sorter
GenBankRGDEnsemblEnsembl SGD
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003916 DNA topoisomerase activity
GO:0003918 DNA topoisomerase type II (ATP-hydrolyzing) activity
GO:0005080 protein kinase C binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008022 protein C-terminus binding
GO:0016853 isomerase activity
GO:0019899 enzyme binding
GO:0042826 histone deacetylase binding
GO:0043021 ribonucleoprotein complex binding
GO:0046872 metal ion binding
GO:0046982 protein heterodimerization activity
GO:0061505 DNA topoisomerase II activity

Biological Process:
GO:0000712 resolution of meiotic recombination intermediates
GO:0000819 sister chromatid segregation
GO:0001764 neuron migration
GO:0006259 DNA metabolic process
GO:0006265 DNA topological change
GO:0007409 axonogenesis
GO:0007569 cell aging
GO:0030900 forebrain development
GO:0044774 mitotic DNA integrity checkpoint
GO:0070301 cellular response to hydrogen peroxide
GO:0071318 cellular response to ATP
GO:2001034 positive regulation of double-strand break repair via nonhomologous end joining

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005829 cytosol
GO:1990904 ribonucleoprotein complex
GO:0000792 heterochromatin
GO:0005694 chromosome


-  Descriptions from all associated GenBank mRNAs
  LF199767 - JP 2014500723-A/7270: Polycomb-Associated Non-Coding RNAs.
AK163043 - Mus musculus 0 day neonate thymus cDNA, RIKEN full-length enriched library, clone:A430094K17 product:topoisomerase (DNA) II beta, full insert sequence.
AK087535 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130314P12 product:topoisomerase (DNA) II beta, full insert sequence.
AK041054 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530071N24 product:topoisomerase (DNA) II beta, full insert sequence.
BC041106 - Mus musculus topoisomerase (DNA) II beta, mRNA (cDNA clone MGC:46944 IMAGE:5368508), complete cds.
BC054541 - Mus musculus topoisomerase (DNA) II beta, mRNA (cDNA clone MGC:62367 IMAGE:6406462), complete cds.
D38046 - Mus musculus mRNA for typeII DNA topoisomerase beta isoform, complete cds.
LF205003 - JP 2014500723-A/12506: Polycomb-Associated Non-Coding RNAs.
MA435344 - JP 2018138019-A/7270: Polycomb-Associated Non-Coding RNAs.
MA440580 - JP 2018138019-A/12506: Polycomb-Associated Non-Coding RNAs.
LF238624 - JP 2014500723-A/46127: Polycomb-Associated Non-Coding RNAs.
LF238630 - JP 2014500723-A/46133: Polycomb-Associated Non-Coding RNAs.
LF238631 - JP 2014500723-A/46134: Polycomb-Associated Non-Coding RNAs.
MA474201 - JP 2018138019-A/46127: Polycomb-Associated Non-Coding RNAs.
MA474207 - JP 2018138019-A/46133: Polycomb-Associated Non-Coding RNAs.
MA474208 - JP 2018138019-A/46134: Polycomb-Associated Non-Coding RNAs.
LF238634 - JP 2014500723-A/46137: Polycomb-Associated Non-Coding RNAs.
LF238635 - JP 2014500723-A/46138: Polycomb-Associated Non-Coding RNAs.
LF238636 - JP 2014500723-A/46139: Polycomb-Associated Non-Coding RNAs.
LF238640 - JP 2014500723-A/46143: Polycomb-Associated Non-Coding RNAs.
LF238643 - JP 2014500723-A/46146: Polycomb-Associated Non-Coding RNAs.
AK201978 - Mus musculus cDNA, clone:Y1G0139P22, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000017629, based on BLAT search.
LF238644 - JP 2014500723-A/46147: Polycomb-Associated Non-Coding RNAs.
LF238645 - JP 2014500723-A/46148: Polycomb-Associated Non-Coding RNAs.
AK194939 - Mus musculus cDNA, clone:Y1G0116O03, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000017629, based on BLAT search.
