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TOP3B Gene

protein-coding   GIFtS: 61
GCID: GC22M022309

Topoisomerase (DNA) III Beta

  See TOP3B-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Topoisomerase (DNA) III Beta1 2
TOP3B12 3
DNA Topoisomerase III Beta-12 3
DNA Topoisomerase 3-Beta-12
Topoisomerase III Beta2
EC 5.99.1.23

External Ids:    HGNC: 119931   Entrez Gene: 89402   Ensembl: ENSG000001000387   OMIM: 6035825   UniProtKB: O959853   

Export aliases for TOP3B gene to outside databases

Previous GC identifers: GC22M019010 GC22M020635 GC22M021075 GC22M005268


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for TOP3B Gene:
This gene encodes a DNA topoisomerase, an enzyme that controls and alters the topologic states of DNA during
transcription. This enzyme catalyzes the transient breaking and rejoining of a single strand of DNA which allows
the strands to pass through one another, thus relaxing the supercoils and altering the topology of DNA. The
enzyme interacts with DNA helicase SGS1 and plays a role in DNA recombination, cellular aging and maintenance of
genome stability. Low expression of this gene may be related to higher survival rates in breast cancer patients.
This gene has a pseudogene on chromosome 22. Alternate splicing results in multiple transcript variants.
Additional alternatively spliced transcript variants of this gene have been described, but their full-length
nature is not known. (provided by RefSeq, Aug 2013)

GeneCards Summary for TOP3B Gene:
TOP3B (topoisomerase (DNA) III beta) is a protein-coding gene. Diseases associated with TOP3B include breast cancer. GO annotations related to this gene include DNA topoisomerase activity and DNA topoisomerase type I activity. An important paralog of this gene is TOP3A.

UniProtKB/Swiss-Prot: TOP3B_HUMAN, O95985
Function: Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and
transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand
break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the
catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and
the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus
removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to
expel the active-site tyrosine and restore the DNA phosphodiester backbone (By similarity). Possesses negatively
supercoiled DNA relaxing activity

Gene Wiki entry for TOP3B Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000022.10  NT_011520.13  NC_018933.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TOP3B gene promoter:
         Max1   USF1   Olf-1   STAT5A   Arnt   Evi-1   POU2F1   USF-1   POU2F1a   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTOP3B promoter sequence
   Search Chromatin IP Primers for TOP3B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TOP3B


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 22q11.22   Ensembl cytogenetic band:  22q11.22   HGNC cytogenetic band: 22q11.22

TOP3B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TOP3B gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M022309:  view genomic region     (about GC identifiers)

Start:
22,311,397 bp from pter      End:
22,337,213 bp from pter
Size:
25,817 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: TOP3B_HUMAN, O95985 (See protein sequence)
Recommended Name: DNA topoisomerase 3-beta-1  
Size: 862 amino acids; 96662 Da
Sequence caution: Sequence=BAA20009.1; Type=Erroneous gene model prediction;
Secondary accessions: A0M8Q3 Q9BUP5
Alternative splicing: 3 isoforms:  O95985-1   O95985-2   O95985-3   

Explore the universe of human proteins at neXtProt for TOP3B: NX_O95985

Explore proteomics data for TOP3B at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys19, Lys100
  • Modification sites at PhosphoSitePlus

  • See TOP3B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001269041.1  NP_001269042.1  NP_003926.1  

    ENSEMBL proteins: 
     ENSP00000349705   ENSP00000408282   ENSP00000397221   ENSP00000381773   ENSP00000392480  
     ENSP00000416451   ENSP00000390977   ENSP00000402622   ENSP00000414538   ENSP00000391857  
     ENSP00000404600   ENSP00000390209   ENSP00000387554   ENSP00000390824   ENSP00000393118  

    TOP3B Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    Browse OriGene Protein Over-expression Lysates
    OriGene Custom MassSpec
    OriGene Custom Protein Services for TOP3B
    GenScript Custom Purified and Recombinant Proteins Services for TOP3B
    Novus Biologicals TOP3B Protein
    Novus Biologicals TOP3B Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for TOP3B 

