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TIGD4 Gene

protein-coding   GIFtS: 44
GCID: GC04M153690

Tigger Transposable Element Derived 4

  Search for TIGD4
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 41 2
Tigger Transposable Element-Derived Protein 42

External Ids:    HGNC: 183351   Entrez Gene: 2017982   Ensembl: ENSG000001699897   UniProtKB: Q8IY513   

Export aliases for TIGD4 gene to outside databases

Previous GC identifers: GC04M154542 GC04M154079 GC04M154268 GC04M154048 GC04M153909 GC04M149416


(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 TIGD4 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 TIGD4 Gene:
TIGD4 (tigger transposable element derived 4) is a protein-coding gene. An important paralog of this gene is TIGD2.




(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:
NC_000004.12  NT_016354.20  NC_018915.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TIGD4 gene promoter:
         STAT1   ISGF-3   PPAR-alpha   MEF-2A   AREB6   PPAR-gamma1   HSF2   Chx10   aMEF-2   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTIGD4 promoter sequence
   Search Chromatin IP Primers for TIGD4

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TIGD4


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

Entrez Gene cytogenetic band: 4q31.3   Ensembl cytogenetic band:  4q31.3   HGNC cytogenetic band: 4q31.23

TIGD4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TIGD4 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M153690:  view genomic region     (about GC identifiers)

Start:
153,690,506 bp from pter      End:
153,700,916 bp from pter
Size:
10,411 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, 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., 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: TIGD4_HUMAN, Q8IY51 (See protein sequence)
Recommended Name: Tigger transposable element-derived protein 4  
Size: 512 amino acids; 57468 Da
Sequence caution: Sequence=BAB71642.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: Q96LP5

Explore the universe of human proteins at neXtProt for TIGD4: NX_Q8IY51

Explore proteomics data for TIGD4 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TIGD4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_663772.1  
    ENSEMBL proteins: 
     ENSP00000355162  

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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 Q8IY51

    ProtoNet protein and cluster: Q8IY51

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


    UniProtKB/Swiss-Prot: TIGD4_HUMAN, Q8IY51
    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


    TIGD4 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,
    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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0003682chromatin binding ----
         
    TIGD4 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for TIGD4:
     Increased gamma-H2AX phosphory 

    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
    TIGD4_HUMAN, Q8IY51: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    cytosol2
    peroxisome1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000775chromosome, centromeric region ----
    GO:0005634nucleus IEA--

    TIGD4 for ontologies           About GeneDecksing


    (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 TIGD4
    Interactions:

        Search GeneGlobe Interaction Network for TIGD4

    STRING Interaction Network Preview (showing 5 interactants - click image to see 15)

    Selected Interacting proteins for TIGD4 (Q8IY513 ENSP000003551624) via UniProtKB, MINT, STRING, and/or I2D (see all 15)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HOXD4P090163, ENSP000003025484I2D: score=1 STRING: ENSP00000302548
    JRKLENSP000003333504STRING: ENSP00000333350
    TIGD2ENSP000003171704STRING: ENSP00000317170
    CDC45ENSP000002632014STRING: ENSP00000263201
    DGCR14ENSP000002521374STRING: ENSP00000252137
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-templated ----

    TIGD4 for ontologies           About GeneDecksing



    (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 TIGD4



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for TIGD4 gene: 
    NM_145720.3  

    Unigene Cluster for TIGD4:

    Tigger transposable element derived 4
    Hs.301243  [show with all ESTs]
    Unigene Representative Sequence: AK024235
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000304337(uc003imy.3)
    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat TIGD4

    Additional mRNA sequence: 

    AK024235.1 AK058054.1 BC037869.2 

    3 DOTS entries:

    DT.40196986  DT.91916452  DT.97830993 

    15 AceView cDNA sequences:

    BC037869 BE218430 NM_145720 AK058054 AI566011 BX954732 BP368839 BX954595 
    BI827730 AA758641 BG720707 BX109512 BX490787 BX499808 BG538792 

    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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    TIGD4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    TIGD4 Expression
    About this image

    TIGD4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TIGD4 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.301243
        Custom PCR Arrays for TIGD4
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    In Situ
    Assay Products:
     

     
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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 chordates.

    Orthologs for TIGD4 gene from Selected species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tigd41 , 5 tigger transposable element derived 41, 5 84.11(n)1
    85.16(a)1
      3 (37.70 cM)5
    4031751  NM_207278.21  NP_997161.11 
     845935745 
    lizard
    (Anolis carolinensis)
    Reptilia TIGD46
    tigger transposable element derived 4
    65(a)
    1 ↔ 1
    5(131497661-131498788)


    ENSEMBL Gene Tree for TIGD4 (if available)
    TreeFam Gene Tree for TIGD4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TIGD4 gene
    TIGD22  JRKL2  TIGD12  TIGD72  TIGD52  CENPB2  TIGD62  TIGD32  
    1 SIMAP similar gene for TIGD4 using alignment to 1 protein entry:     TIGD4_HUMAN:
    TIGD6

    TIGD4 for paralogs           About GeneDecksing



    (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 TIGD4 (see all 213)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1485766271,2
    --153690033(+) GAAAGC/TAGTAA 1 -- ds50010--------
    rs1420195601,2
    --153690163(+) ATCTTC/TGATAT 1 -- ds50010--------
    rs342263041,2
    C--153690195(+) ATGGCAT/-ATATA 1 -- ds50011Minor allele frequency- -:0.50NA 2
    rs1122016821,2
    C--153690208(+) TATAT-/AT/TC 
            
    CTTTA
    1 -- ds50011CSA 2
    rs1507151091,2
    --153690279(+) GAACAC/TAATCT 1 -- ds50010--------
    rs767215421,2
    F--153690311(+) AAATCC/ACCAAT 1 -- ds50011Minor allele frequency- A:0.50NA 4
    rs1143802501,2
    C,F--153690474(+) CTATTC/TAAACC 1 -- ds50011Minor allele frequency- T:0.02NA 120
    rs766566511,2
    C,F--153690484(+) CAAAGG/ATTTTT 1 -- ds50011Minor allele frequency- A:0.05NA 120
    rs748548371,2
    C,F--153690511(+) TTAGCA/GGTTTT 1 -- ut311Minor allele frequency- G:0.02WA 118
    rs1839942331,2
    C--153690608(+) ATGTAC/AAATAC 1 -- ut311Minor allele frequency- A:0.00EU 877

    HapMap Linkage Disequilibrium report for TIGD4 (153690506 - 153700916 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for TIGD4:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv522511CNV Loss19592680
    nsv516652CNV Loss19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TIGD4
    DNA2.0 Custom Variant and Variant Library Synthesis for TIGD4

    (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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      --

    (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 TIGD4 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TIGD4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (Cell 2010)
    4. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
    5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
    6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 201798 HGNC: 18335 AceView: TIGD4 Ensembl:ENSG00000169989 euGenes: HUgn201798
    ECgene: TIGD4 H-InvDB: TIGD4

    (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 TIGD4 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 TIGD4 gene:
    Search GeneIP for patents involving TIGD4

    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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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