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TDRP Gene

protein-coding   GIFtS: 28
GCID: GC08M000443

Testis Development Related Protein

(Previous name: chromosome 8 open reading frame 42)
(Previous symbol: C8orf42)
  Search for TDRP
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
Testis Development Related Protein1 2     TDRP12
C8orf421 2 3     TDRP22
Chromosome 8 Open Reading Frame 421     Testis Development-Related Protein2
Inm012     Protein INM013

External Ids:    HGNC: 269511   Entrez Gene: 1576952   Ensembl: ENSG000001801907   UniProtKB: Q86YL53   

Export aliases for TDRP gene to outside databases

Previous GC identifer: GC08M000440


(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 TDRP Gene:
TDRP (testis development related protein) 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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Regulatory elements:
   Search for regulatory transcription factor binding sites for TDRP
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTDRP promoter sequence
   Search Chromatin IP Primers for TDRP

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


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

Entrez Gene cytogenetic band: 8p23.3   Ensembl cytogenetic band:  8p23.3   HGNC cytogenetic band: 8p23.3

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

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08M000443:  view genomic region     (about GC identifiers)

Start:
439,803 bp from pter      End:
495,781 bp from pter
Size:
55,979 bases      Orientation:
minus 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: TDRP_HUMAN, Q86YL5 (See protein sequence)
Recommended Name: Testis development-related protein  
Size: 185 amino acids; 20403 Da
Secondary accessions: B6VF03 B9EG53
Alternative splicing: 2 isoforms:  Q86YL5-1   Q86YL5-2   

Explore the universe of human proteins at neXtProt for TDRP: NX_Q86YL5

Explore proteomics data for TDRP at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

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

    REFSEQ proteins (2 alternative transcripts): 
    NP_001243042.1  NP_778250.2  

    ENSEMBL proteins: 
     ENSP00000315111   ENSP00000430325   ENSP00000408126  

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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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    ProtoNet protein and cluster: Q86YL5


    (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): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674molecular_function ND--
         
    Find genes that share ontologies with TDRP           About GenesLikeMe


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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
    TDRP_HUMAN, Q86YL5: Nucleus. Cytoplasm

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005737cytoplasm IDA--

    Find genes that share ontologies with TDRP           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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    Interactions:

        Search GeneGlobe Interaction Network for TDRP

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007283spermatogenesis IDA--

    Find genes that share ontologies with TDRP           About GenesLikeMe



    (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 TDRP



    (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 TDRP gene (2 alternative transcripts): 
    NM_001256113.1  NM_175075.4  

    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000324079(uc011kwg.1 uc003wpd.3) ENST00000523656 ENST00000524229
    ENST00000427263
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    Selected AceView cDNA sequences (see all 124):

    AA366166 AA234990 CK429755 AI610818 Z41324 BM129746 AA902144 AA236185 
    Z45653 BM680744 CB110976 BQ030381 F06260 AV660883 AI632224 AI669762 
    CK906328 F02533 T23440 BE856081 AI648611 AY194292 Z43054 N57671 

    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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    See probesets specificity/sensitivity at GeneAnnot
    CGAP TAG: --

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

    TDRP Protein Expression

    UniProtKB/Swiss-Prot: TDRP_HUMAN, Q86YL5
    Tissue specificity: Expressed in spermatogenic cells, especially in spermatocytes (at protein level)

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    (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 TDRP gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia 2610019F03Rik5
    Tdrp1
    RIKEN cDNA 2610019F03 gene5
    testis development related protein1
    78.45(n)1
    76.8(a)1
      8 (6.44 cM)5
    721481  NM_173744.41  NP_776105.11 
     139520095 
    chicken
    (Gallus gallus)
    Aves C8ORF421 chromosome 3 open reading frame, human C8orf42 72.41(n)
    71.03(a)
      421905  XM_419923.4  XP_419923.3 
    lizard
    (Anolis carolinensis)
    Reptilia TDRP6
    testis development related protein
    50(a)
    1 ↔ 1
    1(159668495-159708192)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.29362 Xenopus laevis transcribed sequences 78.04(n)    BU914254.1 


