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TDRD3 Gene(Protein Coding)

Tudor Domain Containing 3

GCID:
GC13P060396
GIFtS:
54
Genes Participants
UDN Logo

Aliases for TDRD3 Gene

Aliases for TDRD3 Gene

  • Tudor Domain Containing 3 2 3 5

External Ids for TDRD3 Gene

Previous GeneCards Identifiers for TDRD3 Gene

  • GC13P054966
  • GC13P059907
  • GC13P058768
  • GC13P058769
  • GC13P059868
  • GC13P060970
  • GC13P041662

Summaries for TDRD3 Gene

GeneCards Summary for TDRD3 Gene

TDRD3 (Tudor Domain Containing 3) is a Protein Coding gene. Diseases associated with TDRD3 include Fragile X Syndrome. Among its related pathways are Translational Control and Chromatin Regulation / Acetylation. GO annotations related to this gene include poly(A) RNA binding and chromatin binding. An important paralog of this gene is RMI1.

UniProtKB/Swiss-Prot for TDRD3 Gene

  • Scaffolding protein that specifically recognizes and binds dimethylarginine-containing proteins. In nucleus, acts as a coactivator: recognizes and binds asymmetric dimethylation on the core histone tails associated with transcriptional activation (H3R17me2a and H4R3me2a) and recruits proteins at these arginine-methylated loci. In cytoplasm, may play a role in the assembly and/or disassembly of mRNA stress granules and in the regulation of translation of target mRNAs by binding Arg/Gly-rich motifs (GAR) in dimethylarginine-containing proteins.

Gene Wiki entry for TDRD3 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TDRD3 Gene

Genomics for TDRD3 Gene

Products:

  1. Regulatory Element

Regulatory Elements for TDRD3 Gene

Enhancers for TDRD3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TDRD3 on UCSC Golden Path with GeneCards custom track

Promoters for TDRD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TDRD3 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the TDRD3 gene promoter:

Genomic Location for TDRD3 Gene

Chromosome:
13
Start:
60,396,457 bp from pter
End:
60,573,879 bp from pter
Size:
177,423 bases
Orientation:
Plus strand

Genomic View for TDRD3 Gene

Genes around TDRD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TDRD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TDRD3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TDRD3 Gene

Proteins for TDRD3 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for TDRD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H7E2-TDRD3_HUMAN
    Recommended name:
    Tudor domain-containing protein 3
    Protein Accession:
    Q9H7E2
    Secondary Accessions:
    • B2MWP9
    • Q53XA6
    • Q6P992

    Protein attributes for TDRD3 Gene

    Size:
    651 amino acids
    Molecular mass:
    73185 Da
    Quaternary structure:
    • Component of mRNA stress granules. Interacts with FMR1, FXR1, FXR2, EWSR1, FUS, SERBP1, EEF1A1 and DDX3X or DDX3Y, and with the small nuclear ribonucleoprotein-associated proteins SNRPB and SNRPN. Interacts with Lys-48-linked tetra-ubiquitin, but not with monoubiquitin or Lys-63-linked ubiquitin chains. May interact with the exon junction complex (EJC) composed at least of CASC3, EIF4A3, MAGOH and RBM8A. Interacts with POLR2A (via the C-terminal domain (CTD)).

    Three dimensional structures from OCA and Proteopedia for TDRD3 Gene

    Alternative splice isoforms for TDRD3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TDRD3 Gene

Proteomics data for TDRD3 Gene at MOPED

Protein Expression for TDRD3 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for TDRD3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TDRD3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for TDRD3 (TDRD3)

No data available for DME Specific Peptides for TDRD3 Gene

Domains & Families for TDRD3 Gene

Gene Families for TDRD3 Gene

HGNC:

Protein Domains for TDRD3 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for TDRD3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H7E2

UniProtKB/Swiss-Prot:

