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Aliases for DDX39A Gene

Aliases for DDX39A Gene

  • DEAD-Box Helicase 39A 2 3
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 39A 2 3 5
  • DEAD/H (Asp-Glu-Ala-Asp/His) Box Polypeptide 39 2 3
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 39 2 3
  • Nuclear RNA Helicase URH49 3 4
  • DEAD Box Protein 39 3 4
  • DDX39 3 4
  • Nuclear RNA Helicase, DECD Variant Of DEAD Box Family 3
  • UAP56-Related Helicase, 49 KDa 3
  • UAP56-Related Helicase 2
  • EC 3.6.4.13 4
  • 49 KDa 2
  • BAT1L 3
  • URH49 3
  • BAT1 3
  • DDXL 3

External Ids for DDX39A Gene

Previous HGNC Symbols for DDX39A Gene

  • DDX39

Previous GeneCards Identifiers for DDX39A Gene

  • GC19M014521

Summaries for DDX39A Gene

Entrez Gene Summary for DDX39A Gene

  • This gene encodes a member of the DEAD box protein family. These proteins are characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD) and are putative RNA helicases. They are implicated in a number of cellular processes involving alteration of RNA secondary structure, such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Based on their distribution patterns, some members of the DEAD box protein family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. This gene is thought to play a role in the prognosis of patients with gastrointestinal stromal tumors. A pseudogene of this gene is present on chromosome 13. Alternate splicing results in multiple transcript variants. Additional alternatively spliced transcript variants of this gene have been described, but their full-length nature is not known. [provided by RefSeq, Sep 2013]

GeneCards Summary for DDX39A Gene

DDX39A (DEAD-Box Helicase 39A) is a Protein Coding gene. Diseases associated with DDX39A include gastrointestinal stromal tumor. Among its related pathways are RNA Polymerase II Transcription Termination and Gene Expression. GO annotations related to this gene include nucleic acid binding and hydrolase activity. An important paralog of this gene is DDX39B.

UniProtKB/Swiss-Prot for DDX39A Gene

  • Isoform 1: Involved in pre-mRNA splicing. Required for the export of mRNA out of the nucleus.

Gene Wiki entry for DDX39A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX39A Gene

Genomics for DDX39A Gene

Regulatory Elements for DDX39A Gene

Enhancers for DDX39A 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 DDX39A on UCSC Golden Path with GeneCards custom track

Promoters for DDX39A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around DDX39A on UCSC Golden Path with GeneCards custom track

Genomic Location for DDX39A Gene

Chromosome:
19
Start:
14,408,798 bp from pter
End:
14,419,383 bp from pter
Size:
10,586 bases
Orientation:
Minus strand

Genomic View for DDX39A Gene

Genes around DDX39A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DDX39A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DDX39A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX39A Gene

Proteins for DDX39A Gene

  • Protein details for DDX39A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00148-DX39A_HUMAN
    Recommended name:
    ATP-dependent RNA helicase DDX39A
    Protein Accession:
    O00148
    Secondary Accessions:
    • B1Q2N1
    • Q8N5M0
    • Q9BVP6
    • Q9H5W0

    Protein attributes for DDX39A Gene

    Size:
    427 amino acids
    Molecular mass:
    49130 Da
    Quaternary structure:
    • Binds ALYREF/THOC4 and DDX39B/BAT1. Interacts with SARNP. Interacts with human cytomegalovirus/HHV-5 protein UL69. Interacts with MX1.
    SequenceCaution:
    • Sequence=BAB15509.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for DDX39A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DDX39A Gene

Proteomics data for DDX39A Gene at MOPED

Post-translational modifications for DDX39A Gene

  • Ubiquitination at Lys 35 and Lys 221
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for DDX39A Gene

Domains & Families for DDX39A Gene

Gene Families for DDX39A Gene

Suggested Antigen Peptide Sequences for DDX39A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00148

UniProtKB/Swiss-Prot:

DX39A_HUMAN :
  • Contains 1 helicase ATP-binding domain.
  • Belongs to the DEAD box helicase family. DECD subfamily.
Domain:
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
Family:
  • Belongs to the DEAD box helicase family. DECD subfamily.
genes like me logo Genes that share domains with DDX39A: view

Function for DDX39A Gene

Molecular function for DDX39A Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function:
Isoform 1: Involved in pre-mRNA splicing. Required for the export of mRNA out of the nucleus.
UniProtKB/Swiss-Prot Induction:
Up-regulated in proliferating cells. Present at low levels in quiescent cells.