    TOP3B Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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    OriGene Antibodies for TOP3B
    OriGene Custom Antibody Services for TOP3B
    Novus Biologicals TOP3B Antibodies
    Abcam antibodies for TOP3B
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for TOP3B
    LSBio Antibodies in human, mouse, rat for TOP3B

    TOP3B Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for TOP3B
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.
    Search eBioscience for ELISAs for TOP3B 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    Selected InterPro protein domains (see all 9):
     IPR000380 Topo_IA
     IPR003601 Topo_IA_2
     IPR023406 Topo_IA_AS
     IPR003602 Topo_IA_DNA-bd
     IPR013497 Topo_IA_cen

    Graphical View of Domain Structure for InterPro Entry O95985

    ProtoNet protein and cluster: O95985

    2 Blocks protein domains:
    IPB000380 DNA topoisomerase I
    IPB006154 Toprim sub-domain


    UniProtKB/Swiss-Prot: TOP3B_HUMAN, O95985
    Similarity: Belongs to the type IA topoisomerase family
    Similarity: Contains 1 Toprim domain


    Find genes that share domains with TOP3B           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TOP3B_HUMAN, O95985
    Function: Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and
    transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand
    break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the
    catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and
    the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus
    removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to
    expel the active-site tyrosine and restore the DNA phosphodiester backbone (By similarity). Possesses negatively
    supercoiled DNA relaxing activity
    Catalytic activity: ATP-independent breakage of single-stranded DNA, followed by passage and rejoining

         Genatlas biochemistry entry for TOP3B:
    DNA topoisomerase III,highly expressed in testis,possessing negatively supercoiled DNA relaxing activity

         Enzyme Number (IUBMB): EC 5.99.1.21

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003916DNA topoisomerase activity TAS9786843
    GO:0003917DNA topoisomerase type I activity IEA--
    GO:0005524ATP binding IEA--
    GO:0044822poly(A) RNA binding IDA--
         
    Find genes that share ontologies with TOP3B           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for TOP3B:
     Increased cell number in G2M,  

         10 MGI mutant phenotypes (inferred from 1 allele(MGI details for Top3b):
     cellular  digestive/alimentary  endocrine/exocrine gland  hematopoietic system  immune system 
     integument  mortality/aging  renal/urinary system  reproductive system  respiratory system 

    Find genes that share phenotypes with TOP3B           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Top3btm1Jcw for TOP3B

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TOP3B
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for TOP3B

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TOP3B
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for TOP3B

    miRNA
    Products:
        
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    Search for qRT-PCR Assays for microRNAs that regulate TOP3B
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for TOP3B
    Predesigned siRNA for gene silencing in human, mouse, rat TOP3B

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for TOP3B

    Clone
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    OriGene clones in human, mouse for TOP3B (see all 7)
    OriGene ORF clones in mouse, rat for TOP3B
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: TOP3B (NM_003935)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TOP3B
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TOP3B

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for TOP3B 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TOP3B


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular2
    nucleus2
    cytosol1
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000793condensed chromosome IEA--
    GO:0005634nucleus IDA--
    GO:0005694chromosome ----

    Find genes that share ontologies with TOP3B           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for TOP3B About    
    See pathways by source

    SuperPathContained pathways About
    1Homologous recombination
    Homologous recombination0.40
    2Fanconi anemia pathway (KEGG)
    Fanconi anemia pathway


    Find genes that share SuperPaths with TOP3B           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    2 Kegg Pathways  (Kegg details for TOP3B):
        Homologous recombination
    Fanconi anemia pathway

        Pathway & Disease-focused RT2 Profiler PCR Array including TOP3B: 
              DNA Repair in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for TOP3B