TDRD3_HUMAN :
  • The Tudor domain specifically recognizes and binds asymmetric dimethylation of histone H3 Arg-17 (H3R17me2a) and histones H4 Arg-3, 2 tags for epigenetic transcriptional activation.
Domain:
  • The Tudor domain specifically recognizes and binds asymmetric dimethylation of histone H3 Arg-17 (H3R17me2a) and histones H4 Arg-3, 2 tags for epigenetic transcriptional activation.
  • Contains 1 Tudor domain.
  • Contains 1 UBA domain.
genes like me logo Genes that share domains with TDRD3: view

Function for TDRD3 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for TDRD3 Gene

UniProtKB/Swiss-Prot Function:
Scaffolding protein that specifically recognizes and binds dimethylarginine-containing proteins. In nucleus, acts as a coactivator: recognizes and binds asymmetric dimethylation on the core histone tails associated with transcriptional activation (H3R17me2a and H4R3me2a) and recruits proteins at these arginine-methylated loci. In cytoplasm, may play a role in the assembly and/or disassembly of mRNA stress granules and in the regulation of translation of target mRNAs by binding Arg/Gly-rich motifs (GAR) in dimethylarginine-containing proteins.

Gene Ontology (GO) - Molecular Function for TDRD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IDA 21172665
GO:0035064 methylated histone binding IDA 21172665
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with TDRD3: view

Phenotypes for TDRD3 Gene

MGI mutant phenotypes for TDRD3:
inferred from 1 alleles
GenomeRNAi human phenotypes for TDRD3:
genes like me logo Genes that share phenotypes with TDRD3: view

Animal Model Products

miRNA for TDRD3 Gene

miRTarBase miRNAs that target TDRD3

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TDRD3 Gene

Localization for TDRD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TDRD3 Gene

Cytoplasm. Nucleus. Note=Predominantly cytoplasmic. Associated with actively translating polyribosomes and with mRNA stress granules. {ECO:0000269 PubMed:18632687, ECO:0000269 PubMed:18664458}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TDRD3 Gene COMPARTMENTS Subcellular localization image for TDRD3 gene
Compartment Confidence
nucleus 5
cytosol 2
cytoskeleton 1

No data available for Gene Ontology (GO) - Cellular Components for TDRD3 Gene

Pathways & Interactions for TDRD3 Gene

genes like me logo Genes that share pathways with TDRD3: view

Pathways by source for TDRD3 Gene

2 Cell Signaling Technology pathways for TDRD3 Gene

Gene Ontology (GO) - Biological Process for TDRD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016568 chromatin modification IEA --
genes like me logo Genes that share ontologies with TDRD3: view

No data available for SIGNOR curated interactions for TDRD3 Gene

Drugs & Compounds for TDRD3 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for TDRD3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for TDRD3 Gene

(8) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(250) Selected AceView cDNA sequences:
(9) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TDRD3 Gene

Tudor domain containing 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TDRD3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18
SP1: - - - - - -
SP2: - - - -
SP3: - - - -
SP4:
SP5:
SP6:
SP7:
SP8: -

Relevant External Links for TDRD3 Gene

GeneLoc Exon Structure for
TDRD3
ECgene alternative splicing isoforms for
TDRD3

Expression for TDRD3 Gene

Products:

  1. Primer

mRNA expression in normal human tissues for TDRD3 Gene

mRNA expression in normal human tissues for TDRD3 Gene
mRNA expression by BioGPS for TDRD3 GenemRNA expression by GTEx for TDRD3 Gene

Protein differential expression in normal tissues from HIPED for TDRD3 Gene

This gene is overexpressed in Fetal gut (28.0) and Fetal Liver (27.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for TDRD3 Gene



SOURCE GeneReport for Unigene cluster for TDRD3 Gene Hs.525061

mRNA Expression by UniProt/SwissProt for TDRD3 Gene

Q9H7E2-TDRD3_HUMAN
Tissue specificity: Detected in heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas.
genes like me logo Genes that share expression patterns with TDRD3: view

Protein tissue co-expression partners for TDRD3 Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for TDRD3 Gene

Orthologs for TDRD3 Gene

This gene was present in the common ancestor of animals.

