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

TTC4 Gene

protein-coding   GIFtS: 51
GCID: GC01P055181

Tetratricopeptide Repeat Domain 4

  See related diseases
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

Aliases
Tetratricopeptide Repeat Domain 41 2
TPR Repeat Protein 42 3
Tetratricopeptide Repeat Protein 42

External Ids:    HGNC: 123941   Entrez Gene: 72682   Ensembl: ENSG000002437257   OMIM: 6067535   UniProtKB: O958013   

Export aliases for TTC4 gene to outside databases

Previous GC identifers: GC01P055018 GC01P054008 GC01P054466 GC01P054551 GC01P054893 GC01P053295


(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 TTC4 Gene:
This gene encodes a protein that contains tetratricopeptide (TPR) repeats. The 34-amino acid tetratricopeptide
repeat motifs are found in a variety of proteins and may mediate protein-protein interactions and chaperone
activity.(provided by RefSeq, Jun 2011)

GeneCards Summary for TTC4 Gene: 
TTC4 (tetratricopeptide repeat domain 4) is a protein-coding gene. Diseases associated with TTC4 include sporadic breast cancer, and hepatitis c.

Gene Wiki entry for TTC4 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TTC4 gene promoter:
         Bach2   Pax-2   Lmo2   Pax-2a   GATA-1   Evi-1   FAC1   POU2F1   POU2F1a   SEF-1 (1)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTTC4 promoter sequence
   Search SABiosciences Chromatin IP Primers for TTC4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TTC4


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

Entrez Gene cytogenetic band: 1p32.3   Ensembl cytogenetic band:  1p32.3   HGNC cytogenetic band: 1p32

TTC4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TTC4 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P055181:  view genomic region     (about GC identifiers)

Start:
55,181,495 bp from pter      End:
55,208,330 bp from pter
Size:
26,836 bases      Orientation:
plus 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: TTC4_HUMAN, O95801 (See protein sequence)
Recommended Name: Tetratricopeptide repeat protein 4  
Size: 387 amino acids; 44679 Da
Sequence caution: Sequence=AAD19853.1; Type=Frameshift; Positions=322;
Secondary accessions: Q53Y95 Q5TA96 Q9H3I2

Explore the universe of human proteins at neXtProt for TTC4: NX_O95801

Explore proteomics data for TTC4 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O95801

  • TTC4 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TTC4 Protein Expression
    REFSEQ proteins: NP_004614.3  
    ENSEMBL proteins: 
     ENSP00000360329  

    Human Recombinant Protein Products for TTC4: 
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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    TTC: Tetratricopeptide (TTC) repeat domain containing

    3 InterPro protein domains:
     IPR011990 TPR-like_helical
     IPR013026 TPR-contain_dom
     IPR019734 TPR_repeat

    Graphical View of Domain Structure for InterPro Entry O95801

    ProtoNet protein and cluster: O95801

    UniProtKB/Swiss-Prot: TTC4_HUMAN, O95801
    Similarity: Belongs to the TTC4 family
    Similarity: Contains 3 TPR repeats


    TTC4 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

    Molecular Function:
         Genatlas biochemistry entry for TTC4:
    tetratricopeptide-repeat containing gene isoform 4,ubiquitously expressed,localized within critical region,deleted
    in sporadic breast cancer

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    TTC4 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for TTC4:
     Decreased POU5F1-GFP protein e  Decreased number of cells in m  Increased cell death in HCC-19 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TTC4 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for TTC4

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TTC4 
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    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TTC4
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    SwitchGear 3'UTR luciferase reporter plasmidTTC4 3' UTR sequence
    Inhib. RNA
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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 TTC4

    STRING Interaction Network Preview (showing 5 interactants - click image to see 11)