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for TOP3B (O959852, 3 ENSP000003497054) via UniProtKB, MINT, STRING, and/or I2D (see all 108)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CHIC2Q9UKJ52, 3, ENSP000002639214MINT-66177 I2D: score=5 STRING: ENSP00000263921
    KRTAP4-12Q9BQ662, 3, ENSP000003775824MINT-66807 I2D: score=5 STRING: ENSP00000377582
    CENPFP494543, ENSP000003559224I2D: score=2 STRING: ENSP00000355922
    CHD8Q9HCK83, ENSP000004062884I2D: score=2 STRING: ENSP00000406288
    FBLN5Q9UBX53, ENSP000003450084I2D: score=2 STRING: ENSP00000345008
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006265DNA topological change IEA--
    GO:0007059chromosome segregation IEA--

    Find genes that share ontologies with TOP3B           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
    Selected ApexBio Compounds for TOP3B (see all 20)     About this table
    CompoundAction CAS #
    4'-Demethylepipodophyllotoxinkey intermediate compound for the preparation of podophyllotoxin-type anti-cancer drugs[6559-91-7]
    AmonafideDNA intercalator and Topo II (topoisomerase II) inhibitor[69408-81-7]
    AmrubicinTopoisomerase II inhibitor, anthracycline agent[110267-81-7]
    Camptothecinprototypic DNA topoisomerase I inhibitor[7689-3-4]
    Deferasirox Fe3+ chelaterationally-designed oral iron chelator[554435-83-5]
    Dexrazoxane HCl (ICRF-187, ADR-529)cardioprotective agent[149003-01-0]
    DoxorubicinDNA topoisomerase I inhibitor[23214-92-8]
    Doxorubicin (Adriamycin) HClAntitumor antibiotic agent, inhibits DNA topoisomerase II[25316-40-9]
    Ellagic acidATP-competitive inhibitor of casein kinase 2 (CK2)[476-66-4]
    Epirubicin HClAntibiotic antitumor agent[56390-09-1]

    Browse Tocris compounds for TOP3B



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for TOP3B gene (3 alternative transcripts): 
    NM_001282112.1  NM_001282113.1  NM_003935.4  

    Unigene Cluster for TOP3B:

    Topoisomerase (DNA) III beta
    Hs.436401  [show with all ESTs]
    Unigene Representative Sequence: AL833505
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000357179(uc002zvt.4 uc010gtl.3) ENST00000457270 ENST00000457179
    ENST00000398793(uc002zvs.3) ENST00000444502 ENST00000436282(uc010gtm.2)
    ENST00000470338 ENST00000424393 ENST00000487485 ENST00000437929 ENST00000430142
    ENST00000489581 ENST00000456075 ENST00000449704 ENST00000442653 ENST00000437103
    ENST00000434517 ENST00000413067
    miRNA
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    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TOP3B
    Clone
    Products:
         
    OriGene clones in human, mouse for TOP3B (see all 7)
    OriGene ORF clones in mouse, rat for TOP3B
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: TOP3B (NM_003935)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TOP3B
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TOP3B
    Primer
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    OriGene qPCR primer pairs and template standards for TOP3B
    OriGene qSTAR qPCR primer pairs in human, mouse for TOP3B
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TOP3B
      QuantiTect SYBR Green Assays in human, mouse, rat TOP3B
      QuantiFast Probe-based Assays in human, mouse, rat TOP3B

    Additional mRNA sequence: 

    AF017146.1 AF053082.1 AF070585.1 AF125216.1 AK096695.1 AK290997.1 AK304681.1 AK304709.1 
    AL833505.1 BC002432.2 CR456596.1 

    23 DOTS entries:

    DT.100797125  DT.309289  DT.443791  DT.100649625  DT.100862509  DT.102832370  DT.100036358  DT.97858845 
    DT.100772496  DT.100643978  DT.100797127  DT.100832753  DT.102832372  DT.120647601  DT.92021190  DT.100665612 
    DT.100728463  DT.100797129  DT.100835026  DT.102832373  DT.120647612  DT.95157280  DT.95204324 

    Selected AceView cDNA sequences (see all 139):

