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Aliases for DDX60 Gene

Aliases for DDX60 Gene

  • DExD/H-Box Helicase 60 2 3 5
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 60 2
  • DEAD Box Protein 60 4
  • EC 3.6.4.13 4

External Ids for DDX60 Gene

Previous GeneCards Identifiers for DDX60 Gene

  • GC04M169375
  • GC04M169137
  • GC04M164890

Summaries for DDX60 Gene

Entrez Gene Summary for DDX60 Gene

  • DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases which are implicated in a number of cellular procsses involving RNA binding and alteration of RNA secondary structure. This gene encodes a DEXD/H box RNA helicase that functions as an antiviral factor and promotes RIG-I-like receptor-mediated signaling. [provided by RefSeq, Apr 2017]

GeneCards Summary for DDX60 Gene

DDX60 (DExD/H-Box Helicase 60) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and hydrolase activity. An important paralog of this gene is DDX60L.

UniProtKB/Swiss-Prot for DDX60 Gene

  • Positively regulates DDX58/RIG-I- and IFIH1/MDA5-dependent type I interferon and interferon inducible gene expression in response to viral infection. Binds ssRNA, dsRNA and dsDNA and can promote the binding of DDX58/RIG-I to dsRNA. Exhibits antiviral activity against hepatitis C virus and vesicular stomatitis virus (VSV).

Additional gene information for DDX60 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX60 Gene

Genomics for DDX60 Gene

GeneHancer (GH) Regulatory Elements for DDX60 Gene

Promoters and enhancers for DDX60 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH04I168317 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 550.8 -0.1 -88 3 ZFP64 SIN3A ZNF2 IRF4 YY1 GLIS2 ZNF143 RUNX3 REST ZNF518A DDX60 DDX60L GC04M168258
GH04I168479 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 35.5 -166.0 -166023 11.3 HDGF ATF1 ARID4B SIN3A ZNF2 ZNF48 YY1 GLIS2 ELK1 ATF7 DDX60L DDX60 PALLD ENSG00000207171
GH04I168502 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 11.3 -184.9 -184910 2.4 CTCF JUN MAX CREB1 CEBPG DDX60L DDX60 ENSG00000207171 PALLD
GH04I168557 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 9.2 -241.7 -241657 5.8 ZSCAN4 INSM2 ZNF366 HSF1 SCRT2 RCOR1 FOS ZNF362 CEBPB ZEB2 DDX60L RNU6-1336P PALLD ENSG00000249623 DDX60 GC04P168581 GC04M168514
GH04I168509 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 9.7 -191.1 -191123 0.9 JUN HLF CEBPB CEBPG EP300 FOSL1 ATF4 JUND FOS FOSL2 DDX60L ENSG00000207171 ENSG00000249623 DDX60 PALLD
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around DDX60 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DDX60 gene promoter:

Genomic Locations for DDX60 Gene

Genomic Locations for DDX60 Gene
chr4:168,216,291-168,318,807
(GRCh38/hg38)
Size:
102,517 bases
Orientation:
Minus strand
chr4:169,137,442-169,239,958
(GRCh37/hg19)

Genomic View for DDX60 Gene

Genes around DDX60 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DDX60 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DDX60 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX60 Gene

Proteins for DDX60 Gene

  • Protein details for DDX60 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IY21-DDX60_HUMAN
    Recommended name:
    Probable ATP-dependent RNA helicase DDX60
    Protein Accession:
    Q8IY21
    Secondary Accessions:
    • Q6PK35
    • Q9NVE3

    Protein attributes for DDX60 Gene

    Size:
    1712 amino acids
    Molecular mass:
    197853 Da
    Quaternary structure:
    • Interacts with EXOSC1, EXOSC4, DDX58/RIG-I, IFIH1/MDA5 and DHX58/LGP2.

neXtProt entry for DDX60 Gene

Post-translational modifications for DDX60 Gene

Other Protein References for DDX60 Gene

No data available for DME Specific Peptides for DDX60 Gene

Domains & Families for DDX60 Gene

Gene Families for DDX60 Gene

Protein Domains for DDX60 Gene

Suggested Antigen Peptide Sequences for DDX60 Gene

Graphical View of Domain Structure for InterPro Entry

Q8IY21

UniProtKB/Swiss-Prot:

DDX60_HUMAN :
  • Belongs to the helicase family.
Family:
  • Belongs to the helicase family.
genes like me logo Genes that share domains with DDX60: view

Function for DDX60 Gene

Molecular function for DDX60 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function:
Positively regulates DDX58/RIG-I- and IFIH1/MDA5-dependent type I interferon and interferon inducible gene expression in response to viral infection. Binds ssRNA, dsRNA and dsDNA and can promote the binding of DDX58/RIG-I to dsRNA. Exhibits antiviral activity against hepatitis C virus and vesicular stomatitis virus (VSV).
UniProtKB/Swiss-Prot Induction:
By interferon (IFN). Up-regulated during vesicular stomatitis virus (VSV), or poliovirus (PV) infection.

