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TIGD2 Gene

protein-coding   GIFtS: 45
GCID: GC04P090033

Tigger Transposable Element Derived 2

  See TIGD2-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
Tigger Transposable Element Derived 21 2
HEL1062
Epididymis Luminal Protein 1062
Tigger Transposable Element-Derived Protein 22

External Ids:    HGNC: 183331   Entrez Gene: 1668152   Ensembl: ENSG000001803467   OMIM: 6129735   UniProtKB: Q4W5G03   

Export aliases for TIGD2 gene to outside databases

Previous GC identifers: GC04U990144 GC04P090335 GC04P090492 GC04P090391 GC04P090252 GC04P085785


(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 TIGD2 Gene:
The protein encoded by this gene belongs to the tigger subfamily of the pogo superfamily of DNA-mediated
transposons in humans. These proteins are related to DNA transposons found in fungi and nematodes, and more
distantly to the Tc1 and mariner transposases. They are also very similar to the major mammalian centromere
protein B. The exact function of this gene is not known. (provided by RefSeq, Jul 2008)

GeneCards Summary for TIGD2 Gene:
TIGD2 (tigger transposable element derived 2) is a protein-coding gene. Diseases associated with TIGD2 include intrahepatic cholangiocarcinoma. An important paralog of this gene is JRKL.




(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_000004.11  NC_018915.2  NT_016354.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the TIGD2 gene promoter:
         Egr-3   C/EBPbeta   AML1a   FOXD3   C/EBPalpha   MEF-2A   HSF2   aMEF-2   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTIGD2 promoter sequence
   Search Chromatin IP Primers for TIGD2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TIGD2


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

Entrez Gene cytogenetic band: 4q22.1   Ensembl cytogenetic band:  4q22.1   HGNC cytogenetic band: 4q21.3

TIGD2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TIGD2 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P090033:  view genomic region     (about GC identifiers)

Start:
90,033,968 bp from pter      End:
90,036,052 bp from pter
Size:
2,085 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., 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: TIGD2_HUMAN, Q4W5G0 (See protein sequence)
Recommended Name: Tigger transposable element-derived protein 2  
Size: 525 amino acids; 59623 Da

Explore the universe of human proteins at neXtProt for TIGD2: NX_Q4W5G0

Explore proteomics data for TIGD2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TIGD2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_663761.1  
    ENSEMBL proteins: 
     ENSP00000317170  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    4 InterPro protein domains:
     IPR006600 HTH_CenpB_DNA-bd_dom
     IPR004875 DDE_SF_endonuclease_CENPB-like
     IPR009057 Homeodomain-like
     IPR007889 HTH_Psq

    Graphical View of Domain Structure for InterPro Entry Q4W5G0

    ProtoNet protein and cluster: Q4W5G0

    2 Blocks protein domains:
    IPB004875 CENP-B protein
    IPB006695 CENP-B


    UniProtKB/Swiss-Prot: TIGD2_HUMAN, Q4W5G0
    Similarity: Belongs to the tigger transposable element derived protein family
    Similarity: Contains 1 DDE domain
    Similarity: Contains 1 HTH CENPB-type DNA-binding domain
    Similarity: Contains 1 HTH psq-type DNA-binding domain


    Find genes that share domains with TIGD2           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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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
         
    Find genes that share ontologies with TIGD2           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for TIGD2:
     Increased S DNA content 

    Animal Models:
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    (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
    TIGD2_HUMAN, Q4W5G0: Nucleus (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol2
    nucleus2

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    Find genes that share ontologies with TIGD2           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TIGD2
    Interactions:

        Search GeneGlobe Interaction Network for TIGD2

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    3 Interacting proteins for TIGD2 (ENSP000003171704) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TIGD4ENSP000003551624STRING: ENSP00000355162
    TIGD6ENSP000002967364STRING: ENSP00000296736
    --ENSP000003549454STRING: ENSP00000354945
    About this table

    (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 TIGD2



    (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 TIGD2 gene: 
    NM_145715.2  

    Unigene Cluster for TIGD2:

    Tigger transposable element derived 2
    Hs.58924  [show with all ESTs]
    Unigene Representative Sequence: NM_145715
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000317005(uc003hsk.3)
    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat TIGD2

    Additional mRNA sequence: 

    AK027653.2 AL833679.1 

    1 DOTS entry:

    DT.100020810 

    Selected AceView cDNA sequences (see all 27):

    BQ021688 C00749 BM718720 BE326617 NM_145715 BU507066 AI348080 AI318074 
    AI610112 CB268292 BM467877 AK027653 AI278732 CB130942 AI278920 CA428766 
    AI744433 AL833679 BP334478 BU929255 AA677232 AI052318 BG547310 AI248448 

