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TIGD3 Gene

protein-coding   GIFtS: 43
GCID: GC11P065122

Tigger Transposable Element Derived 3

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(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 31 2
Tigger Transposable Element-Derived Protein 32

External Ids:    HGNC: 183341   Entrez Gene: 2203592   Ensembl: ENSG000001738257   UniProtKB: Q6B0B83   

Export aliases for TIGD3 gene to outside databases

Previous GC identifers: GC11P067639 GC11P066803 GC11P065372 GC11P064897 GC11P064878 GC11P061449


(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 TIGD3 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 TIGD3 Gene:
TIGD3 (tigger transposable element derived 3) 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 at NCBI GenBank:
NC_000011.9  NC_018922.2  NT_167190.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TIGD3 gene promoter:
         FOXF2   LCR-F1   Meis-1b   RORalpha2   C/EBPalpha   Egr-2   HOXA5   SEF-1 (1)   Meis-1a   Meis-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTIGD3 promoter sequence
   Search Chromatin IP Primers for TIGD3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TIGD3


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

Entrez Gene cytogenetic band: 11q13.1   Ensembl cytogenetic band:  11q13.1   HGNC cytogenetic band: 11q13.1

TIGD3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TIGD3 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P065122:  view genomic region     (about GC identifiers)

Start:
65,122,238 bp from pter      End:
65,125,084 bp from pter
Size:
2,847 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: TIGD3_HUMAN, Q6B0B8 (See protein sequence)
Recommended Name: Tigger transposable element-derived protein 3  
Size: 471 amino acids; 52027 Da

Explore the universe of human proteins at neXtProt for TIGD3: NX_Q6B0B8

Explore proteomics data for TIGD3 at MOPED


See TIGD3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_663771.1  
ENSEMBL proteins: 
 ENSP00000308354  

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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 Q6B0B8

ProtoNet protein and cluster: Q6B0B8

1 Blocks protein domain: IPB004875 CENP-B protein

UniProtKB/Swiss-Prot: TIGD3_HUMAN, Q6B0B8
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 TIGD3           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 TIGD3           About GenesLikeMe


Phenotypes:
     2 GenomeRNAi human phenotypes for TIGD3:
 Decreased POU5F1-GFP protein e  Increased gamma-H2AX phosphory 

Animal Models:
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miRNA
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miRTarBase miRNAs that target TIGD3:
hsa-mir-16-5p (MIRT051182), hsa-mir-335-5p (MIRT017433)

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7 qRT-PCR Assays for microRNAs that regulate TIGD3:
hsa-miR-587 hsa-miR-548am hsa-miR-4261 hsa-miR-548x hsa-miR-3153 hsa-miR-4287 hsa-miR-3692
SwitchGear 3'UTR luciferase reporter plasmidTIGD3 3' UTR sequence
Inhib. RNA
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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
TIGD3_HUMAN, Q6B0B8: Nucleus (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol2
nucleus2
plasma membrane1

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

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

Find genes that share ontologies with TIGD3           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 TIGD3
Interactions:

    Search GeneGlobe Interaction Network for TIGD3

STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

1 Interacting protein for TIGD3 (ENSP000003083544) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
PCNAENSP000003684384STRING: ENSP00000368438
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 TIGD3



(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 TIGD3 gene: 
NM_145719.2  

Unigene Cluster for TIGD3:

Tigger transposable element derived 3
Hs.632121  [show with all ESTs]
Unigene Representative Sequence: NM_145719
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000309880(uc001odo.4)
miRNA
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7 qRT-PCR Assays for microRNAs that regulate TIGD3:
hsa-miR-587 hsa-miR-548am hsa-miR-4261 hsa-miR-548x hsa-miR-3153 hsa-miR-4287 hsa-miR-3692
SwitchGear 3'UTR luciferase reporter plasmidTIGD3 3' UTR sequence
Inhib. RNA
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Predesigned siRNA for gene silencing in human, mouse, rat TIGD3
Clone
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Primer
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  QuantiFast Probe-based Assays in human, mouse, rat TIGD3

Additional mRNA sequence: 

