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TTC25 Gene

protein-coding   GIFtS: 44
GCID: GC17P040086

Tetratricopeptide Repeat Domain 25

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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
Tetratricopeptide Repeat Domain 251 2
TPR Repeat Protein 252 3
Tetratricopeptide Repeat Protein 252

External Ids:    HGNC: 252801   Entrez Gene: 835382   Ensembl: ENSG000002048157   UniProtKB: Q96NG33   

Export aliases for TTC25 gene to outside databases

Previous GC identifers: GC17P037341 GC17P035848


(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 TTC25 Gene:
TTC25 (tetratricopeptide repeat domain 25) is a protein-coding gene.

Gene Wiki entry for TTC25 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 at NCBI GenBank:
NC_000017.10  NT_010783.16  NC_018928.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TTC25 gene promoter:
         Max1   c-Myc   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTTC25 promoter sequence
   Search Chromatin IP Primers for TTC25

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TTC25


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

Entrez Gene cytogenetic band: 17q21.2   Ensembl cytogenetic band:  17q21.2   HGNC cytogenetic band: 17q21.2

TTC25 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TTC25 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P040086:  view genomic region     (about GC identifiers)

Start:
40,086,888 bp from pter      End:
40,117,669 bp from pter
Size:
30,782 bases      Orientation:
plus strand

1 alternative location:
Chr17+,NW_003571052 217,277-252,293     

(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: TTC25_HUMAN, Q96NG3 (See protein sequence)
Recommended Name: Tetratricopeptide repeat protein 25  
Size: 672 amino acids; 76655 Da
Sequence caution: Sequence=AAH67297.1; Type=Frameshift; Positions=661;
Secondary accessions: Q6NX40 Q6PJ04 Q9H0K5
Alternative splicing: 2 isoforms:  Q96NG3-1   Q96NG3-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TTC25: NX_Q96NG3

Explore proteomics data for TTC25 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TTC25 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_113609.1  

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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

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

    Graphical View of Domain Structure for InterPro Entry Q96NG3

    ProtoNet protein and cluster: Q96NG3

    UniProtKB/Swiss-Prot: TTC25_HUMAN, Q96NG3
    Similarity: Contains 8 TPR repeats


    Find genes that share domains with TTC25           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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    Phenotypes:
         1 GenomeRNAi human phenotype for TTC25:
     Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TTC25
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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

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA--

    Find genes that share ontologies with TTC25           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 TTC25
    Interactions:

        Search GeneGlobe Interaction Network for TTC25

    3 Interacting proteins for TTC25 (Q96NG33) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SNAI1O958633I2D: score=2 
    MDFIQ997503I2D: score=1 
    NCAPH2Q6IBW43I2D: score=1 
    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 TTC25



    (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 TTC25 gene: 
    NM_031421.3  

    Unigene Cluster for TTC25:

    Tetratricopeptide repeat domain 25
    Hs.201134  [show with all ESTs]
    Unigene Representative Sequence: NM_031421
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000593239(processed_transcript) ENST00000591658(processed_transcript) ENST00000585530(processed_transcript) ENST00000377540(processed_transcript)
    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat TTC25

    Additional mRNA sequence: 

    AK055498.1 AL136760.1 BC025390.1 BC067297.1 

    3 DOTS entries:

    DT.75146270  DT.99972744  DT.95256505 

    Selected AceView cDNA sequences (see all 26):

    CR592419 BQ638978 BM987052 CA430224 CA430190 CD683632 BG718903 BM973731 
    CD243617 BU621757 CD171877 BC025390 BC067297 AW028512 AK055498 AI683637 
    NM_031421 CD684957 AL522479 AL136760 AL522480 CD695422 BX349904 BX348646 

    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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    TTC25 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGATTTTATT
    TTC25 Expression
    About this image


    TTC25 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 4) fully expand
     
     Adipose (Muscoskeletal System)
             Interscapular Brown Adipose Depot
     
     Eye (Sensory Organs)
             Retina
     
     Brain (Nervous System)
             Myelinating Oligodendrocyte Cells Forebrain White Matter
     
     Testis (Reproductive System)
    TTC25 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TTC25 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.201134
        Custom PCR Arrays for TTC25
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TTC25

    (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 animals.