AK194992 - Mus musculus cDNA, clone:Y1G0117A20, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000017629, based on BLAT search.
LF238649 - JP 2014500723-A/46152: Polycomb-Associated Non-Coding RNAs.
LF238650 - JP 2014500723-A/46153: Polycomb-Associated Non-Coding RNAs.
LF238651 - JP 2014500723-A/46154: Polycomb-Associated Non-Coding RNAs.
LF238652 - JP 2014500723-A/46155: Polycomb-Associated Non-Coding RNAs.
LF238653 - JP 2014500723-A/46156: Polycomb-Associated Non-Coding RNAs.
LF238654 - JP 2014500723-A/46157: Polycomb-Associated Non-Coding RNAs.
LF238655 - JP 2014500723-A/46158: Polycomb-Associated Non-Coding RNAs.
LF238656 - JP 2014500723-A/46159: Polycomb-Associated Non-Coding RNAs.
LF238657 - JP 2014500723-A/46160: Polycomb-Associated Non-Coding RNAs.
AK051348 - Mus musculus 12 days embryo spinal ganglion cDNA, RIKEN full-length enriched library, clone:D130037P06 product:unclassifiable, full insert sequence.
AK051896 - Mus musculus 12 days embryo eyeball cDNA, RIKEN full-length enriched library, clone:D230016L12 product:unclassifiable, full insert sequence.
AK052306 - Mus musculus 13 days embryo heart cDNA, RIKEN full-length enriched library, clone:D330024O17 product:retinoic acid receptor, beta, full insert sequence.
LF238659 - JP 2014500723-A/46162: Polycomb-Associated Non-Coding RNAs.
AK140978 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130088J05 product:unclassifiable, full insert sequence.
MA474211 - JP 2018138019-A/46137: Polycomb-Associated Non-Coding RNAs.
MA474212 - JP 2018138019-A/46138: Polycomb-Associated Non-Coding RNAs.
MA474213 - JP 2018138019-A/46139: Polycomb-Associated Non-Coding RNAs.
MA474217 - JP 2018138019-A/46143: Polycomb-Associated Non-Coding RNAs.
MA474220 - JP 2018138019-A/46146: Polycomb-Associated Non-Coding RNAs.
MA474221 - JP 2018138019-A/46147: Polycomb-Associated Non-Coding RNAs.
MA474222 - JP 2018138019-A/46148: Polycomb-Associated Non-Coding RNAs.
MA474226 - JP 2018138019-A/46152: Polycomb-Associated Non-Coding RNAs.
MA474227 - JP 2018138019-A/46153: Polycomb-Associated Non-Coding RNAs.
MA474228 - JP 2018138019-A/46154: Polycomb-Associated Non-Coding RNAs.
MA474229 - JP 2018138019-A/46155: Polycomb-Associated Non-Coding RNAs.
MA474230 - JP 2018138019-A/46156: Polycomb-Associated Non-Coding RNAs.
MA474231 - JP 2018138019-A/46157: Polycomb-Associated Non-Coding RNAs.
MA474232 - JP 2018138019-A/46158: Polycomb-Associated Non-Coding RNAs.
MA474233 - JP 2018138019-A/46159: Polycomb-Associated Non-Coding RNAs.
MA474234 - JP 2018138019-A/46160: Polycomb-Associated Non-Coding RNAs.
MA474236 - JP 2018138019-A/46162: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
m_DNAfragmentPathway - Apoptotic DNA fragmentation and tissue homeostasis
m_vdrPathway - Control of Gene Expression by Vitamin D Receptor

Reactome (by CSHL, EBI, and GO)

Protein Q64511 (Reactome details) participates in the following event(s):

R-MMU-4641345 SUMOylation of TOP2B with SUMO1
R-MMU-4615885 SUMOylation of DNA replication proteins
R-MMU-3108232 SUMO E3 ligases SUMOylate target proteins
R-MMU-2990846 SUMOylation
R-MMU-597592 Post-translational protein modification
R-MMU-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: NM_009409, Q64511, Q7TQG4, TOP2B_MOUSE, uc007shc.1, uc007shc.2
UCSC ID: uc007shc.2
RefSeq Accession: NM_009409
Protein: Q64511 (aka TOP2B_MOUSE)
CCDS: CCDS26833.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.