    ENSEMBL Gene Tree for TDRP (if available)
    TreeFam Gene Tree for TDRP (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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    Polymorphic Variants from UniProtKB/Swiss-Prot
    TDRP_HUMAN, Q86YL5: The poly-Ala region seems to be polymorphic and the number of Ala varies between 4 and 6


    Selected SNPs for TDRP (see all 1908)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1856543491,2
    --439323(+) AGGGTG/TGAGTA 2 -- int10--------
    rs735279181,2
    C,F--439324(+) GGGTGG/CAGTAG 2 -- int12Minor allele frequency- C:0.36WA 120
    rs1913463791,2
    --439362(+) GAGGTC/TGGCGA 2 -- int10--------
    rs1431857401,2
    C--439363(+) AGGTCA/GGCGAG 2 -- int10--------
    rs1818720011,2
    --439428(+) ATGGCC/GCTGGG 2 -- int10--------
    rs1141012211,2
    F--439479(+) AGGCAC/ATGCAG 2 -- int11Minor allele frequency- A:0.03WA 118
    rs47358491,2
    C,F,A,H--439596(+) TAAAAA/GTGAAT 2 -- int18Minor allele frequency- G:0.13NS EA NA CSA WA 519
    rs1867721621,2
    --439695(+) CAGCCA/GGGGTG 2 -- int10--------
    rs1921293961,2
    --439738(+) GCCCTA/GCACCA 2 -- int10--------
    rs1833542031,2
    --439924(+) CAATAA/GTCATG 2 -- ut310--------

    HapMap Linkage Disequilibrium report for TDRP (439803 - 495781 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for TDRP: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TDRP
    DNA2.0 Custom Variant and Variant Library Synthesis for TDRP

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

    1. Molecular cloning of a novel nuclear factor, TDRP1, in spermatogenic cells of testis and its relationship with spermatogenesis. (PubMed id 20170638)1, 2, 3 Wang X.... Hu R. (Biochem. Biophys. Res. Commun. 2010)
    2. 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)
    3. Mayo Genome Consortia: a genotype-phenotype resource for genome-wide association studies with an application to the analysis of circulating bilirubin levels. (PubMed id 21646302)1 Bielinski S.J....Chute C.G. (Mayo Clin. Proc. 2011)
    4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    5. DNA sequence and analysis of human chromosome 8. (PubMed id 16421571)2 Nusbaum C....Lander E.S. (Nature 2006)
    6. Gene expression profiling in human insulinoma tissue: genes involved in the insulin secretion pathway and cloning of novel full-length cDNAs. (PubMed id 15163304)2 Wang X.-C....Hu R.-M. (Endocr. Relat. Cancer 2004)
    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)
    9. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)
    10. 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)

    (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: 157695 HGNC: 26951 AceView: INM01 Ensembl:ENSG00000180190 euGenes: HUgn157695
    ECgene: TDRP H-InvDB: TDRP

    (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 TDRP 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 TDRP gene:
    Search GeneIP for patents involving TDRP

    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
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     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

     Novus Tissue Slides
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     Search for Antibodies for TDRP at Abcam
     See all of Abcam's Antibodies, Kits and Proteins for TDRP
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     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins
     Browse Proteins at Cloud-Clone Corp.
     Browse Antibodies at Cloud-Clone Corp.
     Browse ELISAs at Cloud-Clone Corp.
     Browse CLIAs at Cloud-Clone Corp.



     Browse ESI BIO Cell Lines and PureStem Progenitors for TDRP
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     SwitchGear 3'UTR luciferase reporter plasmids for TDRP
     SwitchGear Promoter luciferase reporter plasmids for TDRP
     Search ThermoFisher Antibodies for TDRP
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TDRP
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TDRP
     inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for TDRP
     Search LSBio for Antibodies for TDRP
    Customized transgenic rodents for:
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     Browse compounds at ApexBio
     Search Addgene for plasmids for TDRP
      Search eBioscience for proteins for TDRP
      Search eBioscience for elisas for TDRP
      eBioscience FlowRNA Probe Sets
           
    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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