    5/16 Interacting proteins for TTC4 (O958013 ENSP000003603294) via UniProtKB, MINT, STRING, and/or I2D (see all 16)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TAF9Q9Y3D83, ENSP000003702014I2D: score=2 STRING: ENSP00000370201
    AK6Q9Y3D83I2D: score=2 
    HSP90AA1P079003, ENSP000003351534I2D: score=3 STRING: ENSP00000335153
    TCOF1Q134283, ENSP000004068884I2D: score=1 STRING: ENSP00000406888
    RNF219Q5W0B13, ENSP000002820034I2D: score=1 STRING: ENSP00000282003
    About this table

    (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 TTC4

    Search CenterWatch for drugs/clinical trials and news about TTC4

    (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 TTC4 gene: 
    NM_004623.4  

    Unigene Cluster for TTC4:

    Tetratricopeptide repeat domain 4
    Hs.729029  [show with all ESTs]
    Unigene Representative Sequence: AK025524
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000371281(uc001cxx.4 uc001cxv.3) ENST00000486621 ENST00000371284
    ENST00000486091
    miRNA
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    8/9 QIAGEN miScript miRNA Assays for microRNAs that regulate TTC4 (see all 9):
    hsa-miR-647 hsa-miR-1321 hsa-miR-3166 hsa-miR-1205 hsa-miR-1207-3p hsa-miR-145 hsa-miR-802 hsa-miR-216a
    SwitchGear 3'UTR luciferase reporter plasmidTTC4 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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    Clone
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                         Customized lentivirus expression plasmids for stable overexpression of TTC4 
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    OriGene qPCR primer pairs and template standards for TTC4
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TTC4
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TTC4

    Additional mRNA sequence: 

    AF063602.1 AF073887.1 AK025524.1 AK090964.1 AK222562.1 AK292426.1 BC001276.1 BT006817.1 

    9 DOTS entries:

    DT.100646459  DT.410073  DT.97777237  DT.121396761  DT.121396793  DT.92435701  DT.95297805  DT.121120788 
    DT.91650177 

    24/214 AceView cDNA sequences (see all 214):

    AK127008 BC029191 CR606917 CR607810 BX443464 CR599311 AU280033 BX282263 
    BM673384 BF445380 CR616622 AL096749 NM_198547 AL043872 AI038486 AA382617 
    AK090964 AX746706 AW027531 CR612462 AL117640 Z39270 CR620756 AW664304 

    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™, 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

    TTC4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTGGGTTGTT
    TTC4 Expression
    About this image


    See TTC4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TTC4

    SOURCE GeneReport for Unigene cluster: Hs.729029
        SABiosciences Custom PCR Arrays for TTC4
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TTC4

    (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 eukaryotes.

    Orthologs for TTC4 gene from 10/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ttc41 , 5 tetratricopeptide repeat domain 41, 5 84.59(n)1
    82.6(a)1
      4 (49.68 cM)5
    723541  NM_028209.21  NP_082485.11 
     1066622565 
    chicken
    (Gallus gallus)
    Aves TTC41 tetratricopeptide repeat domain 4 64.36(n)
    62.6(a)
      429109  XM_426665.3  XP_426665.3 
    lizard
    (Anolis carolinensis)
    Reptilia TTC46
    Uncharacterized protein
    64(a)
    1 ↔ 1
    4(104501098-104513748)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.190662 Xenopus laevis transcribed sequence with weak similarity more 76.22(n)    AW644008.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc564112 similar to tetratricopeptide repeat domain 4 75.03(n)   393981  BC049428.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Dpit471 , 3 DNA polymerase interacting tpr containing protein of more1 35(a)3
    44.72(n)1
    33.33(a)1
      42C33
    355651  NM_080367.21  NP_525106.21 
    worm
    (Caenorhabditis elegans)
    Secernentea C17G10.21 , 3 TPR domain3
    Protein C17G10.21
    34(a)3
    47.48(n)1
    35.9(a)1
      II(5594708-5596310)3
    1739461  NM_062686.21  NP_495087.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes CNS1(YBR155W)4
    CNS11
    TPR-containing co-chaperone; binds both Hsp82p (Hsp9 more4
    Cns1p1
    43.09(n)1
    30.49(a)1
      2(549771-550928)4
    8524521, 4  NP_009713.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G041301 tetratricopeptide repeat-containing protein 44.98(n)
    31.62(a)
      839276  NM_100294.2  NP_563702.1 
    rice
    (Oryza sativa)
    Liliopsida Os03g07501001 hypothetical protein 40.89(n)
    28.87(a)
      4334120  NM_001057816.2  NP_001051281.2 