AF001546.1 BC074862.2 

1 DOTS entry:

DT.442121 

Selected AceView cDNA sequences (see all 28):

BM988096 CR599655 AI283490 NM_145719 BM679909 BC074862 AI800805 AA952902 
F10384 AI243383 AI769014 AI863063 AI221324 BU630785 AL558462 BV184098 
BU741546 AI660235 BX350318 AI028111 AL580283 F12776 N76165 BM728260 

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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TIGD3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAAACGGCCT
TIGD3 Expression
About this image

TIGD3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TIGD3 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.632121
    Custom PCR Arrays for TIGD3
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIGD3

(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 TIGD3 gene from Selected species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Tigd31 , 5 tigger transposable element derived 31, 5 83.12(n)1
83.62(a)1
  19 (4.34 cM)5
3323591  NM_198634.11  NP_941036.11 
 58911395 
chicken
(Gallus gallus)
Aves TIGD36
tigger transposable element derived 3
34(a)
1 ↔ 1
2(535884-537155) ENSGALG00000026277
lizard
(Anolis carolinensis)
Reptilia TIGD36
tigger transposable element derived 3
24(a)
1 ↔ 1
GL343620.1(158998-166098)
tropical clawed frog
(Xenopus tropicalis)
Amphibia tigd31 tigger transposable element derived 3 45.28(n)
33.53(a)
  100135169  NM_001134822.1  NP_001128294.1 


ENSEMBL Gene Tree for TIGD3 (if available)
TreeFam Gene Tree for TIGD3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TIGD3 gene
TIGD22  JRKL2  TIGD12  TIGD72  TIGD52  CENPB2  TIGD62  TIGD42  

Find genes that share paralogs with TIGD3           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 TIGD3 (see all 105)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs748095891,2
F--65121078(+) CTTACG/ATGGCA 1 -- us2k11Minor allele frequency- A:0.02WA 118
rs6587941,2
C,F,A,H--65121203(+) ATTCTG/TAAAGT 1 -- us2k16Minor allele frequency- T:0.04NS NA 478
rs1387964911,2
--65121264(+) AATAAA/GCAGGG 1 -- us2k10--------
rs1879393781,2
--65121406(+) AAGAAA/GTGTGG 1 -- us2k10--------
rs1919797951,2
--65121517(+) GGTAGG/TACGGG 1 -- us2k10--------
rs1128665601,2
C,F--65121524(+) CGGGGG/TTGCGG 1 -- us2k12Minor allele frequency- T:0.03CSA WA 120
rs734822681,2
C,F--65121780(+) CGAGCC/TAGCGC 1 -- us2k13Minor allele frequency- T:0.06WA CSA 122
rs1484627871,2
--65122080(+) CCCCC-/AGAGGGG
CTCGACGAA
CCGCC
1 -- us2k10--------
rs127900281,2
C--65122165(+) ATCTGC/TTTGGG 1 -- us2k11Minor allele frequency- T:0.00NA 2
rs10188531,2
C,F--65122682(+) GCCCTG/CCCCTC 1 -- int15Minor allele frequency- C:0.20NA WA EA 362

HapMap Linkage Disequilibrium report for TIGD3 (65122238 - 65125084 bp)

Structural Variations
     Database of Genomic Variants (DGV) 5 variations for TIGD3:    About this table    
Variant IDTypeSubtypePubMed ID
esv2422285CNV Deletion17116639
nsv832190CNV Loss17160897
dgv1175n71CNV Loss21882294
nsv526181CNV Gain19592680
nsv482159CNV Gain20164927

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(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 TIGD3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TIGD3)
    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. Putative CENP-B paralogues are not present at mammalian centromeres. (PubMed id 22080934)1 Marshall O.J. and Choo K.H. (Chromosoma 2012)
  3. 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)
  4. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 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: 220359 HGNC: 18334 AceView: TIGD3 Ensembl:ENSG00000173825 euGenes: HUgn220359
ECgene: TIGD3 H-InvDB: TIGD3

(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 TIGD3 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 TIGD3 gene:
Search GeneIP for patents involving TIGD3

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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 Search Addgene for plasmids for TIGD3
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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