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Aliases for DDX3Y Gene

Aliases for DDX3Y Gene

  • DEAD (Asp-Glu-Ala-Asp) Box Helicase 3, Y-Linked 2 3
  • DBY 3 4 6
  • DEAD/H (Asp-Glu-Ala-Asp/His) Box Polypeptide, Y Chromosome 2 3
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 3, Y-Linked 2 3
  • DEAD Box Protein 3, Y-Chromosomal 3 4
  • ATP-Dependent RNA Helicase DDX3Y 3
  • EC 4
  • EC 3.6.1 63

External Ids for DDX3Y Gene

Previous HGNC Symbols for DDX3Y Gene

  • DBY

Previous GeneCards Identifiers for DDX3Y Gene

  • GC0YP014327
  • GC0YP014024
  • GC0YP014025
  • GC0YP013454
  • GC0YP013526
  • GC0YP015016
  • GC0YP009668

Summaries for DDX3Y Gene

Entrez Gene Summary for DDX3Y Gene

  • The protein encoded by this gene is a member of the DEAD-box RNA helicase family, characterized by nine conserved motifs, included the conserved Asp-Glu-Ala-Asp (DEAD) motif. These motifs are thought to be involved in ATP binding, hydrolysis, RNA binding, and in the formation of intramolecular interactions. This protein shares high similarity to DDX3X, on the X chromosome, but a deletion of this gene is not complemented by DDX3X. Mutations in this gene result in male infertility, a reduction in germ cell numbers, and can result in Sertoli-cell only sydrome. Pseudogenes sharing similarity to both this gene and the DDX3X paralog are found on chromosome 4 and the X chromosome. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Oct 2014]

GeneCards Summary for DDX3Y Gene

DDX3Y (DEAD (Asp-Glu-Ala-Asp) Box Helicase 3, Y-Linked) is a Protein Coding gene. Diseases associated with DDX3Y include sertoli cell-only syndrome and male infertility. GO annotations related to this gene include RNA binding and ATP-dependent helicase activity. An important paralog of this gene is DDX4.

UniProtKB/Swiss-Prot for DDX3Y Gene

  • Probable ATP-dependent RNA helicase. May play a role in spermatogenesis

Gene Wiki entry for DDX3Y Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX3Y Gene

Genomics for DDX3Y Gene

Regulatory Elements for DDX3Y Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for DDX3Y Gene

12,903,985 bp from pter
12,920,478 bp from pter
16,494 bases
Plus strand

Genomic View for DDX3Y Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for DDX3Y Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX3Y Gene

Proteins for DDX3Y Gene

  • Protein details for DDX3Y Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    ATP-dependent RNA helicase DDX3Y
    Protein Accession:
    Secondary Accessions:
    • B4DK29
    • B4DXX7
    • Q8IYV7

    Protein attributes for DDX3Y Gene

    660 amino acids
    Molecular mass:
    73154 Da
    Quaternary structure:
    • May interact with TDRD3

    Alternative splice isoforms for DDX3Y Gene


neXtProt entry for DDX3Y Gene

Proteomics data for DDX3Y Gene at MOPED

Post-translational modifications for DDX3Y Gene

  • Ubiquitination at Lys206, Lys262, Lys340, and Lys489
  • Modification sites at PhosphoSitePlus

Other Protein References for DDX3Y Gene

Antibody Products

Domains for DDX3Y Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 helicase ATP-binding domain.
  • Belongs to the DEAD box helicase family. DDX3/DED1 subfamily.
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
  • Belongs to the DEAD box helicase family. DDX3/DED1 subfamily.
genes like me logo Genes that share domains with DDX3Y: view

Function for DDX3Y Gene

Molecular function for DDX3Y Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate
UniProtKB/Swiss-Prot Function:
Probable ATP-dependent RNA helicase. May play a role in spermatogenesis

Enzyme Numbers (IUBMB) for DDX3Y Gene

Gene Ontology (GO) - Molecular Function for DDX3Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding --
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA --
GO:0004004 ATP-dependent RNA helicase activity IBA --
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with DDX3Y: view

Animal Model Products

miRNA for DDX3Y Gene

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for DDX3Y

In Situ Assay Products

Flow Cytometry Products

No data available for Phenotypes , Animal Models , Transcription Factor Targets and HOMER Transcription for DDX3Y Gene

Localization for DDX3Y Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX3Y Gene

Cytoplasm. Nucleus. Note=Shuttles between the nucleus and the cytoplasm in an XPO1-dependent manner.

Subcellular locations from

Jensen Localization Image for DDX3Y Gene COMPARTMENTS Subcellular localization image for DDX3Y gene
Compartment Confidence
nucleus 5
cytosol 4

Gene Ontology (GO) - Cellular Components for DDX3Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005730 nucleolus IBA --
GO:0005737 cytoplasm --
GO:0016020 membrane IDA 19946888
GO:0036464 cytoplasmic ribonucleoprotein granule IBA --
genes like me logo Genes that share ontologies with DDX3Y: view

Pathways for DDX3Y Gene

SuperPathways for DDX3Y Gene

No Data Available

Gene Ontology (GO) - Biological Process for DDX3Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006200 obsolete ATP catabolic process --
GO:0006413 translational initiation IBA --
GO:0007059 chromosome segregation IBA --
GO:0010468 regulation of gene expression IBA --
GO:0010501 RNA secondary structure unwinding IBA --
genes like me logo Genes that share ontologies with DDX3Y: view

No data available for Pathways by source for DDX3Y Gene

Drugs for DDX3Y Gene

(4) HMDB Compounds for DDX3Y Gene

Compound Synonyms Cas Number PubMed IDs
Adenosine triphosphate
  • 5'-(Tetrahydrogen triphosphate) Adenosine
  • Adenosindiphosphorsaeure
Phosphoric acid
  • Acide phosphorique (FRENCH)
  • Dihydrogen oxide
genes like me logo Genes that share compounds with DDX3Y: view

