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TTC16 Gene

protein-coding   GIFtS: 41
GCID: GC09P130478

Tetratricopeptide Repeat Domain 16

  Search for TTC16
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
Tetratricopeptide Repeat Domain 161 2
TPR Repeat Protein 162 3
Tetratricopeptide Repeat Protein 162

External Ids:    HGNC: 265361   Entrez Gene: 1582482   Ensembl: ENSG000001670947   UniProtKB: Q8NEE83   

Export aliases for TTC16 gene to outside databases

Previous GC identifers: GC09P125854 GC09P127557 GC09P129518 GC09P130466 GC09P100094


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TTC16 Gene:
TTC16 (tetratricopeptide repeat domain 16) is a protein-coding 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:
NC_000009.12  NT_008470.20  NC_018920.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TTC16 gene promoter:
         Bach1   Max1   Spz1   Tal-1   AML1a   E47   YY1   FOXO4   En-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTTC16 promoter sequence
   Search Chromatin IP Primers for TTC16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TTC16


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

Entrez Gene cytogenetic band: 9q34.11   Ensembl cytogenetic band:  9q34.11   HGNC cytogenetic band: 9q34.13

TTC16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TTC16 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09P130478:  view genomic region     (about GC identifiers)

Start:
130,478,345 bp from pter      End:
130,493,879 bp from pter
Size:
15,535 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, 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, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: TTC16_HUMAN, Q8NEE8 (See protein sequence)
Recommended Name: Tetratricopeptide repeat protein 16  
Size: 873 amino acids; 98309 Da
Secondary accessions: Q5JU66 Q96M72

Explore the universe of human proteins at neXtProt for TTC16: NX_Q8NEE8

Explore proteomics data for TTC16 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TTC16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_659402.1  
    ENSEMBL proteins: 
     ENSP00000362386   ENSP00000377349  

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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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    HGNC Gene Families:
    TTC: Tetratricopeptide (TTC) repeat domain containing

    4 InterPro protein domains:
     IPR011990 TPR-like_helical
     IPR013105 TPR_2
     IPR013026 TPR-contain_dom
     IPR019734 TPR_repeat

    Graphical View of Domain Structure for InterPro Entry Q8NEE8

    ProtoNet protein and cluster: Q8NEE8

    UniProtKB/Swiss-Prot: TTC16_HUMAN, Q8NEE8
    Similarity: Contains 8 TPR repeats


    TTC16 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): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    TTC16 for ontologies           About GeneDecksing


    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 COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2
    cytoskeleton1

    (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 TTC16
    Interactions:

        Search GeneGlobe Interaction Network for TTC16

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

    5 Interacting proteins for TTC16 (ENSP000003623864) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RUVBL1ENSP000003182974STRING: ENSP00000318297
    RUVBL2ENSP000002214134STRING: ENSP00000221413
    DNAAF2ENSP000002982924STRING: ENSP00000298292
    PIH1D1ENSP000002622654STRING: ENSP00000262265
    PIH1D2ENSP000002803504STRING: ENSP00000280350
    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 TTC16



    (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,
    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 TTC16 gene: 
    NM_144965.1  

    Unigene Cluster for TTC16:

    Tetratricopeptide repeat domain 16
    Hs.642748  [show with all ESTs]
    Unigene Representative Sequence: AK057342
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000373289(uc004brq.1 uc011mai.1 uc004brr.1) ENST00000489226
    ENST00000488285(uc010mxn.1) ENST00000393748
    miRNA
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    hsa-miR-590-3p
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    Inhib. RNA
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    Additional mRNA sequence: 

    AK057342.1 AK128011.1 AK294862.1 AK302422.1 AK302737.1 BC031281.1 

    5 DOTS entries:

    DT.100793360  DT.121191665  DT.97777341  DT.100793363  DT.91903484 

    19 AceView cDNA sequences:

    NM_144965 BC032411 BM987973 AK057342 AK128011 BI908416 BI560277 AA235536 
    AA410617 BC031281 BX106476 AK074105 AA813084 BF951564 BE138646 AW302989 
    AW268779 BF851621 W22172 

    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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    TTC16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTCCCAGAAA
    TTC16 Expression
    About this image

    TTC16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TTC16 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.642748
        Custom PCR Arrays for TTC16
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TTC16

    (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 TTC16 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ttc161 , 5 tetratricopeptide repeat domain 161, 5 72.13(n)1
    60.31(a)1
      2 (22.09 cM)5
    3383481  NM_177384.21  NP_796358.21 
     327570265 
    chicken
    (Gallus gallus)
    Aves TTC161 tetratricopeptide repeat domain 16 55.46(n)
    41(a)
      101750262  XM_004945817.1  XP_004945874.1 
    lizard
    (Anolis carolinensis)
    Reptilia TTC166
    tetratricopeptide repeat domain 16
    45(a)
    1 ↔ 1
    AAWZ02038446(2395-10174)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia BX709406.12   -- 75.44(n)    BX709406.1 


    ENSEMBL Gene Tree for TTC16 (if available)
    TreeFam Gene Tree for TTC16 (if available)

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

    (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 TTC16 (see all 407)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1126240431,2
    C,F--130479968(+) CGGCCG/ACCCAG 2 /T /A mis13Minor allele frequency- A:0.00CSA NA EU 5815
    rs780071771,2
    C,F--130479981(+) CCTGCG/AAAGGG 2 /Q /R mis12Minor allele frequency- A:0.00NA EU 5865
    rs1179637861,2
    C,F--130480025(+) TGGAGC/TGCCTC 2 R C mis12Minor allele frequency- T:0.00EA NA 4668
    rs1512119421,2
    C--130480084(+) GGGCA-/CCCACC 1 -- int10--------
    rs1886730351,2
    --130480130(+) CAGCTC/GTGTCT 1 -- int10--------
    rs1425541411,2
    C--130480240(+) TTTCCA/GTTTGG 1 -- int10--------
    rs1811052181,2
    --130480245(+) ATTTGA/GGCTTT 1 -- int10--------
    rs117928681,2
    C,F,H--130480322(+) tggcaA/Cgtgtg 1 -- int12Minor allele frequency- C:0.11NA 122
    rs1398840831,2
    C--130480366(+) TTATT-/TTATTATT 1 -- cds10--------
    rs1863750651,2
    --130480384(+) TTATTA/TTTGAG 1 -- int10--------

    HapMap Linkage Disequilibrium report for TTC16 (130478345 - 130493879 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10 variations for TTC16:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv893870CNV Loss21882294
    nsv466571CNV Loss19166990
    nsv893868CNV Loss21882294
    nsv893865CNV Loss21882294
    nsv471323CNV Loss18288195
    nsv893867CNV Loss21882294
    dgv8287n71CNV Loss21882294
    nsv893859CNV Loss21882294
    nsv893860CNV Gain21882294
    nsv893866CNV Gain21882294

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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.)
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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 TTC16 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TTC16)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)1, 2 Humphray S.J.... Dunham I. (Nature 2004)
    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. (Genome Res. 2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 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: 158248 HGNC: 26536 AceView: TTC16 Ensembl:ENSG00000167094 euGenes: HUgn158248
    ECgene: TTC16 H-InvDB: TTC16

    (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 TTC16 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 TTC16 gene:
    Search GeneIP for patents involving TTC16

    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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