Orthologs for TDRD3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia TDRD3 35
  • 91.51 (n)
  • 91.27 (a)
TDRD3 36
  • 90 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia TDRD3 35
  • 91.22 (n)
  • 91.36 (a)
-- 36
  • 89 (a)
 OneToMany
-- 36
  • 80 (a)
 OneToMany
mouse
(Mus musculus)
 Mammalia Tdrd3 35
  • 85.6 (n)
  • 85.06 (a)
Tdrd3 16
Tdrd3 36
  • 85 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia TDRD3 35
  • 99.6 (n)
  • 99.33 (a)
TDRD3 36
  • 99 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Tdrd3 35
  • 86.53 (n)
  • 86.18 (a)
oppossum
(Monodelphis domestica)
 Mammalia TDRD3 36
  • 72 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia TDRD3 36
  • 67 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves TDRD3 35
  • 77 (n)
  • 76.59 (a)
TDRD3 36
  • 74 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia TDRD3 36
  • 73 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia MGC76148 35
tdrd3 35
  • 68.59 (n)
  • 64.53 (a)
African clawed frog
(Xenopus laevis)
 Amphibia Xl.8087 35
zebrafish
(Danio rerio)
 Actinopterygii Dr.16828 35
tdrd3 35
  • 57.79 (n)
  • 55.24 (a)
tdrd3 36
  • 50 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta CG13472 36
  • 23 (a)
 OneToOne
worm
(Caenorhabditis elegans)
 Secernentea Y50D4C.3 36
  • 22 (a)
 OneToOne
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.3026 36
  • 37 (a)
 OneToOne
Species with no ortholog for TDRD3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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)

Evolution for TDRD3 Gene

ENSEMBL:
Gene Tree for TDRD3 (if available)
TreeFam:
Gene Tree for TDRD3 (if available)

Paralogs for TDRD3 Gene

Paralogs for TDRD3 Gene

genes like me logo Genes that share paralogs with TDRD3: view

Variants for TDRD3 Gene

Sequence variations from dbSNP and Humsavar for TDRD3 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
rs951058 -- 60,401,154(-) AACCT(C/T)AAAAA intron-variant
rs952805 -- 60,405,371(+) AACAT(A/G)CTGCA intron-variant
rs1390155 -- 60,481,351(-) AAAAA(A/C)ACACA intron-variant
rs1033854 -- 60,573,986(-) TTGTA(A/G)GGGGA downstream-variant-500B
rs1418059 -- 60,405,290(+) AAACA(C/G)CATAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TDRD3 Gene

Variant ID Type Subtype PubMed ID
nsv455903 CNV Loss 19166990
nsv523359 CNV Loss 19592680
esv29450 CNV Gain 19812545

Variation tolerance for TDRD3 Gene

Residual Variation Intolerance Score: 35.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.15; 75.73% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for TDRD3 Gene

Disorders for TDRD3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TDRD3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
fragile x syndrome
  • fragile x mental retardation syndrome
- elite association - COSMIC cancer census association via MalaCards
Search TDRD3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for TDRD3

Genetic Association Database (GAD)
TDRD3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TDRD3
genes like me logo Genes that share disorders with TDRD3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TDRD3 Gene

Publications for TDRD3 Gene

  1. SMN and symmetric arginine dimethylation of RNA polymerase II C- terminal domain control termination. (PMID: 26700805) Yanling Zhao D. … Greenblatt J.F. (Nature 2015) 3 4 67
  2. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  3. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  4. A Dynamic Protein Interaction Landscape of the Human Centrosome-Cilium Interface. (PMID: 26638075) Gupta G.D. … Pelletier L. (Cell 2015) 3
  5. Characterizing WW domain interactions of tumor suppressor WWOX reveals its association with multiprotein networks. (PMID: 24550385) Abu-Odeh M. … Aqeilan R.I. (J. Biol. Chem. 2014) 3

Products for TDRD3 Gene

  • Addgene plasmids for TDRD3

Sources for TDRD3 Gene

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