Enzyme Numbers (IUBMB) for DDX39A Gene

Gene Ontology (GO) - Molecular Function for DDX39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15047853
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with DDX39A: view
genes like me logo Genes that share phenotypes with DDX39A: view

Animal Model Products

CRISPR Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DDX39A Gene

Localization for DDX39A Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX39A Gene

Nucleus. Cytoplasm. Note=Can translocate to the cytoplasm in the presence of MX1.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for DDX39A Gene COMPARTMENTS Subcellular localization image for DDX39A gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for DDX39A Gene

Pathways & Interactions for DDX39A Gene

genes like me logo Genes that share pathways with DDX39A: view

Gene Ontology (GO) - Biological Process for DDX39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006405 RNA export from nucleus TAS --
GO:0006406 mRNA export from nucleus IGI 15047853
GO:0010501 RNA secondary structure unwinding IBA --
GO:0031124 mRNA 3-end processing TAS --
genes like me logo Genes that share ontologies with DDX39A: view

No data available for SIGNOR curated interactions for DDX39A Gene

Drugs & Compounds for DDX39A Gene

(1) Drugs for DDX39A Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0

(3) Additional Compounds for DDX39A Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
7664-38-2
Water
  • Dihydrogen oxide
  • Steam
7732-18-5
genes like me logo Genes that share compounds with DDX39A: view

Transcripts for DDX39A Gene

Unigene Clusters for DDX39A Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 39A:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for DDX39A Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3a · 3b · 3c ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c · 8d · 8e · 8f ^ 9a · 9b · 9c · 9d ^ 10 ^
SP1: - - - - - - - - - - - - - - -
SP2: - - - - - - - - - - - - - - -
SP3: - - - - - - - - - - - - - - -
SP4: - - - - - - - - - - - - - - -
SP5: - - - - - - - - - - - - - -
SP6: - -
SP7: - - - - - - - - - - - - - - -
SP8: - - - - - - - - -
SP9: - - - - - -
SP10:
SP11: - - - - - - - - - - - - -
SP12: - - - - - - -
SP13: - - - - - - - - - -
SP14: - - - -
SP15: - - - - - - - - -
SP16: - - - - - - - - - - - -
SP17: - - - - - -
SP18: - - - -
SP19: - -
SP20:
SP21:
SP22:
SP23: - - - - - - - - -
SP24: -

ExUns: 11a · 11b · 11c · 11d ^ 12a · 12b · 12c ^ 13a · 13b · 13c ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17 ^ 18
SP1: - - - - - -
SP2: - - - - - - -
SP3: - - - -
SP4: - -
SP5: - - - -
SP6: - - - -
SP7: -
SP8:
SP9: - - - - -
SP10: - - - -
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:
SP19:
SP20: - -
SP21:
SP22: -
SP23:
SP24:

Relevant External Links for DDX39A Gene

GeneLoc Exon Structure for
DDX39A
ECgene alternative splicing isoforms for
DDX39A

Expression for DDX39A Gene

mRNA expression in normal human tissues for DDX39A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for DDX39A Gene

This gene is overexpressed in Testis (x4.5).

Protein differential expression in normal tissues from HIPED for DDX39A Gene

This gene is overexpressed in Liver (24.8), Nasal epithelium (11.6), Peripheral blood mononuclear cells (6.6), and Tlymphocyte (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for DDX39A Gene



SOURCE GeneReport for Unigene cluster for DDX39A Gene Hs.311609

mRNA Expression by UniProt/SwissProt for DDX39A Gene

O00148-DX39A_HUMAN
Tissue specificity: Detected in testis, and at lower levels in brain, kidney, lung, thymus, spleen and salivary gland.
genes like me logo Genes that share expression patterns with DDX39A: view

Protein tissue co-expression partners for DDX39A Gene

- Elite partner

Primer Products

In Situ Assay Products

Orthologs for DDX39A Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for DDX39A Gene

