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TDG Gene

protein-coding   GIFtS: 68
GCID: GC12P104359

Thymine-DNA Glycosylase

  See TDG-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)
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Aliases
Thymine-DNA Glycosylase1 2 3
G/T Mismatch-Specific Thymine DNA Glycosylase1 2
hTDG2 3
EC 3.2.2.293

External Ids:    HGNC: 117001   Entrez Gene: 69962   Ensembl: ENSG000001393727   OMIM: 6014235   UniProtKB: Q135693   

Export aliases for TDG gene to outside databases

Previous GC identifers: GC12P103472 GC12P104240 GC12P102862 GC12P101419


(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 TDG Gene:
The protein encoded by this gene belongs to the TDG/mug DNA glycosylase family. Thymine-DNA glycosylase (TDG)
removes thymine moieties from G/T mismatches by hydrolyzing the carbon-nitrogen bond between the sugar-phosphate
backbone of DNA and the mispaired thymine. With lower activity, this enzyme also removes thymine from C/T and T/T
mispairings. TDG can also remove uracil and 5-bromouracil from mispairings with guanine. This enzyme plays a
central role in cellular defense against genetic mutation caused by the spontaneous deamination of
5-methylcytosine and cytosine. This gene may have a pseudogene in the p arm of chromosome 12. (provided by
RefSeq, Jul 2008)

GeneCards Summary for TDG Gene:
TDG (thymine-DNA glycosylase) is a protein-coding gene. Diseases associated with TDG include toxic diffuse goiter, and xeroderma pigmentosum, group c. GO annotations related to this gene include damaged DNA binding and protein homodimerization activity.

UniProtKB/Swiss-Prot: TDG_HUMAN, Q13569
Function: DNA glycosylase that plays a key role in active DNA demethylation: specifically recognizes and binds
5-formylcytosine (5fC) and 5-carboxylcytosine (5caC) in the context of CpG sites and mediates their excision
through base-excision repair (BER) to install an unmethylated cytosine. Cannot remove 5-hydroxymethylcytosine
(5hmC). According to an alternative model, involved in DNA demethylation by mediating DNA glycolase activity
toward 5-hydroxymethyluracil (5hmU) produced by deamination of 5hmC. Also involved in DNA repair by acting as a
thymine-DNA glycosylase that mediates correction of G/T mispairs to G/C pairs: in the DNA of higher eukaryotes,
hydrolytic deamination of 5-methylcytosine to thymine leads to the formation of G/T mismatches. Its role in the
repair of canonical base damage is however minor compared to its role in DNA demethylation. It is capable of
hydrolyzing the carbon-nitrogen bond between the sugar-phosphate backbone of the DNA and a mispaired thymine. In
addition to the G/T, it can remove thymine also from C/T and T/T mispairs in the order G/T >> C/T > T/T. It has
no detectable activity on apyrimidinic sites and does not catalyze the removal of thymine from A/T pairs or from
single-stranded DNA. It can also remove uracil and 5-bromouracil from mispairs with guanine

Gene Wiki entry for TDG (Thymine-DNA glycosylase) 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_000012.11  NT_029419.13  NC_018923.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TDG gene promoter:
         ER-alpha   Pax-5   p300   Pax-2a   Evi-1   RORalpha1   FAC1   FOXO1a   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTDG promoter sequence
   Search Chromatin IP Primers for TDG

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


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

Entrez Gene cytogenetic band: 12q24.1   Ensembl cytogenetic band:  12q23.3   HGNC cytogenetic band: 12q24.1

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

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P104359:  view genomic region     (about GC identifiers)

Start:
104,359,582 bp from pter      End:
104,382,656 bp from pter
Size:
23,075 bases      Orientation:
plus 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: TDG_HUMAN, Q13569 (See protein sequence)
Recommended Name: G/T mismatch-specific thymine DNA glycosylase  
Size: 410 amino acids; 46053 Da
Subunit: Homodimer. Interacts with AICDA and GADD45A
Selected PDB 3D structures from and Proteopedia for TDG (see all 8):
1WYW (3D)        2D07 (3D)        2RBA (3D)        3UFJ (3D)        3UO7 (3D)        3UOB (3D)    
Secondary accessions: Q8IUZ6 Q8IZM3

