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Aliases for TDRD1 Gene

Aliases for TDRD1 Gene

  • Tudor Domain Containing 1 2 3 5
  • Cancer/Testis Antigen 41.1 2 3 4
  • CT41.1 3 4
  • Tudor Domain-Containing Protein 1 3
  • Testicular Tissue Protein Li 193 3

External Ids for TDRD1 Gene

Previous GeneCards Identifiers for TDRD1 Gene

  • GC10P114870
  • GC10P115172
  • GC10P116070
  • GC10P115627
  • GC10P115603
  • GC10P115929
  • GC10P109566

Summaries for TDRD1 Gene

Entrez Gene Summary for TDRD1 Gene

  • This gene is similar to a mouse gene that encodes a tudor domain protein. Alternatively spliced transcript variants have been described but their full length sequences have not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for TDRD1 Gene

TDRD1 (Tudor Domain Containing 1) is a Protein Coding gene. Among its related pathways are Mitotic Prophase and Gene Expression. An important paralog of this gene is TDRD6.

UniProtKB/Swiss-Prot for TDRD1 Gene

  • Plays a central role during spermatogenesis by participating in the repression transposable elements and preventing their mobilization, which is essential for the germline integrity. Acts via the piRNA metabolic process, which mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposons. Required for the localization of Piwi proteins to the meiotic nuage. Involved in the piRNA metabolic process by ensuring the entry of correct transcripts into the normal piRNA pool and limiting the entry of cellular transcripts into the piRNA pathway. May act by allowing the recruitment of piRNA biogenesis or loading factors that ensure the correct entry of transcripts and piRNAs into Piwi proteins (By similarity).

Additional gene information for TDRD1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TDRD1 Gene

Genomics for TDRD1 Gene

Regulatory Elements for TDRD1 Gene

Enhancers for TDRD1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10H114239 1.1 Ensembl ENCODE 16.5 +65.3 65326 1.4 CTCF KLF1 SIN3A ZNF266 RAD21 HIC1 E2F1 GLIS2 ZNF366 PATZ1 TDRD1 FAM160B1 CCDC186 VWA2 AURKAPS2
GH10H114270 1 Ensembl ENCODE 15.4 +97.3 97289 1.5 PKNOX1 JUN ZSCAN4 SIN3A POLR2A SCRT2 FOSL2 ZNF600 PRDM10 FOS TDRD1 VWA2 ENSG00000275024 AURKAPS2
GH10H114259 0.7 Ensembl ENCODE 19.1 +86.4 86386 1.8 ZNF664 IKZF1 RUNX3 VWA2 TDRD1 AURKAPS2 ENSG00000275024
GH10H114150 0.6 ENCODE 21.5 -22.8 -22766 1.5 JUND RFX1 ZSCAN5C JUN FOSL2 FOS TDRD1 VWA2 RNU6-709P ADRB1 ENSG00000273904 UBE2V1P5
GH10H114171 1.1 ENCODE 10.4 -0.8 -814 3.6 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 SP3 TDRD1 VWA2 MIR2110 GC10M114175 ENSG00000273904
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TDRD1 on UCSC Golden Path with GeneCards custom track

Promoters for TDRD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000033738 -542 2601 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 FOS

Genomic Locations for TDRD1 Gene

Genomic Locations for TDRD1 Gene
chr10:114,174,442-114,232,669
(GRCh38/hg38)
Size:
58,228 bases
Orientation:
Plus strand
chr10:115,939,029-115,992,063
(GRCh37/hg19)

Genomic View for TDRD1 Gene

Genes around TDRD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TDRD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TDRD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TDRD1 Gene

Proteins for TDRD1 Gene

  • Protein details for TDRD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BXT4-TDRD1_HUMAN
    Recommended name:
    Tudor domain-containing protein 1
    Protein Accession:
    Q9BXT4
    Secondary Accessions:
    • A6NEN3
    • A6NMN2
    • B3KVI4
    • B4E2L5
    • D3DRC2
    • Q4G0Y8
    • Q6P518
    • Q9H7B3