Transcripts for DDX3Y Gene

Unigene Clusters for DDX3Y Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for DDX3Y

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX3Y Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d · 2e · 2f ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13 ^
SP1: - - - - - - - -
SP2: - - -
SP3: -
SP4: - - - -
SP5: - - - - - - -
SP6: - - - - - - - - - -
SP7: - -
SP8: - - - - - - - - - - - - - - -
SP9: -
SP12: -

ExUns: 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18a · 18b ^ 19 ^ 20a · 20b · 20c
SP8: -
SP10: -

Relevant External Links for DDX3Y Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for DDX3Y Gene

mRNA expression in normal human tissues for DDX3Y Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues for DDX3Y Gene

This gene is overexpressed in Peripheral blood mononuclear cells (19.9) and Ovary (10.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for DDX3Y Gene

SOURCE GeneReport for Unigene cluster for DDX3Y Gene Hs.99120

mRNA Expression by UniProt/SwissProt for DDX3Y Gene

Tissue specificity: Testis-specific. Expressed predominantly in spermatogonia.
genes like me logo Genes that share expressions with DDX3Y: view

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Expression partners for DDX3Y Gene

Orthologs for DDX3Y Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for DDX3Y Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia DDX3Y 35
  • 88.8 (n)
  • 89.97 (a)
DDX3Y 36
  • 89 (a)
(Mus musculus)
Mammalia Ddx3y 35
  • 87.32 (n)
  • 88.43 (a)
Ddx3y 16
Ddx3y 36
  • 89 (a)
(Pan troglodytes)
Mammalia DDX3Y 35
  • 99.24 (n)
  • 98.33 (a)
DDX3Y 36
  • 98 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 90 (a)
(Gallus gallus)
Aves DDX3X 36
  • 88 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 78 (a)
(Danio rerio)
Actinopterygii ddx3 36
  • 71 (a)
pl10 36
  • 74 (a)
fruit fly
(Drosophila melanogaster)
Insecta bel 36
  • 50 (a)
(Caenorhabditis elegans)
Secernentea vbh-1 35
  • 56.71 (n)
  • 57.68 (a)
ZC317.1 36
  • 26 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL273C 35
  • 56.3 (n)
  • 57.82 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F01034g 35
  • 55.28 (n)
  • 56.05 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DED1 35
  • 57.38 (n)
  • 57.01 (a)
DED1 36
  • 54 (a)
DED1 38
(Oryza sativa)
Liliopsida Os11g0599500 35
  • 53.26 (n)
  • 56.27 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU01369 35
  • 53.17 (n)
  • 56.37 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes sum3 35
  • 56.48 (n)
  • 55.82 (a)
Species with no ortholog for DDX3Y:
  • 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for DDX3Y Gene

Gene Tree for DDX3Y (if available)
Gene Tree for DDX3Y (if available)

Paralogs for DDX3Y Gene

Paralogs for DDX3Y Gene Pseudogenes for DDX3Y Gene

genes like me logo Genes that share paralogs with DDX3Y: view

Variants for DDX3Y Gene

Sequence variations from dbSNP and Humsavar for DDX3Y Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type MAF
rs2020857 -- 12,918,840(+) AAGAG(C/T)TCTTT utr-variant-3-prime
rs2032589 -- 12,919,198(+) ACTTG(-/G)CAGAC utr-variant-3-prime
rs2032590 -- 12,907,702(+) GACTA(G/T)ATGAA intron-variant
rs2032591 -- 12,918,770(+) ACTTA(C/G)ACTCT utr-variant-3-prime
rs2032592 -- 12,919,473(+) TTGAC(A/G)AAAAT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for DDX3Y Gene

Variant ID Type Subtype PubMed ID
esv2740672 CNV Deletion 23290073

Relevant External Links for DDX3Y Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX3Y Gene

Disorders for DDX3Y Gene


  • Note=DDX3Y is located in the azoospermia factor a (AZFa) region on chromosome Y which is deleted in Sertoli cell-only syndrome. This is an infertility disorder in which no germ cells are visible in seminiferous tubules leading to azoospermia.

(2) University of Copenhagen DISEASES for DDX3Y Gene

(4) Novoseek inferred disease relationships for DDX3Y Gene

Disease -log(P) Hits PubMed IDs
azoospermia 80.4 3
oligozoospermia 71.7 1
infertility male 61.1 1
graft-versus-host disease 45.6 1

Relevant External Links for DDX3Y

genes like me logo Genes that share disorders with DDX3Y: view

No data available for OMIM and Genatlas for DDX3Y Gene

Publications for DDX3Y Gene

  1. The AZFa gene DBY (DDX3Y) is widely transcribed but the protein is limited to the male germ cells by translation control. (PMID: 15294876) Ditton H.J. … Vogt P.H. (Hum. Mol. Genet. 2004) 3 4 23
  2. Human DDX3Y, the Y-encoded isoform of RNA helicase DDX3, rescues a hamster temperature-sensitive ET24 mutant cell line with a DDX3X mutation. (PMID: 15383328) Sekiguchi T. … Nishimoto T. (Exp. Cell Res. 2004) 3 4 23
  3. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn B.T. … Page D.C. (Science 1997) 2 3 4
  4. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H. … Page D.C. (Nature 2003) 3 4
  5. The DBY gene codes for an HLA-DQ5-restricted human male-specific minor histocompatibility antigen involved in graft-versus-host disease. (PMID: 11929796) Vogt M.H. … Falkenburg J.H. (Blood 2002) 3 23

Products for DDX3Y Gene

Sources for DDX3Y Gene

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