Explore the universe of human proteins at neXtProt for TDG: NX_Q13569

Explore proteomics data for TDG at MOPED

Post-translational modifications: 

  • Sumoylation on Lys-330 by either SUMO1 or SUMO2 induces dissociation of the product DNA1
  • Ubiquitination2 at Lys107, Lys218, Lys221, Lys232, Lys258
  • Modification sites at PhosphoSitePlus

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

    REFSEQ proteins: NP_003202.3  
    ENSEMBL proteins: 
     ENSP00000376611   ENSP00000390167   ENSP00000266775   ENSP00000445899   ENSP00000439825  
     ENSP00000445716   ENSP00000439054  
    Reactome Protein details: Q13569

    TDG Human Recombinant Protein Products:

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    OriGene Protein Over-expression Lysate for TDG
    OriGene Custom MassSpec
    OriGene Custom Protein Services for TDG
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    Novus Biologicals TDG Proteins
    Novus Biologicals TDG Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    ProSpec Recombinant Protein for TDG
    Cloud-Clone Corp. Proteins for TDG

     
    Search eBioscience for Proteins for TDG 

     
    antibodies-online proteins for TDG (7 products) 

     
    antibodies-online peptides for TDG

    TDG Antibody Products:

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    antibodies-online antibodies for TDG (27 products) 

    TDG Assay Products:

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    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for TDG
    Cloud-Clone Corp. CLIAs for TDG
    Search eBioscience for ELISAs for TDG 
    antibodies-online kits for TDG (6 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR005122 Uracil-DNA_glycosylase-like
     IPR015637 DNA_glycosylase_G/T-mismatch
     IPR003310 Thymine-DNA_glycosylase

    Graphical View of Domain Structure for InterPro Entry Q13569

    ProtoNet protein and cluster: Q13569

    1 Blocks protein domain: IPB005122 Uracil-DNA glycosylase superfamily

    UniProtKB/Swiss-Prot: TDG_HUMAN, Q13569
    Similarity: Belongs to the TDG/mug DNA glycosylase family


    Find genes that share domains with TDG           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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: TDG_HUMAN, Q13569
    Function: DNA glycosylase that plays a key role in active DNA demethylation: specifically recognizes and binds
    5-formylcytosine (5fC) and 5-carboxylcytosine (5caC) in the context of CpG sites and mediates their excision
    through base-excision repair (BER) to install an unmethylated cytosine. Cannot remove 5-hydroxymethylcytosine
    (5hmC). According to an alternative model, involved in DNA demethylation by mediating DNA glycolase activity
    toward 5-hydroxymethyluracil (5hmU) produced by deamination of 5hmC. Also involved in DNA repair by acting as a
    thymine-DNA glycosylase that mediates correction of G/T mispairs to G/C pairs: in the DNA of higher eukaryotes,
    hydrolytic deamination of 5-methylcytosine to thymine leads to the formation of G/T mismatches. Its role in the
    repair of canonical base damage is however minor compared to its role in DNA demethylation. It is capable of
    hydrolyzing the carbon-nitrogen bond between the sugar-phosphate backbone of the DNA and a mispaired thymine. In
    addition to the G/T, it can remove thymine also from C/T and T/T mispairs in the order G/T >> C/T > T/T. It has
    no detectable activity on apyrimidinic sites and does not catalyze the removal of thymine from A/T pairs or from
    single-stranded DNA. It can also remove uracil and 5-bromouracil from mispairs with guanine
    Catalytic activity: Hydrolyzes mismatched double-stranded DNA and polynucleotides, releasing free thymine

