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TDRD10 Gene

protein-coding   GIFtS: 42
GCID: GC01P154474

Tudor Domain Containing 10

  Search for TDRD10
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
Tudor Domain Containing 101 2
Tudor Domain-Containing Protein 102

External Ids:    HGNC: 253161   Entrez Gene: 1266682   Ensembl: ENSG000001632397   UniProtKB: Q5VZ193   

Export aliases for TDRD10 gene to outside databases

Previous GC identifers: GC01P151307 GC01P152741 GC01P125838


(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 TDRD10 Gene:
TDRD10 (tudor domain containing 10) is a protein-coding gene. GO annotations related to this gene include RNA binding and nucleotide binding.


(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_000001.11  NT_004487.20  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TDRD10 gene promoter:
         E2F-4   E2F-3a   E2F-5   Elk-1   E2F-2   CREB   AREB6   E2F   E2F-1   deltaCREB   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTDRD10 promoter sequence
   Search Chromatin IP Primers for TDRD10

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TDRD10


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

Entrez Gene cytogenetic band: 1q21.3   Ensembl cytogenetic band:  1q21.3   HGNC cytogenetic band: 1q21.3

TDRD10 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TDRD10 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P154474:  view genomic region     (about GC identifiers)

Start:
154,474,695 bp from pter      End:
154,520,623 bp from pter
Size:
45,929 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, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: TDR10_HUMAN, Q5VZ19 (See protein sequence)
Recommended Name: Tudor domain-containing protein 10  
Size: 366 amino acids; 40941 Da
Sequence caution: Sequence=AAH44864.1; Type=Erroneous initiation; Sequence=AAI00896.1; Type=Erroneous initiation;
Sequence=AAI00897.1; Type=Erroneous initiation; Sequence=AAI00898.1; Type=Erroneous initiation;
Sequence=AAI00899.1; Type=Erroneous initiation; Sequence=AAQ88562.1; Type=Erroneous initiation;
Sequence=CAD28538.1; Type=Frameshift; Positions=93, 242; Sequence=CAH72850.1; Type=Erroneous gene model
prediction; Sequence=CAI16182.1; Type=Erroneous gene model prediction; Sequence=CAI16188.1; Type=Erroneous gene
model prediction; Sequence=CAQ08365.1; Type=Erroneous gene model prediction; Sequence=CAQ10669.1; Type=Erroneous
gene model prediction;
Secondary accessions: A4FU09 B0QZ53 B4DXV4 Q3ZCP1 Q3ZCS7 Q5SXY7 Q6UXV2 Q8TCN3
Alternative splicing: 2 isoforms:  Q5VZ19-1   Q5VZ19-2   

Explore the universe of human proteins at neXtProt for TDRD10: NX_Q5VZ19

Explore proteomics data for TDRD10 at MOPED


See TDRD10 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_001091945.1  NP_872305.3  

ENSEMBL proteins: 
 ENSP00000357467   ENSP00000357465  

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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:
TDRD: Tudor domain containing
RBM: RNA binding motif (RRM) containing

3 InterPro protein domains:
 IPR000504 RRM_dom
 IPR012677 Nucleotide-bd_a/b_plait
 IPR002999 Tudor

Graphical View of Domain Structure for InterPro Entry Q5VZ19

ProtoNet protein and cluster: Q5VZ19

UniProtKB/Swiss-Prot: TDR10_HUMAN, Q5VZ19
Similarity: Contains 1 RRM (RNA recognition motif) domain
Similarity: Contains 1 Tudor domain


TDRD10 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): 3 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000166nucleotide binding IEA--
GO:0003676nucleic acid binding ----
GO:0003723RNA binding IEA--
     
TDRD10 for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for TDRD10:
 Decreased viability of wild-ty 

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
cytosol2
nucleus2
mitochondrion1
plasma membrane1

(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 TDRD10
Interactions:

    Search GeneGlobe Interaction Network for TDRD10

(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 TDRD10 (TDR10)



(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, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for TDRD10 gene (2 alternative transcripts): 
NM_001098475.1  NM_182499.3  

Unigene Cluster for TDRD10:

Tudor domain containing 10
Hs.387671  [show with all ESTs]
Unigene Representative Sequence: NM_001098475
5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000368482(uc001ffd.3 uc009wow.3) ENST00000368480(uc001ffe.3)
ENST00000479937 ENST00000468714 ENST00000462871
miRNA
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Additional mRNA sequence: 

AK302144.1 AL713777.1 AY358195.1 BC044864.1 BC100895.1 BC100896.1 BC100897.2 BC100898.2 

6 DOTS entries:

DT.40250579  DT.100746749  DT.410927  DT.100746747  DT.100746748  DT.99936239 

23 AceView cDNA sequences:

BQ006663 AA030057 AW002428 BX092466 AI654822 AL713777 BM666171 AY358195 
NM_182499 AA040136 AA131796 AA131846 BM711075 AA040089 AA401393 AA401417 
AA131789 AI468240 AA028977 AI798677 AI208853 AI808134 AI809387 

GeneLoc Exon Structure

5 Alternative Splicing Database (ASD) splice patterns (SP) for TDRD10    About this scheme

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12
SP1:                    -     -     -     -                                               -         
SP2:                    -     -     -     -                                                         
SP3:                                      -                       -                                 
SP4:                                                  -                                             
SP5:                                                                                                


ECgene alternative splicing isoforms for TDRD10

(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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TDRD10 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AACATTTGAA
TDRD10 Expression
About this image

TDRD10 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TDRD10 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.387671
    Custom PCR Arrays for TDRD10
Primer
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In Situ
Assay Products:
 

 
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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 TDRD10 gene from Selected species (see all 4)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
oppossum
(Monodelphis domestica)
Mammalia TDRD106
tudor domain containing 10
55(a)
1 ↔ 1
2(188866990-188909512)
tropical clawed frog
(Xenopus tropicalis)
Amphibia LOC1004909131 uncharacterized LOC100490913 51.3(n)
40(a)
  100490913  XM_004920016.1  XP_004920073.1 


ENSEMBL Gene Tree for TDRD10 (if available)
TreeFam Gene Tree for TDRD10 (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 TDRD10 (see all 938)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1829504641,2
--154476578(+) TGTCTA/GGTCAG 2 -- int10--------
rs1482319751,2
--154476607(+) AATCAC/TGCAAT 2 -- int10--------
rs66625031,2
C,F,A--154477069(+) ttatcA/Tttgtg 2 -- int111Minor allele frequency- T:0.18WA NA CSA EA 374
rs1872906631,2
--154477125(+) TTCATA/GTGCTT 2 -- int10--------
rs1916561471,2
--154477133(+) CTTATC/TGGCCA 2 -- int10--------
rs1823702861,2
--154477204(+) TGTTGA/TCTTTG 2 -- int10--------
rs66961771,2
C,F,A--154477263(+) ACACAA/GATAAa 2 -- int112Minor allele frequency- G:0.18WA NA CSA EA 376
rs121180181,2
C,A--154477440(+) CCTGGA/GCGACA 2 -- int15Minor allele frequency- G:0.37NA 128
rs1874407451,2
--154477472(+) ACAAAA/CAACAA 2 -- int10--------
rs1412320871,2
--154477478(+) AACAAC/TAACAA 2 -- int10--------

HapMap Linkage Disequilibrium report for TDRD10 (154474695 - 154520623 bp)

Structural Variations
     Database of Genomic Variants (DGV) 4 variations for TDRD10:    About this table    
Variant IDTypeSubtypePubMed ID
nsv506960CNV Insertion20534489
esv23279CNV Loss19812545
nsv160554CNV Loss16902084
nsv521887CNV Gain19592680

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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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TDRD10 for disorders           About GeneDecksing

Genetic Association Database (GAD): TDRD10
Human Genome Epidemiology (HuGE) Navigator: TDRD10 (1 document)

Export disorders for TDRD10 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)
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PubMed articles for TDRD10 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TDRD10)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2, 3 Clark H.F.... Gray A.M. (Genome Res. 2003)
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
  3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
  4. 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)
  5. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (BMC Genomics 2007)
  6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
  7. 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: 126668 HGNC: 25316 AceView: DKFZp434M202 Ensembl:ENSG00000163239 euGenes: HUgn126668
ECgene: TDRD10 H-InvDB: TDRD10

(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 TDRD10 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 TDRD10 gene:
Search GeneIP for patents involving TDRD10

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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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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