    Protein attributes for TDRD1 Gene

    Size:
    1180 amino acids
    Molecular mass:
    132024 Da
    Quaternary structure:
    • Found in a mRNP complex, at least composed of TDRD1, TDRD6, TDRD7 and DDX4. Interacts with MAEL. Interacts with PIWIL1, PIWIL2 and PIWIL4 (when methylated on arginine residues). Interacts with TDRD12 (By similarity).
    SequenceCaution:
    • Sequence=AAH35010.1; Type=Miscellaneous discrepancy; Note=Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAK31985.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAK31985.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence.; Evidence={ECO:0000305}; Sequence=BAB14982.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB14982.1; Type=Miscellaneous discrepancy; Note=Potential poly-A sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TDRD1 Gene

    Alternative splice isoforms for TDRD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TDRD1 Gene

Post-translational modifications for TDRD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TDRD1 Gene

Domains & Families for TDRD1 Gene

Gene Families for TDRD1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for TDRD1 Gene

Suggested Antigen Peptide Sequences for TDRD1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BXT4

UniProtKB/Swiss-Prot:

TDRD1_HUMAN :
  • Tudor domains 2 and 3 have higher affinity for arginine-methylated peptides, tudor domain 1 is a poor binder due to an impaired aromatic cage.
  • Belongs to the TDRD1 family.
Domain:
  • Tudor domains 2 and 3 have higher affinity for arginine-methylated peptides, tudor domain 1 is a poor binder due to an impaired aromatic cage.
Family:
  • Belongs to the TDRD1 family.
genes like me logo Genes that share domains with TDRD1: view

Function for TDRD1 Gene

Molecular function for TDRD1 Gene

UniProtKB/Swiss-Prot Function:
Plays a central role during spermatogenesis by participating in the repression transposable elements and preventing their mobilization, which is essential for the germline integrity. Acts via the piRNA metabolic process, which mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposons. Required for the localization of Piwi proteins to the meiotic nuage. Involved in the piRNA metabolic process by ensuring the entry of correct transcripts into the normal piRNA pool and limiting the entry of cellular transcripts into the piRNA pathway. May act by allowing the recruitment of piRNA biogenesis or loading factors that ensure the correct entry of transcripts and piRNAs into Piwi proteins (By similarity).

Gene Ontology (GO) - Molecular Function for TDRD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TDRD1: view
genes like me logo Genes that share phenotypes with TDRD1: view

Animal Models for TDRD1 Gene

MGI Knock Outs for TDRD1:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TDRD1 Gene

Localization for TDRD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TDRD1 Gene

Cytoplasm. Note=Component of the meiotic nuage, also named P granule, a germ-cell-specific organelle required to repress transposon activity during meiosis. Also present in chromatoid body (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TDRD1 gene
Compartment Confidence
nucleus 3
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for TDRD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm ISS --
GO:0030529 intracellular ribonucleoprotein complex IEA --
GO:0033391 chromatoid body IEA --
GO:0043186 P granule ISS --
GO:0071546 pi-body ISS --
genes like me logo Genes that share ontologies with TDRD1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TDRD1 Gene

Pathways & Interactions for TDRD1 Gene

genes like me logo Genes that share pathways with TDRD1: view

Pathways by source for TDRD1 Gene

Gene Ontology (GO) - Biological Process for TDRD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007281 germ cell development ISS --
GO:0007283 spermatogenesis ISS --
GO:0030154 cell differentiation IEA --
GO:0031047 gene silencing by RNA ISS --
genes like me logo Genes that share ontologies with TDRD1: view

No data available for SIGNOR curated interactions for TDRD1 Gene

Drugs & Compounds for TDRD1 Gene

No Compound Related Data Available

Transcripts for TDRD1 Gene

Unigene Clusters for TDRD1 Gene

Tudor domain containing 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TDRD1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21a · 21b ^ 22 ^
SP1: -
SP2: - - -
SP3:
SP4: - - -

ExUns: 23 ^ 24 ^ 25 ^ 26a · 26b · 26c ^ 27
SP1: -
SP2:
SP3:
SP4:

Relevant External Links for TDRD1 Gene

GeneLoc Exon Structure for
TDRD1
ECgene alternative splicing isoforms for
TDRD1

Expression for TDRD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TDRD1 Gene

mRNA differential expression in normal tissues according to GTEx for TDRD1 Gene

This gene is overexpressed in Testis (x30.0).