         Genatlas biochemistry entry for TDG:
    DNA glycosylase,thymine,46-55 kDa,nuclear G/T mismatch,also active toward 3,N-ethenocysteine adducts,specific,base
    excision repair,with delimited role in pancreatic ductal carcinogenesis

         Enzyme Number (IUBMB): EC 3.2.2.291

         Gene Ontology (GO): Selected molecular function terms (see all 13):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001104RNA polymerase II transcription cofactor activity IEA--
    GO:0003684damaged DNA binding TAS9489705
    GO:0003690double-stranded DNA binding IDA--
    GO:0005080protein kinase C binding IEA--
    GO:0005515protein binding IPI--
         
    Find genes that share ontologies with TDG           About GenesLikeMe


    Phenotypes:
         10 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Tdg):
     cardiovascular system  cellular  craniofacial  embryogenesis  growth/size/body 
     homeostasis/metabolism  limbs/digits/tail  liver/biliary system  mortality/aging  nervous system 

    Find genes that share phenotypes with TDG           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for TDG: Tdgtm1.1Abc Tdgtm1Psch

       genOway: Develop your customized and physiologically relevant rodent model for TDG

    miRNA
    Products:
        
    miRTarBase miRNAs that target TDG:
    hsa-mir-215-5p (MIRT024737), hsa-mir-29c-3p (MIRT001921), hsa-mir-125b-5p (MIRT046007), hsa-mir-125a-5p (MIRT045731), hsa-mir-192-5p (MIRT026661)

    Block miRNA regulation of human, mouse, rat TDG using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TDG (see all 28):
    hsa-miR-30c hsa-miR-217 hsa-miR-125a-5p hsa-miR-509-5p hsa-miR-767-5p hsa-miR-29a hsa-miR-29c hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidTDG 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for TDG
    Predesigned siRNA for gene silencing in human, mouse, rat TDG

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

    Clone
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    OriGene clones in human, mouse for TDG (see all 9)
    OriGene ORF clones in mouse, rat for TDG
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    GenScript: all cDNA clones in your preferred vector: TDG (NM_003211)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TDG
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TDG
    Addgene plasmids for TDG 

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

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TDG


    (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 UniProtKB/Swiss-Prot
    TDG_HUMAN, Q13569: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    plasma membrane3
    cytoskeleton1
    cytosol1

    Gene Ontology (GO): 5 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--
    GO:0005730NOT nucleolus IDA--
    GO:0005886plasma membrane IDA--
    GO:0016605PML body IEA--

    Find genes that share ontologies with TDG           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 TDG About    
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Resolution of Abasic Sites (AP sites)
    Resolution of Abasic Sites (AP sites)0.89
    Base Excision Repair0.00
    Resolution of AP sites via the multiple-nucleotide patch replacement pathway0.89
    Displacement of DNA glycosylase by APE10.00
    Base excision repair0.53
    Resolution of AP sites via the single-nucleotide replacement pathway0.00
    Base-Excision Repair, AP Site Formation0.00
    Removal of DNA patch containing abasic residue0.00
    2Pyrimidine metabolism
    Fluoropyrimidine Activity0.69
    Fluoropyrimidine Pathway, Pharmacodynamics0.00
    3Cleavage of the damaged pyrimidine
    Cleavage of the damaged pyrimidine
    Depyrimidination0.00
    Recognition and association of DNA glycosylase with site containing an affected pyrimidine0.00
    4DNA Repair
    DNA Repair0.45
    5Transcription P53 signaling pathway
    Transcription P53 signaling pathway


    Find genes that share SuperPaths with TDG           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 GeneGo (Thomson Reuters) Pathway for TDG
        Transcription P53 signaling pathway

    1 BioSystems Pathway for TDG
        Fluoropyrimidine Activity

    4 Reactome Pathways for TDG
        Recognition and association of DNA glycosylase with site containing an affected pyrimidine
    Displacement of DNA glycosylase by APE1
    Cleavage of the damaged pyrimidine
    TET1,2,3 and TDG demethylate DNA

