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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TDP2 Gene

protein-coding   GIFtS: 55
GCID: GC06M024651

Tyrosyl-DNA Phosphodiesterase 2

(Previous name: TRAF and TNF receptor associated protein)
(Previous symbol: TTRAP)
Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Tyrosyl-DNA Phosphodiesterase 21 2     ETS1-Associated Protein 22 3
TTRAP1 2 3 5     ETS1-Associated Protein II2 3
TRAF And TNF Receptor Associated Protein1 2     hTDP22 3
Tyr-DNA Phosphodiesterase 22 3     TRAF And TNF Receptor-Associated Protein2 3
Tyrosyl-RNA Phosphodiesterase2 3     VPg Unlinkase2 3
5'-Tyr-DNA Phosphodiesterase2 3     AD0222
5'-Tyrosyl-DNA Phosphodiesterase2 3     dJ30M3.32
EAP22 3     EC 3.1.4.-3
EAPII2 3     

External Ids:    HGNC: 177681   Entrez Gene: 515672   Ensembl: ENSG000001118027   OMIM: 6057645   UniProtKB: O955513   

Export aliases for TDP2 gene to outside databases


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for TDP2 Gene:
This gene encodes a member of a superfamily of divalent cation-dependent phosphodiesterases. The encoded protein
associates with CD40, tumor necrosis factor (TNF) receptor-75 and TNF receptor associated factors (TRAFs), and
inhibits nuclear factor-kappa-B activation. This protein has sequence and structural similarities with APE1
endonuclease, which is involved in both DNA repair and the activation of transcription factors. (provided by
RefSeq, Jul 2008)

GeneCards Summary for TDP2 Gene: 
TDP2 (tyrosyl-DNA phosphodiesterase 2) is a protein-coding gene. Diseases associated with TDP2 include dyslexia, and narcolepsy. GO annotations related to this gene include single-stranded DNA binding and magnesium ion binding.

UniProtKB/Swiss-Prot: TYDP2_HUMAN, O95551
Function: DNA repair enzyme that can remove a variety of covalent adducts from DNA through hydrolysis of a
5'-phosphodiester bond, giving rise to DNA with a free 5' phosphate. Catalyzes the hydrolysis of dead-end
complexes between DNA and the topoisomerase 2 (TOP2) active site tyrosine residue. Hydrolyzes
5'-phosphoglycolates on protruding 5' ends on DNA double-strand breaks (DSBs) due to DNA damage by radiation and
free radicals. The 5'-tyrosyl DNA phosphodiesterase activity can enable the repair of TOP2-induced DSBs without
the need for nuclease activity, creating a 'clean' DSB with 5'-phosphate termini that are ready for ligation. Has
preference for single-stranded DNA or duplex DNA with a 4 base pair overhang as substrate. Has also 3'-tyrosyl
DNA phosphodiesterase activity, but less efficiently and much slower than TDP1. Constitutes the major if not only
5'-tyrosyl-DNA phosphodiesterase in cells. Also acts as a 5'-tyrosyl-RNA phosphodiesterase following picornavirus
infection: its activity is hijacked by picornavirus and acts by specifically cleaving the protein-RNA covalent
linkage generated during the viral genomic RNA replication steps of a picornavirus infection, without impairing
the integrity of viral RNA. Also acts as an adapter by participating to the specific activation of MAP3K7/TAK1 in
response to TGF-beta: associates with components of the TGF-beta receptor-TRAF6-TAK1 signaling module and
promotes their ubiquitination dependent complex formation. Involved in non-canonical TGF-beta induced signaling
routes. May also act as a negative regulator of ETS1 and may inhibit NF-kappa-B activation. Acts as a regulator
of ribosome biogenesis following stress

Gene Wiki entry for TDP2 (TTRAP) 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NC_018917.2  NT_007592.15  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TDP2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTDP2 promoter sequence
   Search SABiosciences Chromatin IP Primers for TDP2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TDP2


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

Entrez Gene cytogenetic band: 6p22.3-p22.1   Ensembl cytogenetic band:  6p22.3   HGNC cytogenetic band: 6p22.3-p22.1

TDP2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TDP2 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M024651:  view genomic region     (about GC identifiers)