    NM_003935 AI432376 AF053082 CR625879 BM719837 BQ437166 BQ649447 CR456596 
    BU739692 BQ270362 AK096695 BU956077 CD107506 AI368666 AI904168 CA453925 
    Z41412 AF125216 AL833505 H55387 AF070585 BQ018902 BQ052367 CR597544 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TOP3B (see all 21)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c · 6d · 6e ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^
    SP1:                                      -     -     -     -                                                                       -                           
    SP2:                                -     -     -     -     -                                                                                                   
    SP3:                                                                                                                                                            
    SP4:                                -     -     -     -     -                                                                       -                           
    SP5:                                -     -     -     -     -                                                                       -     -                     

    ExUns: 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19 ^ 20 ^ 21a · 21b · 21c ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26
    SP1:                                -                 -                                                               
    SP2:                                -                 -                                                               
    SP3:                                                  -                                                               
    SP4:                                                                                                                  
    SP5:                                                                                                                  


    ECgene alternative splicing isoforms for TOP3B

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TOP3B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCACTTCAAA
    TOP3B Expression
    About this image


    TOP3B expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Skeletal Muscle (Muscoskeletal System)    fully expand to see all 2 entries
             Myoblasts Mandibular Arch Muscles
     
     Thymus (Hematopoietic System)
    TOP3B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TOP3B Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.436401

    UniProtKB/Swiss-Prot: TOP3B_HUMAN, O95985
    Tissue specificity: Isoform 1 is found in testis, heart and skeletal muscle. A 4 kb transcript which probably
    represents isoform 2 is found in thymus, kidney and pancreas

        Pathway & Disease-focused RT2 Profiler PCR Array including TOP3B: 
              DNA Repair in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for TOP3B
    OriGene qSTAR qPCR primer pairs in human, mouse for TOP3B
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TOP3B
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    QuantiFast Probe-based Assays in human, mouse, rat TOP3B
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for TOP3B gene from Selected species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Top3b1 , 5 topoisomerase (DNA) III beta1, 5 86.93(n)1
    95.59(a)1
      16 (10.46 cM)5
    219761  NM_011624.21  NP_035754.11 
     168707365 
    chicken
    (Gallus gallus)
    Aves TOP3B1 topoisomerase (DNA) III beta 76.3(n)
    87.47(a)
      416771  NM_001006181.1  NP_001006181.1 
    lizard
    (Anolis carolinensis)
    Reptilia TOP3B6
    topoisomerase (DNA) III beta
    88(a)
    1 ↔ 1
    GL343282.1(1243229-1261676)
    African clawed frog
    (Xenopus laevis)
    Amphibia MGC530162 similar to topoisomerase (DNA) III beta 77.78(n)    BC046848.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7934141 novel protein similar to vertebrate topoisomerase (DNA) more 74.95(n)
    82.23(a)
      793414  XM_003198603.2  XP_003198651.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Top3&bgr;3
    Top3beta1
    DNA catabolism, endonucleolytic
    endodeoxyribonuclease3
    Topoisomerase 3beta1
    58(a)3
    61.72(n)1
    58.13(a)1
      5E53
    315651  NM_078504.31  NP_511059.21 
    worm
    (Caenorhabditis elegans)
    Secernentea Y48C3A.141 , 3 Y48C3A.141 59(a)3
    56.64(n)1
    55.98(a)1
      II(13389654-13396605)3
    1749781  NM_001267452.11  NP_001254381.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes TOP36
    DNA Topoisomerase III, conserved protein that func...
    32(a)
    1 → many
    XII(609783-611753) YLR234W
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G320001 AT2G32000 55.28(n)
    54.66(a)
      817760  NM_128760.3  NP_180760.2 
    rice
    (Oryza sativa)
    Liliopsida Os09g05006001 Os09g0500600 55.25(n)
    54.47(a)
      4347482  NM_001070113.2  NP_001063578.1 


    ENSEMBL Gene Tree for TOP3B (if available)
    TreeFam Gene Tree for TOP3B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TOP3B gene
    TOP3A2  
    1 SIMAP similar gene for TOP3B using alignment to 13 protein entries:     TOP3B_HUMAN (see all proteins):
    TOP3A

    Find genes that share paralogs with TOP3B           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for TOP3B
    PGOHUM00000246269