    1 PharmGKB Pathway for TDG
        Fluoropyrimidine Pathway, Pharmacodynamics

    1 Kegg Pathway  (Kegg details for TDG):
        Base excision repair

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

    Interactions:

        GeneGlobe Interaction Network for TDG

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

    Selected Interacting proteins for TDG (Q135691, 2, 3 ENSP000003766114) via UniProtKB, MINT, STRING, and/or I2D (see all 52)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SNIP1Q8TAD82, 3MINT-62160 I2D: score=3 
    DDX39BQ138383, ENSP000003794754I2D: score=2 STRING: ENSP00000379475
    ENSG00000215425Q138383I2D: score=2 
    ENSG00000225073Q138383I2D: score=2 
    ENSG00000225859Q138383I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IEA--
    GO:0006281DNA repair TAS--
    GO:0006284base-excision repair TAS--
    GO:0006285base-excision repair, AP site formation TAS--
    GO:0006298mismatch repair IDA--

    Find genes that share ontologies with TDG           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
      Browse compounds at ApexBio 

    Browse Tocris compounds for TDG

    1 HMDB Compound for TDG    About this table
    CompoundSynonyms CAS #PubMed Ids
    Fructosamine1-Amino-1-deoxy-D-fructose (see all 2)4429-04-3--

    10 Novoseek inferred chemical compound relationships for TDG gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    3,n(4)-ethenocytosine 95.3 23 12493755 (6), 17270163 (4), 10767625 (1), 10995256 (1) (see all 5)
    thymine 92.2 156 9867812 (7), 12493755 (6), 9685338 (5), 11554300 (4) (see all 45)
    5-methylcytosine 90.8 17 12493755 (2), 10767625 (1), 11889051 (1), 9299239 (1) (see all 9)
    cytosine 79.8 11 11889051 (1), 17270163 (1), 18512959 (1), 10938281 (1) (see all 6)
    guanine 69.9 7 12954776 (1), 16984202 (1), 18789404 (1), 11554300 (1) (see all 6)
    adenine 57.3 3 12954776 (1), 16984202 (1), 17270163 (1)
    purine 38.1 1 12711670 (1)
    5fluorouracil 25.2 12 19402749 (6), 18054558 (1)
    atp 0 3 15157103 (1), 11376160 (1)
    estrogen 0 3 19652917 (2), 12874288 (1)



    Find genes that share compounds with TDG           About GenesLikeMe



    (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 TDG gene (2 alternative transcripts): 
    NM_003211.4  NM_001008411.1  

    Unigene Cluster for TDG:

    Thymine-DNA glycosylase
    Hs.584809  [show with all ESTs]
    Unigene Representative Sequence: NM_003211
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000392872(uc001tkg.3 uc009zuk.3 uc010swi.2 uc010swj.2)
    ENST00000436021 ENST00000545698 ENST00000266775 ENST00000544861 ENST00000537100
    ENST00000544060(uc010swh.1) ENST00000542926 ENST00000540956 ENST00000536395
    ENST00000542036
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate TDG (see all 28):
    hsa-miR-30c hsa-miR-217 hsa-miR-125a-5p hsa-miR-509-5p hsa-miR-767-5p hsa-miR-29a hsa-miR-29c hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidTDG 3' UTR sequence
    Inhib. RNA
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    Clone
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    GenScript: all cDNA clones in your preferred vector: TDG (NM_003211)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TDG
    Addgene plasmids for TDG 
    Primer
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    OriGene qPCR primer pairs and template standards for TDG
    OriGene qSTAR qPCR primer pairs in human, mouse for TDG
    Pre-validated RT2 qPCR Primer Assay in human, mouse / rat TDG
      QuantiTect SYBR Green Assays in human, mouse, rat TDG
      QuantiFast Probe-based Assays in human, mouse, rat TDG

    Additional mRNA sequence: 

    AK295387.1 AK299832.1 AK303631.1 AK309792.1 AK311673.1 AK313234.1 BC001307.1 BC010945.1 
    BC019925.1 BC037557.1 BC071714.1 BC104477.1 DQ786320.1 XR_133016.3 