Organism Taxonomy Gene Similarity Type Details
mouse
(Mus musculus)
Mammalia Ddx39 16
Ddx39 36
  • 97 (a)
OneToOne
Ddx39 35
  • 88.91 (n)
  • 97.19 (a)
cow
(Bos Taurus)
Mammalia DDX39 36
  • 96 (a)
OneToOne
DDX39A 35
  • 89.85 (n)
  • 96.49 (a)
dog
(Canis familiaris)
Mammalia DDX39A 36
  • 98 (a)
OneToOne
DDX39A 35
  • 91.1 (n)
  • 97.89 (a)
oppossum
(Monodelphis domestica)
Mammalia DDX39A 36
  • 84 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DDX39A 36
  • 75 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia DDX39A 36
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ddx39a 35
  • 88.29 (n)
  • 96.72 (a)
lizard
(Anolis carolinensis)
Reptilia DDX39A 36
  • 93 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia ddx39-prov 35
tropical clawed frog
(Silurana tropicalis)
Amphibia ddx39a 35
  • 79.16 (n)
  • 90.16 (a)
zebrafish
(Danio rerio)
Actinopterygii ddx39aa 36
  • 91 (a)
OneToMany
ddx39ab 36
  • 92 (a)
OneToMany
Dr.1108 35
ddx39b 35
  • 80.56 (n)
  • 91.8 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9011 35
fruit fly
(Drosophila melanogaster)
Insecta Hel25E 36
  • 83 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea hel-1 36
  • 76 (a)
OneToMany
hel-1 35
  • 67.78 (n)
  • 76.32 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SUB2 36
  • 60 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G11200 35
  • 65.99 (n)
  • 73.74 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10395 36
  • 81 (a)
OneToMany
Species with no ortholog for DDX39A:
  • 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for DDX39A Gene

ENSEMBL:
Gene Tree for DDX39A (if available)
TreeFam:
Gene Tree for DDX39A (if available)

Paralogs for DDX39A Gene

Paralogs for DDX39A Gene

Pseudogenes.org Pseudogenes for DDX39A Gene

genes like me logo Genes that share paralogs with DDX39A: view

Variants for DDX39A Gene

Sequence variations from dbSNP and Humsavar for DDX39A Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs36127505 - 14,411,511(+) CTTGA(C/T)GCTGG nc-transcript-variant, upstream-variant-2KB, reference, missense, utr-variant-5-prime
rs12985089 -- 14,413,314(+) TTCCA(C/T)GAGTG intron-variant, upstream-variant-2KB
rs8106601 -- 14,414,165(+) GGCCT(C/T)GCTGT intron-variant, upstream-variant-2KB
rs28374604 -- 14,410,759(+) ATGTG(C/T)GCATG intron-variant
rs8109605 -- 14,413,839(+) ATCTG(C/T)CCAGC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for DDX39A Gene

Variant ID Type Subtype PubMed ID
nsv833764 CNV Loss 17160897
nsv911121 CNV Loss 21882294
nsv911122 CNV Loss 21882294

Variation tolerance for DDX39A Gene

Residual Variation Intolerance Score: 22.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.42; 42.78% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for DDX39A Gene

HapMap Linkage Disequilibrium report
DDX39A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX39A Gene

Disorders for DDX39A Gene

MalaCards: The human disease database

(1) MalaCards diseases for DDX39A Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
gastrointestinal stromal tumor
  • paraganglioma and gastric stromal sarcoma
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for DDX39A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DDX39A
genes like me logo Genes that share disorders with DDX39A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for DDX39A Gene

Publications for DDX39A Gene

  1. Intracellular characterization of DDX39, a novel growth-associated RNA helicase. (PMID: 17196963) Sugiura T. … Nagano Y. (Exp. Cell Res. 2007) 3 4 23 67
  2. Nuclear localization of poly(A)+ mRNA following siRNA reduction of expression of the mammalian RNA helicases UAP56 and URH49. (PMID: 16949217) Kapadia F. … Johnson L.F. (Gene 2006) 3 23
  3. Growth-regulated expression and G0-specific turnover of the mRNA that encodes URH49, a mammalian DExH/D box protein that is highly related to the mRNA export protein UAP56. (PMID: 15047853) Pryor A. … Johnson L.F. (Nucleic Acids Res. 2004) 3 23
  4. The BAT1 gene in the MHC encodes an evolutionarily conserved putative nuclear RNA helicase of the DEAD family. (PMID: 7601445) Peelman L. … Spies T. (Genomics 1995) 2 3
  5. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. (PMID: 25609649) Li X. … Chen J. (Mol. Syst. Biol. 2015) 3

Products for DDX39A Gene

Sources for DDX39A Gene

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