    GeneLoc Exon Structure


    (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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    TIGD2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACACTATAG
    TIGD2 Expression
    About this image


    TIGD2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Eye (Sensory Organs)
             Retina
    TIGD2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TIGD2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.58924
        Custom PCR Arrays for TIGD2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIGD2

    (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 TIGD2 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tigd21 , 5 tigger transposable element derived 21, 5 86.77(n)1
    88.36(a)1
      6 (28.29 cM)5
    681401  NM_001081145.11  NP_001074614.11 
     592088705 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    43(a)
    many ↔ many
    3(135604617-135605273)
    mosquito
    (Anopheles gambiae)
    Insecta AgaP_AGAP0038941 AgaP_AGAP003894 48.22(n)
    38.67(a)
      1269486  XM_308124.5  XP_308124.5 


    ENSEMBL Gene Tree for TIGD2 (if available)
    TreeFam Gene Tree for TIGD2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TIGD2 gene
    JRKL2  TIGD12  TIGD72  TIGD52  CENPB2  TIGD62  TIGD32  TIGD42  
    5 SIMAP similar genes for TIGD2 using alignment to 1 protein entry:     TIGD2_HUMAN:
    JRKL    TIGD1    DKFZp686C24207    TIGD7    JRK

    Find genes that share paralogs with TIGD2           About GenesLikeMe



    (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 TIGD2 (see all 90)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1809460091,2
    --90033967(+) CAAGTA/CGATTC 1 -- us2k10--------
    rs1408041461,2
    C--90034020(+) CTAGAA/GGTGAG 1 -- ut510--------
    rs170150251,2
    C,F,H--90034030(+) GAGGAG/AGAATC 1 -- ut51 ese3 trp326Minor allele frequency- A:0.18NA NS EA CSA WA 2902
    rs1503880871,2
    C,F--90034134(+) TTGGGG/AAAACG 2 /G syn12Minor allele frequency- A:0.01NA EU 5805
    rs1175964231,2
    C,F--90034191(+) AAACTT/CGAGGA 2 /L syn12Minor allele frequency- C:0.00EA NA 4628
    rs1444195941,2
    C,F--90034380(+) ATAGAG/ATGGTT 2 /E syn12Minor allele frequency- A:0.00NA EU 5651
    rs2003680281,2
    --90034385(+) GTGGTG/TTAACC 2 C F mis10--------
    rs2018588441,2
    C--90034398(+) CAGAAA/GACAGA 2 K syn10--------
    rs1492720571,2
    F--90034491(+) GCATCG/ATCAGG 2 /S syn11Minor allele frequency- A:0.00NA 3094
    rs1444728071,2
    C,F--90034595(+) TTGTGG/ATAGCT 2 /D /G mis11Minor allele frequency- A:0.00NA 3726

    HapMap Linkage Disequilibrium report for TIGD2 (90033968 - 90036052 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for TIGD2:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv470051CNV Gain18288195
    nsv461576CNV Gain19166990

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TIGD2
    DNA2.0 Custom Variant and Variant Library Synthesis for TIGD2

    (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: 612973    OMIM disorders: --

    1 disease for TIGD2:    
    About MalaCards
    intrahepatic cholangiocarcinoma


    Find genes that share disorders with TIGD2           About GenesLikeMe

    Genetic Association Database (GAD): TIGD2

    Export disorders for TIGD2 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 TIGD2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TIGD2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)1, 2 Hillier L.W.... Wilson R.K. (Nature 2005)
    2. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PubMed id 16712791)1 Wang A.G....Kim N.S. (Biochem. Biophys. Res. Commun. 2006)
    3. Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. (PubMed id 15342556)1 Suzuki Y.... Sugano S. (Genome Res. 2004)
    4. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)
    5. Tiggers and DNA transposon fossils in the human genome. (PubMed id 8643651)1 Smit A.F. and Riggs A.D. (Proc. Natl. Acad. Sci. U.S.A. 1996)
    6. Members of the pogo superfamily of DNA-mediated transposons in the human genome. (PubMed id 8917322)1 Robertson H.M. (Mol. Gen. Genet. 1996)

    (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: 166815 HGNC: 18333 AceView: TIGD2 Ensembl:ENSG00000180346 euGenes: HUgn166815
    ECgene: TIGD2 H-InvDB: TIGD2

    (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 TIGD2 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TIGD2 gene:
    Search GeneIP for patents involving TIGD2

    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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