    ENSEMBL Gene Tree for TTC4 (if available)
    TreeFam Gene Tree for TTC4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TTC4 gene

    TTC4 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TTC4
    PGOHUM00000232681


    (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

    10/776 SNPs in TTC4 are shown (see all 776)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1460676471,2
    C--53313403(+) TCTAC-/AAAAAA 1 -- int10--------
    rs2004716691,2
    --53316326(+) AGAGA-/GAGAGA 1 -- int10--------
    rs1497337961,2
    C--55201838(+) AGAGA-/AAGA  
     AAGAAAG
    GAGAG
    1 -- int10--------
    rs37534001,2
    C--55255895(+) CTTAGG/CTTCCC 1 -- us2k15Minor allele frequency- C:0.14WA NA EA 362
    rs1389870031,2
    --55255898(+) AGGTTA/CCCCTA 1 -- us2k10--------
    rs1867511471,2
    --55255943(+) GTTCTA/TATGGG 1 -- us2k10--------
    rs2020001231,2
    --55255959(+) ATGAG-/AAAAAA 1 -- us2k10--------
    rs1914384091,2
    --55256080(+) TGGAAA/CAGGAG 1 -- us2k10--------
    rs729079781,2
    C--55256115(+) GCTAGG/TACCAG 1 -- us2k11Minor allele frequency- T:0.50WA 2
    rs120673951,2
    C,F--55256195(+) CCATGC/TGCCAT 1 -- us2k15Minor allele frequency- T:0.14WA NA EA 362

    HapMap Linkage Disequilibrium report for TTC4 (55181495 - 55208330 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 7 variations for TTC4:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv829904CNV Loss17160897
    nsv817614CNV Gain22305530
    nsv461561CNV Gain19166990
    nsv461594CNV Gain19166990
    dgv229n71CNV Gain21882294
    esv259828OTHER Complex20981092
    esv259647OTHER Complex20981092

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing TTC4
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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
    OMIM gene information: 606753    OMIM disorders: --

    4 diseases for TTC4:    About MalaCards
    sporadic breast cancer    hepatitis c    breast cancer    hepatitis


    TTC4 for disorders           About GeneDecksing

    Genetic Association Database (GAD): TTC4

    Export disorders for TTC4 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)
    About This Section

    PubMed articles for TTC4 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with TTC4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. TTC4, a novel human gene containing the tetratricopeptide repeat and mapping to the region of chromosome 1p31 that is frequently deleted in sporadic breast cancer. (PubMed id 9933562)1, 2, 3 Su G.... Cowell J.K. (1999)
    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. VCP phosphorylation-dependent interaction partners pre vent apoptosis in Helicobacter pylori-infected gastric epithelial cells. (PubMed id 23383273)1 Yu C.C....Chow L.P. (2013)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    7. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    8. Label-free quantitative proteomics and SAINT analysis enable interactome mapping for the human Ser/Thr protein phosphatase 5. (PubMed id 21360678)1 Skarra D.V....Honkanen R.E. (2011)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 7268 HGNC: 12394 AceView: TTC4andFLJ46354 Ensembl:ENSG00000243725 euGenes: HUgn7268
    ECgene: TTC4 H-InvDB: TTC4

    (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 TTC4 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TTC4 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TTC4 gene:
    Search GeneIP for patents involving TTC4

    GeneCards and IP:
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