Protein differential expression in normal tissues from HIPED for TDRD1 Gene

This gene is overexpressed in Ovary (25.3), Bone marrow mesenchymal stem cell (20.7), and Testis (16.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TDRD1 Gene



Protein tissue co-expression partners for TDRD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of TDRD1 Gene:

TDRD1

SOURCE GeneReport for Unigene cluster for TDRD1 Gene:

Hs.333132

mRNA Expression by UniProt/SwissProt for TDRD1 Gene:

Q9BXT4-TDRD1_HUMAN
Tissue specificity: Testis and ovary specific. Also expressed in several cancers.
genes like me logo Genes that share expression patterns with TDRD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TDRD1 Gene

Orthologs for TDRD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for TDRD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TDRD1 33 34
  • 99.52 (n)
dog
(Canis familiaris)
Mammalia TDRD1 33 34
  • 86.76 (n)
cow
(Bos Taurus)
Mammalia LOC536516 33
  • 84.75 (n)
TDRD1 34
  • 79 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tdrd1 33 16 34
  • 76.68 (n)
rat
(Rattus norvegicus)
Mammalia Tdrd1 33
  • 76.68 (n)
oppossum
(Monodelphis domestica)
Mammalia TDRD1 34
  • 67 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TDRD1 34
  • 56 (a)
OneToOne
chicken
(Gallus gallus)
Aves TDRD1 33 34
  • 59.43 (n)
lizard
(Anolis carolinensis)
Reptilia TDRD1 34
  • 41 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100216261 33
  • 51.24 (n)
zebrafish
(Danio rerio)
Actinopterygii tdrd1 33 34
  • 50.88 (n)
fruit fly
(Drosophila melanogaster)
Insecta qin 34
  • 11 (a)
ManyToMany
tud 34
  • 7 (a)
ManyToMany
Species where no ortholog for TDRD1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TDRD1 Gene

ENSEMBL:
Gene Tree for TDRD1 (if available)
TreeFam:
Gene Tree for TDRD1 (if available)

Paralogs for TDRD1 Gene

Paralogs for TDRD1 Gene

(1) SIMAP similar genes for TDRD1 Gene using alignment to 5 proteins:

Pseudogenes.org Pseudogenes for TDRD1 Gene

genes like me logo Genes that share paralogs with TDRD1: view

Variants for TDRD1 Gene

Sequence variations from dbSNP and Humsavar for TDRD1 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000004087 -- 114,183,870(+) TCCCA(A/G)AGTGC intron-variant
rs1000074085 -- 114,219,856(+) CAAAG(G/T)GCTGG intron-variant
rs1000136737 -- 114,178,203(+) AAAGA(A/C)ACATC intron-variant, upstream-variant-2KB
rs1000193160 -- 114,207,403(+) TTCCC(C/T)ACTAC intron-variant
rs1000222188 -- 114,189,438(+) CCCTT(A/T)ACTTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TDRD1 Gene

Variant ID Type Subtype PubMed ID
nsv7211 OTHER inversion 18451855

Variation tolerance for TDRD1 Gene

Residual Variation Intolerance Score: 15.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.51; 43.84% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TDRD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TDRD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TDRD1 Gene

Disorders for TDRD1 Gene

Relevant External Links for TDRD1

Genetic Association Database (GAD)
TDRD1
Human Genome Epidemiology (HuGE) Navigator
TDRD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TDRD1

No disorders were found for TDRD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TDRD1 Gene

Publications for TDRD1 Gene

  1. An abundance of X-linked genes expressed in spermatogonia. (PMID: 11279525) Wang PJ … Page DC (Nature genetics 2001) 2 3 4 60
  2. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 45 60
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  4. Association of a TDRD1 variant with spermatogenic failure susceptibility in the Han Chinese. (PMID: 27233649) Zhu XB … Li Z (Journal of assisted reproduction and genetics 2016) 3 60
  5. The Germ Cell Gene TDRD1 as an ERG Target Gene and a Novel Prostate Cancer Biomarker. (PMID: 27272765) Xiao L … He B (The Prostate 2016) 3 60

Products for TDRD1 Gene

Sources for TDRD1 Gene

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