Start:
24,650,205 bp from pter      End:
24,667,261 bp from pter
Size:
17,057 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TYDP2_HUMAN, O95551 (See protein sequence)
Recommended Name: Tyrosyl-DNA phosphodiesterase 2  
Size: 362 amino acids; 40930 Da
Cofactor: Magnesium. Can use other divalent cations as cofactor in vitro, such as manganese
Subunit: Interacts with TRAF2, TRAF3, TRAF5, TRAF6, TNFRSF8/CD30, TNFRSF5/CD40, TNFRSF1B/TNF-R75, ETS1, ETS2,
FLI1, SMAD3 and ACVR1B/ALK4
Subcellular location: Nucleus. Nucleus, PML body. Nucleus, nucleolus. Cytoplasm. Note=Localizes to nucleolar
cavities following stress; localization to nucleolus is dependent on PML protein. In case of infection by
picornavirus, relocalizes to cytoplasmic sites distinct from those containing viral proteins associated with RNA
replication or encapsidation
Sequence caution: Sequence=BAG59230.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=CAD92510.1; Type=Erroneous gene model prediction;
Secondary accessions: B4DKL8 B4DQ95 Q2TBE2 Q5JYM0 Q7Z6U5 Q9NUK5 Q9NYY9
Alternative splicing: 3 isoforms:  O95551-1   O95551-2   O95551-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TDP2: NX_O95551

Explore proteomics data for TDP2 at MOPED 

Post-translational modifications:

  • UniProtKB: Ubiquitinated by TRAF6
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O95551

  • TDP2 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TDP2 Protein Expression
    REFSEQ proteins: NP_057698.2  
    ENSEMBL proteins: 
     ENSP00000367440   ENSP00000345345   ENSP00000437637  

    Human Recombinant Protein Products for TDP2: 
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    Novus Biologicals TDP2 Proteins
    Novus Biologicals TDP2 Lysates
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730nucleolus IEA--
    GO:0005737cytoplasm IDA--
    GO:0016605PML body IDA19794497

    TDP2 for ontologies           About GeneDecksing



    TDP2 Antibody Products: 
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    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    2 InterPro protein domains:
     IPR005135 Endo/exonuclease/phosphatase
     IPR009060 UBA-like

    Graphical View of Domain Structure for InterPro Entry O95551

    ProtoNet protein and cluster: O95551

    UniProtKB/Swiss-Prot: TYDP2_HUMAN, O95551
    Similarity: Belongs to the CCR4/nocturin family


    TDP2 for domains           About GeneDecksing


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TYDP2_HUMAN, O95551
    Function: DNA repair enzyme that can remove a variety of covalent adducts from DNA through hydrolysis of a
    5'-phosphodiester bond, giving rise to DNA with a free 5' phosphate. Catalyzes the hydrolysis of dead-end
    complexes between DNA and the topoisomerase 2 (TOP2) active site tyrosine residue. Hydrolyzes
    5'-phosphoglycolates on protruding 5' ends on DNA double-strand breaks (DSBs) due to DNA damage by radiation and
    free radicals. The 5'-tyrosyl DNA phosphodiesterase activity can enable the repair of TOP2-induced DSBs without
    the need for nuclease activity, creating a 'clean' DSB with 5'-phosphate termini that are ready for ligation. Has
    preference for single-stranded DNA or duplex DNA with a 4 base pair overhang as substrate. Has also 3'-tyrosyl
    DNA phosphodiesterase activity, but less efficiently and much slower than TDP1. Constitutes the major if not only
    5'-tyrosyl-DNA phosphodiesterase in cells. Also acts as a 5'-tyrosyl-RNA phosphodiesterase following picornavirus
    infection: its activity is hijacked by picornavirus and acts by specifically cleaving the protein-RNA covalent
    linkage generated during the viral genomic RNA replication steps of a picornavirus infection, without impairing
    the integrity of viral RNA. Also acts as an adapter by participating to the specific activation of MAP3K7/TAK1 in
    response to TGF-beta: associates with components of the TGF-beta receptor-TRAF6-TAK1 signaling module and
    promotes their ubiquitination dependent complex formation. Involved in non-canonical TGF-beta induced signaling
    routes. May also act as a negative regulator of ETS1 and may inhibit NF-kappa-B activation. Acts as a regulator
    of ribosome biogenesis following stress
    Biophysicochemical properties: Kinetic parameters: KM=8 uM for single-stranded 5'-tyrosyl DNA; Note=kcat is 3
    sec(-1) with single-stranded 5'-tyrosyl DNA as substrate;

         Enzyme Number (IUBMB): EC 3.1.4.-1

         Gene Ontology (GO): 5/8 molecular function terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000287magnesium ion binding TAS19794497
    GO:0003697single-stranded DNA binding IDA--
    GO:0003714transcription corepressor activity TAS10764746
    GO:0004518nuclease activity IEA--
    GO:0005515protein binding IPI18039968
         
    TDP2 for ontologies           About GeneDecksing


    Phenotypes:
         7 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Tdp2):
     cellular  digestive/alimentary  growth/size  hematopoietic system  homeostasis/metabolism 
     immune system  normal 

    TDP2 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Tdp2tm1.1Huy for TDP2

       inGenious Targeting Laboratory - Custom generated mouse model solutions for TDP2 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for TDP2