    22 DOTS entries:

    DT.100773293  DT.100824974  DT.313550  DT.95203205  DT.121182756  DT.101977448  DT.100835319  DT.100824975 
    DT.121182982  DT.121182926  DT.92469593  DT.121182693  DT.121182927  DT.100705623  DT.100710034  DT.449388 
    DT.100024114  DT.121182704  DT.95356374  DT.120703001  DT.455637  DT.75112079 

    Selected AceView cDNA sequences (see all 213):

    AI669518 CR595551 AA808472 AI669972 AW590228 F08625 AI916834 BM915474 
    Z39321 BM698304 BU187359 AI610225 T34101 AA477757 AL120270 AI493141 
    BM667014 AA490546 AW958108 AI263844 AI352697 BF195990 AI521526 AA143198 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TDG (see all 9)    About this scheme

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


    ECgene alternative splicing isoforms for TDG

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


    TDG expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
     
     Trophoblast (Extraembryonic Tissues)    fully expand to see all 2 entries
             Trophoblast Cells Trophoblast
     
     Pancreas (Endocrine System)
             Islets of Langerhans
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
    TDG Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TDG Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.584809
        Pathway & Disease-focused RT2 Profiler PCR Array including TDG: 
              DNA Repair in human mouse rat

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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 animals.

    Orthologs for TDG gene from Selected species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tdg1 , 5 thymine DNA glycosylase1, 5 83.21(n)1
    88.51(a)1
      10 (39.72 cM)5
    216651  NM_172552.31  NP_766140.21 
     826298285 
    chicken
    (Gallus gallus)
    Aves TDG1 thymine-DNA glycosylase 76.37(n)
    78.86(a)
      395510  NM_204750.1  NP_990081.1 
    lizard
    (Anolis carolinensis)
    Reptilia TDG6
    thymine-DNA glycosylase
    74(a)
    1 ↔ 1
    5(18190817-18205856)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.235732 Xenopus laevis, Similar to hypothetical protein E13 more 78.82(n)    BC041496.1 
    zebrafish
    (Danio rerio)
    Actinopterygii tdg1 thymine-DNA glycosylase 63.56(n)
    64(a)
      553789  NM_001020751.1  NP_001018587.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Thd13 nucleotide-excision repair
    pyrimidine-specific more
    50(a)   102C2   --


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TDG gene

    Find genes that share paralogs with TDG           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for TDG
    PGOHUM00000239708


    (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 TDG (see all 674)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1433696771,2
    --104357663(+) ACAAAA/GACAAA 1 -- us2k10--------
    rs111118581,2
    C,F,H--104357682(+) TTTTTT/AATAGA 1 -- us2k1 trp39Minor allele frequency- A:0.08NS EA WA CSA NA 722
    rs1728141,2
    C,F,A,H--104357814(-) TCTCAA/GCATCC 1 -- us2k17Minor allele frequency- G:0.08NS EA NA WA 630
    rs111118591,2
    A,H--104358082(+) acagaG/Aatggg 1 -- us2k14Minor allele frequency- A:0.00NS EA 416
    rs557800861,2
    C--104358127(+) CTGACC/GTCAGG 1 -- us2k10--------
    rs760936941,2
    C--104358247(+) CTGGTC/ATCTTG 1 -- us2k12Minor allele frequency- A:0.10WA NA 122
    rs3221071,2
    C,F,A,H--104358331(-) GCACTC/TGGGGA 1 -- us2k114Minor allele frequency- T:0.09NS EA NA WA 1478
    rs1461967331,2
    --104358403(+) AAAGCA/TTTCAG 1 -- us2k10--------
    rs1379253021,2
    --104358535(+) TCATTA/CACTCA 1 -- us2k10--------
    rs41350351,2
    C,F--104358647(+) AAACTTT/-AAACA 1 -- us2k11Minor allele frequency- -:0.01NS 166