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for TOP3B (see all 669)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1474740451,2
    F--5268760(+) CCCATG/ATGCTG 2 /H syn11Minor allele frequency- A:0.00NA 3528
    rs1813016391,2
    --5269261(+) CCCCTC/TGCTGG 1 -- int10--------
    rs713167161,2
    C--5269368(+) CATGGG/AACCAC 1 -- int11Minor allele frequency- A:0.50NA 2
    rs713167171,2
    C--5269391(+) TCTGGC/TGGCAG 1 -- int11Minor allele frequency- T:0.50NA 2
    rs1855614051,2
    --5269496(+) AGATGC/TCTCAC 1 -- int10--------
    rs8671161,2
    C,F,O--5269552(+) GGACAT/CGCGCT 1 -- int11Minor allele frequency- C:0.04MN 184
    rs22669711,2
    C--5269560(+) GCTCCC/TTCCTC 1 -- int12Minor allele frequency- T:0.28EA NA 1498
    rs713167031,2
    C--5269560(+) GCTCCC/TTCCTC 1 -- int11Minor allele frequency- T:0.50NA 2
    rs2399201,2
    C,F--5269578(-) TCCTCG/ATCCTC 1 -- int14Minor allele frequency- A:0.19MN NA CSA 189
    rs8671171,2
    C,F,A--5269644(+) TCCCCC/TGACTG 1 -- int11Minor allele frequency- T:0.07MN 184

    HapMap Linkage Disequilibrium report for TOP3B (22311397 - 22337213 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for TOP3B (see all 26):    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv22e196CNV Deletion17116639
    dgv23e196CNV Deletion17116639
    esv2422338CNV Deletion17116639
    esv2422374CNV Duplication17116639
    dgv20e196CNV Duplication17116639
    dgv546n27CNV Loss19166990
    nsv914492CNV Loss21882294
    dgv4884n71CNV Loss21882294
    nsv914473CNV Loss21882294
    nsv828966CNV Loss20364138

    Human Gene Mutation Database (HGMD): TOP3B
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TOP3B
    DNA2.0 Custom Variant and Variant Library Synthesis for TOP3B

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 603582    OMIM disorders: --

    1 disease for TOP3B:    
    About MalaCards
    breast cancer


    Find genes that share disorders with TOP3B           About GenesLikeMe

    Genetic Association Database (GAD): TOP3B

    Export disorders for TOP3B gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for TOP3B gene, integrated from 10 sources (see all 24):
    (articles sorted by number of sources associating them with TOP3B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. One-megabase sequence analysis of the human immunoglobulin lambda gene locus. (PubMed id 9074928)1, 2, 3 Kawasaki K.... Shimizu N. (Genome Res. 1997)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    3. A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)1, 2 Collins J.E.... Dunham I. (Genome Biol. 2004)
    4. A new human topoisomerase III that interacts with SGS1 protein. (PubMed id 9927731)1, 2 Ng S.-W.... Berkowitz R.S. (Nucleic Acids Res. 1999)
    5. TopBP1 controls BLM protein level to maintain genome stability. (PubMed id 24239288)1 Wang J....Gong Z. (Mol. Cell 2013)
    6. MMS19 assembles iron-sulfur proteins required for DNA metabolism and genomic integrity. (PubMed id 22678362)1 Stehling O.... Lill R. (Science 2012)
    7. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (amp 2011)
    8. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
    9. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    10. Significance of topoisomerase IIII^ expression in breast ductal carcinomas: strong associations with disease-specific survival and metastasis. (PubMed id 20950730)1 Oliveira-Costa J.P....Ribeiro-Silva A. (Hum. Pathol. 2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 8940 HGNC: 11993 AceView: TOP3B Ensembl:ENSG00000100038 euGenes: HUgn8940
    ECgene: TOP3B Kegg: 8940 H-InvDB: TOP3B

    (According to HUGE)
    About This Section

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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TOP3B Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TOP3B Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TOP3B gene:
    Search GeneIP for patents involving TOP3B

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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