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    miRNA
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    4 QIAGEN miScript miRNA Assays for microRNAs that regulate TDP2:
    hsa-miR-548p hsa-miR-1323 hsa-miR-548o hsa-miR-548n
    SwitchGear 3'UTR luciferase reporter plasmidTDP2 3' UTR sequence
    Inhib. RNA
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    Browse Sino Biological Human cDNA Clones
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TDP2


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for TDP2 About                                                                                                See pathways by source

    SuperPathContained pathways About
    1CD40/CD40L signaling
    CD40/CD40L signaling


    1 BioSystems Pathway for TDP2
        CD40/CD40L signaling


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TDP2

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

    5/37 Interacting proteins for TDP2 (O955512, 3 ENSP000003674404) via UniProtKB, MINT, STRING, and/or I2D (see all 37)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SKILP127572, 3MINT-61680 I2D: score=3 
    MAPK6Q166592, 3MINT-8262110 I2D: score=2 
    UBE2IP632793, ENSP000003248974I2D: score=4 STRING: ENSP00000324897
    ETS2P150363, ENSP000003533444I2D: score=3 STRING: ENSP00000353344
    TRAF5O004633, ENSP000002614644I2D: score=3 STRING: ENSP00000261464
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006302double-strand break repair IMP--
    GO:0007166cell surface receptor signaling pathway TAS10764746

    TDP2 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    EMD Millipore small molecules for TDP2:
    Small Molecule - inhibitor
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TDP2 (TYDP2)

    Search CenterWatch for drugs/clinical trials and news about TDP2 / TYDP2

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TDP2 gene: 
    NM_016614.2  

    Unigene Cluster for TDP2:

    Tyrosyl-DNA phosphodiesterase 2
    Hs.403010  [show with all ESTs]
    Unigene Representative Sequence: BC017553
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000378198(uc003nej.3) ENST00000341060 ENST00000478507 ENST00000478285
    ENST00000480495 ENST00000545995(uc010jpu.1)
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    4 QIAGEN miScript miRNA Assays for microRNAs that regulate TDP2:
    hsa-miR-548p hsa-miR-1323 hsa-miR-548o hsa-miR-548n
    SwitchGear 3'UTR luciferase reporter plasmidTDP2 3' UTR sequence
    Inhib. RNA
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TDP2

    Additional mRNA sequence: 

    AF201687.1 AF223469.1 AJ269473.1 AK002168.1 AK296623.1 AK298699.1 AK308836.1 BC017553.2 
    BC110375.1 JN104587.1 

    14 DOTS entries:

    DT.216332  DT.100818415  DT.121363900  DT.100818416  DT.95194872  DT.121363950  DT.70101915  DT.40222287 
    DT.92443705  DT.92443706  DT.95153612  DT.92443720  DT.100715402  DT.92443715 

    24/313 AceView cDNA sequences (see all 313):

    BI754101 AA366358 H53454 BG623866 CD251503 AU279894 AI636151 BQ582059 
    AA259127 AA931115 CA777140 AU185972 BM980338 CA776857 BG777197 BQ331200 
    AV659558 AA304024 AA622205 BP379659 CR602029 AI690729 BI908925 AI766732 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for TDP2    About this scheme

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


    ECgene alternative splicing isoforms for TDP2

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TDP2 expression in normal human tissues (normalized intensities)      TDP2 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAGAGACATA
    TDP2 Expression
    About this image


    TDP2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/3 selected tissues (see all 3) fully expand
     
     Gonad (Reproductive System)
             Primordial Germ Cells Primitive Gonad
     
     Colon (Gastrointestinal Tract)
     
     Brain (Nervous System)

    See TDP2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TDP2

    SOURCE GeneReport for Unigene cluster: Hs.403010

    UniProtKB/Swiss-Prot: TYDP2_HUMAN, O95551
    Tissue specificity: Widely expressed

        SABiosciences Custom PCR Arrays for TDP2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TDP2

    (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)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for TDP2 gene from 6/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tdp21 , 5 tyrosyl-DNA phosphodiesterase 21, 5 78.87(n)1
    69.16(a)1
      13 (10.70 cM)5
    561961  NM_019551.21  NP_062424.11 
     248316795 
    chicken
    (Gallus gallus)
    Aves TDP21 tyrosyl-DNA phosphodiesterase 2 67.81(n)
    64.67(a)
      421007  XM_419093.3  XP_419093.1 
    lizard
    (Anolis carolinensis)
    Reptilia TDP26
    tyrosyl-DNA phosphodiesterase 2
    61(a)
    1 ↔ 1
    4(53966167-53978873)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.80252 Xenopus laevis transcribed sequence with weak similarity more 75.61(n)    BX846715.1 
    zebrafish
    (Danio rerio)
    Actinopterygii AL722584.12   -- 73.62(n)    AL722584.1 
    worm
    (Caenorhabditis elegans)
    Secernentea CELE_Y63D3A.41 Protein Y63D3A.4 44.85(n)
    33.55(a)
      173276  NM_061060.2  NP_493461.1 