    HapMap Linkage Disequilibrium report for TDG (104359582 - 104382656 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for TDG (see all 13):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2746304CNV Deletion23290073
    dgv218e201CNV Deletion23290073
    dgv217e201CNV Deletion23290073
    esv2039358CNV Deletion18987734
    esv2746302CNV Deletion23290073
    esv2746303CNV Deletion23290073
    esv2341266CNV Deletion18987734
    dgv216e201CNV Deletion23290073
    esv2137081CNV Deletion18987734
    esv9163CNV Loss19470904

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TDG
    DNA2.0 Custom Variant and Variant Library Synthesis for TDG

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 601423    OMIM disorders: --

    2 diseases for TDG:    
    About MalaCards
    toxic diffuse goiter    xeroderma pigmentosum, group c

    1 disease from the University of Copenhagen DISEASES database for TDG:
    Toxic diffuse goiter

    Find genes that share disorders with TDG           About GenesLikeMe

    3 Novoseek inferred disease relationships for TDG gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 5.25 1 9230216 (1)
    cancer 1.93 6 19402749 (2), 20428781 (1), 9230216 (1), 15225156 (1) (see all 5)
    cancer lung 0 2 15225156 (2)

    Genetic Association Database (GAD): TDG
    Human Genome Epidemiology (HuGE) Navigator: TDG (11 documents)

    Export disorders for TDG 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 TDG gene, integrated from 10 sources (see all 126):
    (articles sorted by number of sources associating them with TDG)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and expression of human G/T mismatch-specific thymine-DNA glycosylase. (PubMed id 8662714)1, 2, 3, 9 Neddermann P.... Jiricny J. (J. Biol. Chem. 1996)
    2. Crystal structure of SUMO-3-modified thymine-DNA glycosylase. (PubMed id 16626738)1, 2, 9 Baba D.... Shirakawa M. (J. Mol. Biol. 2006)
    3. Modification of the human thymine-DNA glycosylase by ubiquitin-like proteins facilitates enzymatic turnover. (PubMed id 11889051)1, 2, 9 Hardeland U.... Schaer P. (EMBO J. 2002)
    4. Polymorphisms in TDG and MGMT genes - epidemiological and functional study in lung cancer patients from Poland. (PubMed id 15225156)1, 4, 9 KrzeA9niak M....Rusin M. (Ann. Hum. Genet. 2004)
    5. Crystal structure of human thymine DNA glycosylase bound to DNA elucidates sequence-specific mismatch recognition. (PubMed id 18587051)1, 2, 9 Maiti A.... Drohat A.C. (Proc. Natl. Acad. Sci. U.S.A. 2008)
    6. Crystal structure of thymine DNA glycosylase conjugated to SUMO-1. (PubMed id 15959518)1, 2, 9 Baba D.... Shirakawa M. (Nature 2005)
    7. Chromosomal localizations and molecular analysis of TDG gene-related sequences. (PubMed id 9299239)1, 3, 9 Sard L....Radice P. (Genomics 1997)
    8. Polymorphisms in uracil-processing genes, but not one-carbon nutrients, are associated with altered DNA uracil concentrations in an urban Puerto Rican population. (PubMed id 19403629)1, 4, 9 Chanson A....Mason J.B. (Am. J. Clin. Nutr. 2009)
    9. Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine- modified DNA. (PubMed id 22327402)1, 2 Zhang L....He C. (Nat. Chem. Biol. 2012)
    10. Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: its structural basis and implications for active DNA demethylation. (PubMed id 22962365)1, 2 Hashimoto H.... Cheng X. (Nucleic Acids Res. 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 6996 HGNC: 11700 AceView: TDG Ensembl:ENSG00000139372 euGenes: HUgn6996
    ECgene: TDG Kegg: 6996 H-InvDB: TDG

    (According to HUGE)
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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 TDG Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TDG Genetics and Cytogenetics in Oncology and Haematology
    NIEHS-SNPshttp://egp.gs.washington.edu/data/tdg/

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

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



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