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

TIGD6 Gene

protein-coding   GIFtS: 45
GCID: GC05M149372

Tigger Transposable Element Derived 6

  Search for TIGD6
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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Tigger Transposable Element Derived 61 2
Tigger Transposable Element-Derived Protein 62

External Ids:    HGNC: 183321   Entrez Gene: 817892   Ensembl: ENSG000001642967   UniProtKB: Q17RP23   
ORGUL members:         
NONCODE14:n410901      

Export aliases for TIGD6 gene to outside databases

Previous GC identifers: GC05M149442 GC05M149960 GC05M149355 GC05M149401 GC05M149352 GC05M144520


(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 TIGD6 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. (provided by RefSeq, Oct 2009)

GeneCards Summary for TIGD6 Gene: 
TIGD6 (tigger transposable element derived 6) is a protein-coding gene, and is affiliated with the lncRNA class. GO annotations related to this gene include DNA binding. 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000005.9  NT_029289.11  NC_018916.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TIGD6 gene promoter:
         AhR   PPAR-alpha   AML1a   Brachyury   Sox9   AP-4   CUTL1   LyF-1   Arnt   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTIGD6 promoter sequence
   Search SABiosciences Chromatin IP Primers for TIGD6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TIGD6


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

Entrez Gene cytogenetic band: 5q32   Ensembl cytogenetic band:  5q32   HGNC cytogenetic band: 5q33.1

TIGD6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TIGD6 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05M149372:  view genomic region     (about GC identifiers)

Start:
149,372,681 bp from pter      End:
149,380,730 bp from pter
Size:
8,050 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: TIGD6_HUMAN, Q17RP2 (See protein sequence)
Recommended Name: Tigger transposable element-derived protein 6  
Size: 521 amino acids; 58656 Da
Subcellular location: Nucleus (Probable)
Secondary accessions: B3KTZ8 Q96MQ4 Q9H0X7

Explore the universe of human proteins at neXtProt for TIGD6: NX_Q17RP2

Explore proteomics data for TIGD6 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q17RP2

  • TIGD6 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TIGD6 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001230182.1  NP_112215.1  

    ENSEMBL proteins: 
     ENSP00000296736   ENSP00000425318  

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    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

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

    TIGD6 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    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 Q17RP2

    ProtoNet protein and cluster: Q17RP2

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


    UniProtKB/Swiss-Prot: TIGD6_HUMAN, Q17RP2
    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


    TIGD6 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

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
         
    TIGD6 for ontologies           About GeneDecksing


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    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TIGD6

    (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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TIGD6

    Search CenterWatch for drugs/clinical trials and news about TIGD6

    (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 TIGD6 gene (2 alternative transcripts): 
    NM_001243253.1  NM_030953.3  

    Unigene Cluster for TIGD6:

    Tigger transposable element derived 6
    Hs.169333  [show with all ESTs]
    Unigene Representative Sequence: NM_030953
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000296736(uc003lri.3 uc003lrj.3) ENST00000515406 ENST00000532987

    miRNA
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    hsa-miR-875-3p hsa-miR-206 hsa-miR-922 hsa-miR-3166 hsa-miR-409-3p hsa-miR-1 hsa-miR-508-5p hsa-miR-205*
    SwitchGear 3'UTR luciferase reporter plasmidTIGD6 3' UTR sequence
    Inhib. RNA
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    Additional mRNA sequence: 

    AK056604.1 AK092978.1 AK096325.1 AL136539.1 BC033641.1 BC062669.1 BC117249.1 CR533559.1 

    4 DOTS entries:

    DT.216158  DT.409381  DT.97835733  DT.100020770 

    24/42 AceView cDNA sequences (see all 42):

    AA363947 CR533559 AA031477 BU729644 AA418909 AL136539 BX110310 CR604620 
    NM_030953 BM474491 BM701979 H44364 BX457884 BU728816 AK096325 AX747835 
    BC033641 BU959649 BX342242 AK092978 AW207888 AA426555 BI771197 BX393613 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for TIGD6    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b
    SP1:                    -     -               
    SP2:                                          
    SP3:                          -               


    ECgene alternative splicing isoforms for TIGD6

    (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

    TIGD6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTGGCTGGCG
    TIGD6 Expression
    About this image


    See TIGD6 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TIGD6

    SOURCE GeneReport for Unigene cluster: Hs.169333
        SABiosciences Custom PCR Arrays for TIGD6
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIGD6

    (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 TIGD6 gene from 2/5 species (see all 5)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia LOC1008562031 tigger transposable element-derived protein 6-like 90.34(n)
    89.64(a)
      100856203  XM_003639016.1  XP_003639064.1 
    mosquito
    (Anopheles gambiae)
    Insecta AgaP_AGAP0019061 AGAP001906-PA 43.67(n)
    29.72(a)
      1281221  XM_321159.4  XP_321159.4 


    ENSEMBL Gene Tree for TIGD6 (if available)
    TreeFam Gene Tree for TIGD6 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TIGD6 gene
    TIGD22  JRKL2  TIGD12  TIGD72  TIGD52  CENPB2  TIGD32  TIGD42  
    2 SIMAP similar genes for TIGD6 using alignment to 1 protein entry:     TIGD6_HUMAN:
    TIGD4    CENPB

    TIGD6 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TIGD6
    PGOHUM00000243701


    (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

    10/199 SNPs in TIGD6 are shown (see all 199)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1888993491,2
    --149372196(+) CTCCAA/GGAAAG 2 -- ds50010--------
    rs171107531,2
    C,F,H--149372315(+) TAAAAG/AAAAAC 2 -- ds500113Minor allele frequency- A:0.06NA NS EA WA CSA 1336
    rs1398402411,2
    C--149372456(+) CACTAA/CAGACA 2 -- ds50010--------
    rs1497996791,2
    --149372502(+) AAACAA/GTATGT 2 -- ds50010--------
    rs1846331771,2
    --149372618(+) CAACCA/GCAGGA 2 -- ds50010--------
    rs1895177521,2
    C--149372620(+) ACCACA/TGGACT 2 -- ds50010--------
    rs1478961971,2
    --149372626(+) GGACTC/TAGCCA 2 -- ds50010--------
    rs1415599131,2
    --149372711(+) TTATTA/CAAAGA 2 -- ut310--------
    rs1810084321,2
    --149372750(+) ATCTAC/TTTAAA 2 -- ut310--------
    rs1849902691,2
    --149372891(+) ATCCAA/GAAAAT 2 -- ut310--------

    HapMap Linkage Disequilibrium report for TIGD6 (149372681 - 149380730 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for TIGD6:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2663277CNV Deletion23128226
    nsv830518CNV Loss17160897
    esv24664CNV Gain+Loss19812545

    SABiosciences Cancer Mutation PCR Assays
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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
      --

    (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 TIGD6 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with TIGD6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. The LIFEdb database in 2006. (PubMed id 16381901)1 Mehrle A....Wiemann S. (2006)
    5. From ORFeome to biology: a functional genomics pipeline. (PubMed id 15489336)1 Wiemann S....Poustka A. (2004)
    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. (2002)
    7. Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. (PubMed id 11256614)1 Simpson J.C.... Wiemann S. (2000)
    8. DNA cloning using in vitro site-specific recombination. (PubMed id 11076863)1 Hartley J.L....Brasch M.A. (2000)

    (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: 81789 HGNC: 18332 AceView: TIGD6 Ensembl:ENSG00000164296 euGenes: HUgn81789
    ECgene: TIGD6 H-InvDB: TIGD6

    (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 TIGD6 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TIGD6 gene:
    Search GeneIP for patents involving TIGD6

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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