    ENSEMBL Gene Tree for TDP2 (if available)
    TreeFam Gene Tree for TDP2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/375 SNPs in TDP2 are shown (see all 375)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs77594171,2
    C,F,A,H--24649718(+) GCACTC/AGCCAT 1 -- ds500115Minor allele frequency- A:0.35NS EA NA WA CSA 740
    rs1929660751,2
    --24649724(+) GCCATC/TACGTC 1 -- ds50010--------
    rs1848615041,2
    C--24649823(+) CTCAGC/TCTCCC 1 -- ds50010--------
    rs1885336011,2
    --24649860(+) CACTGC/TACCCG 1 -- ds50010--------
    rs93935741,2
    H--24649921(+) TTTTCG/ATTGTC 1 -- ds50014Minor allele frequency- A:0.00NS EA 418
    rs1921842901,2
    --24650188(+) AAAAAC/GATACT 1 -- ds50010--------
    rs1477243801,2
    C--24650206(+) ACCATA/GAACAA 1 -- ut310--------
    rs1423816121,2
    --24650229(+) ATTTAA/CATTTC 1 -- ut310--------
    rs123931,2
    C,F,A,H--24650237(+) TTCTCT/CTGTGG 1 -- ut3118Minor allele frequency- C:0.12MN NS EA WA NA 2494
    rs168895671,2
    C,F,H--24650626(+) CAGTCC/TCAAGA 1 -- ut31 ese319Minor allele frequency- T:0.03NS NA EA WA 2156

    HapMap Linkage Disequilibrium report for TDP2 (24650205 - 24667261 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for TDP2:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv883481CNV Loss21882294

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing TDP2
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 605764    OMIM disorders: --

    4 diseases for TDP2:    About MalaCards
    dyslexia    narcolepsy    parkinson's disease    lung cancer

    1 disease from the University of Copenhagen DISEASES database for TDP2:
    Dyslexia

    TDP2 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
    Genetic Association Database (GAD): TDP2
    Human Genome Epidemiology (HuGE) Navigator: TDP2 (0 documents)

    Export disorders for TDP2 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)
    About This Section

    PubMed articles for TDP2 gene, integrated from 9 sources (see all 43):
    (articles sorted by number of sources associating them with TDP2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. TTRAP, a novel protein that associates with CD40, tumor necrosis factor (TNF) receptor-75 and TNF receptor-associated factors (TRAFs), and that inhibits nuclear factor-kappa B activation. (PubMed id 10764746)1, 2, 9 Pype S.... Remacle J.E. (2000)
    2. Characterization of magnesium requirement of human 5'-tyrosyl DNA phosphodiesterase mediated reaction. (PubMed id 22405347)1, 2 Adhikari S.... Uren A. (2012)
    3. An RNA virus hijacks an incognito function of a DNA repair enzyme. (PubMed id 22908287)1, 2 Virgen-Slane R....Semler B.L. (2012)
    4. The PML nuclear bodies-associated protein TTRAP regula tes ribosome biogenesis in nucleolar cavities upon proteasome inhibition. (PubMed id 21921940)1, 2 Vilotti S....Gustincich S. (2012)
    5. Biochemical characterization of human Tyrosyl DNA Phosphodiesterase 2 (TDP2/TTRAP): a Mg2+/Mn2+-dependent phosphodiesterase specific for the repair of topoisomerase cleavage complexes. (PubMed id 22822062)1, 2 Gao R.... Pommier Y. (2012)
    6. TDP2/TTRAP is the major 5'-tyrosyl DNA phosphodiester ase activity in vertebrate cells and is critical for cellular resistance to top oisomerase II-induced DNA damage. (PubMed id 21030584)1, 2 Zeng Z....Caldecott K.W. (2011)
    7. A human 5'-tyrosyl DNA phosphodiesterase that repairs topoisomerase- mediated DNA damage. (PubMed id 19794497)1, 2 Ledesma F.C.... Caldecott K.W. (2009)
    8. Ttrap is an essential modulator of Smad3-dependent Nodal signaling during zebrafish gastrulation and left-right axis determination. (PubMed id 18039968)1, 2 Esguerra C.V....Huylebroeck D. (2007)
    9. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    10. 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. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 51567 HGNC: 17768 AceView: TTRAP Ensembl:ENSG00000111802 euGenes: HUgn51567
    ECgene: TDP2 H-InvDB: TDP2

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TDP2 Pharmacogenomics, SNPs, Pathways
    SeattleSNPshttp://pga.gs.washington.edu/data/ttrap/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TDP2 gene:
    Search GeneIP for patents involving TDP2

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



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