    Orthologs for TTC25 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ttc251 , 5 tetratricopeptide repeat domain 251, 5 81.43(n)1
    81(a)1
      11 (63.47 cM)5
    744071  NM_028918.21  NP_083194.21 
     1005456075 
    chicken
    (Gallus gallus)
    Aves TTC251 tetratricopeptide repeat domain 25 68.72(n)
    63.89(a)
      100857899  XM_003642823.2  XP_003642871.2 
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.15072 Xenopus laevis transcribed sequence with weak similarity more 76.19(n)    BU906924.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc563622 hypothetical protein MGC56362 78.65(n)   393286  BC051126.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG135021 CG13502 49.77(n)
    41.86(a)
      37518  NM_001259526.2  NP_001246455.1 


    ENSEMBL Gene Tree for TTC25 (if available)
    TreeFam Gene Tree for TTC25 (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 TTC25 (see all 456)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs47967421,2
    C,F,A--40085038(+) GAGGCA/GGAGAT 1 -- us2k1 tfbs37Minor allele frequency- G:0.21NA WA 14
    rs341370891,2
    C--40085106(+) AAAAG-/A/AA  
            
    CTGCT
    1 -- us2k10--------
    rs2004169011,2
    C--40085181(+) GGAGG-/TTTTTT 1 -- us2k10--------
    rs65036751,2
    C,F,A,H--40085665(+) TACGTT/CTACTG 1 -- us2k132Minor allele frequency- C:0.26NS EA NA WA CSA 2994
    rs1159083191,2
    C,F--40085900(+) GGGACC/TATATT 1 -- us2k11Minor allele frequency- T:0.03WA 118
    rs347051371,2
    C--40086118(+) ATGCC-/GT    
       
    /GTGT
    GTGTG
    1 -- us2k11CSA 2
    rs98070111,2
    C,F,H--40086124(+) gtgtgT/Ggtgtg 1 -- us2k18Minor allele frequency- G:0.08NS NA 1088
    rs2018005811,2
    C--40086978(+) CACCAC/TGTCGG 2 T M mis10--------
    rs345165801,2,,4
    C,F--40086986(+) CGGACC/TCCGAA 2 P S mis15Minor allele frequency- T:0.05NA EU 789
    rs355169091,2,,4
    C,F--40087029(+) TATGGC/GCGAAG 2 A G mis13Minor allele frequency- G:0.29NA 68

    HapMap Linkage Disequilibrium report for TTC25 (40086888 - 40117669 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for TTC25:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv509658CNV Insertion20534489
    nsv2056CNV Insertion18451855
    esv994529CNV Insertion20482838
    nsv833447CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing TTC25
    DNA2.0 Custom Variant and Variant Library Synthesis for TTC25

    (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 TTC25 gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with TTC25)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2 Wiemann S.... Poustka A. (Genome Res. 2001)
    3. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    4. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    5. Large-scale mapping of human protein-protein interactions by mass spectrometry. (PubMed id 17353931)1 Ewing R.M....Figeys D. (Mol. Syst. Biol. 2007)
    6. The LIFEdb database in 2006. (PubMed id 16381901)1 Mehrle A....Wiemann S. (Nucleic Acids Res. 2006)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    8. From ORFeome to biology: a functional genomics pipeline. (PubMed id 15489336)1 Wiemann S....Poustka A. (Genome Res. 2004)
    9. 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)
    10. Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. (PubMed id 11256614)1 Simpson J.C.... Wiemann S. (EMBO Rep. 2000)

    (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: 83538 HGNC: 25280 AceView: DKFZP434H0115 Ensembl:ENSG00000204815 euGenes: HUgn83538
    ECgene: TTC25 H-InvDB: TTC25

    (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 TTC25 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 TTC25 gene:
    Search GeneIP for patents involving TTC25

    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 TTC25
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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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