Enzyme Numbers (IUBMB) for DDX60 Gene

Phenotypes From GWAS Catalog for DDX60 Gene

Gene Ontology (GO) - Molecular Function for DDX60 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003690 double-stranded DNA binding IDA 21791617
GO:0003723 RNA binding IEA --
GO:0003725 double-stranded RNA binding IDA 21791617
GO:0003727 single-stranded RNA binding IDA 21791617
genes like me logo Genes that share ontologies with DDX60: view
genes like me logo Genes that share phenotypes with DDX60: view

Animal Models for DDX60 Gene

MGI Knock Outs for DDX60:

Animal Model Products

miRNA for DDX60 Gene

miRTarBase miRNAs that target DDX60

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for DDX60 Gene

Localization for DDX60 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX60 Gene

Cytoplasm.

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 DDX60 gene
Compartment Confidence
cytoskeleton 5
cytosol 5
plasma membrane 3
extracellular 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Intermediate filaments (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for DDX60 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA,IEA 21791617
GO:0005829 cytosol IDA --
GO:0045111 intermediate filament cytoskeleton IDA --
genes like me logo Genes that share ontologies with DDX60: view

Pathways & Interactions for DDX60 Gene

SuperPathways for DDX60 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DDX60 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002376 immune system process IEA --
GO:0009615 response to virus IDA 21791617
GO:0045087 innate immune response IEA --
GO:0051607 defense response to virus IEA --
GO:1900245 positive regulation of MDA-5 signaling pathway IMP 21791617
genes like me logo Genes that share ontologies with DDX60: view

No data available for Pathways by source and SIGNOR curated interactions for DDX60 Gene

Drugs & Compounds for DDX60 Gene

(3) Drugs for DDX60 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
ATP Investigational Nutra Agonist 0

(1) Additional Compounds for DDX60 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
genes like me logo Genes that share compounds with DDX60: view

Transcripts for DDX60 Gene

Unigene Clusters for DDX60 Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 60:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX60 Gene

No ASD Table

Relevant External Links for DDX60 Gene

GeneLoc Exon Structure for
DDX60
ECgene alternative splicing isoforms for
DDX60

Expression for DDX60 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DDX60 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for DDX60 Gene

This gene is overexpressed in Cervix (13.3), CD8 Tcells (9.7), Peripheral blood mononuclear cells (8.3), and Placenta (7.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for DDX60 Gene



Protein tissue co-expression partners for DDX60 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of DDX60 Gene:

DDX60

SOURCE GeneReport for Unigene cluster for DDX60 Gene:

Hs.591710

mRNA Expression by UniProt/SwissProt for DDX60 Gene:

Q8IY21-DDX60_HUMAN
Tissue specificity: Brain, lymph node, prostate, stomach, thyroid, tongue, trachea, uterus, skeletal muscle, spleen, kidney, liver and small intestine.

Evidence on tissue expression from TISSUES for DDX60 Gene

  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with DDX60: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for DDX60 Gene

Orthologs for DDX60 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for DDX60 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DDX60 33 34
  • 99.51 (n)
dog
(Canis familiaris)
Mammalia DDX60 33 34
  • 84.48 (n)
mouse
(Mus musculus)
Mammalia Ddx60 33 16 34
  • 79.55 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 62 (a)
OneToMany
-- 34
  • 46 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 49 (a)
OneToMany
chicken
(Gallus gallus)
Aves DDX60 33 34
  • 63.31 (n)
lizard
(Anolis carolinensis)
Reptilia DDX60 34
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ddx60 33
  • 59.46 (n)
worm
(Caenorhabditis elegans)
Secernentea C28H8.3 33 34
  • 45.2 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes MTR4 34
  • 16 (a)
OneToMany
Species where no ortholog for DDX60 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • zebrafish (Danio rerio)

Evolution for DDX60 Gene

ENSEMBL:
Gene Tree for DDX60 (if available)
TreeFam:
Gene Tree for DDX60 (if available)

Paralogs for DDX60 Gene

Paralogs for DDX60 Gene

(3) SIMAP similar genes for DDX60 Gene using alignment to 6 proteins:

Pseudogenes.org Pseudogenes for DDX60 Gene

genes like me logo Genes that share paralogs with DDX60: view

Variants for DDX60 Gene

Sequence variations from dbSNP and Humsavar for DDX60 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs864622021 uncertain-significance, Malignant tumor of prostate 168,280,400(-) T/C coding_sequence_variant, missense_variant
rs1000035072 -- 168,258,005(-) A/C genic_downstream_transcript_variant, intron_variant
rs1000036310 -- 168,284,483(-) C/A/T intron_variant
rs1000048325 -- 168,242,252(-) G/C genic_downstream_transcript_variant, intron_variant
rs1000103846 -- 168,216,135(-) T/G downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for DDX60 Gene

Variant ID Type Subtype PubMed ID
nsv830146 CNV gain 17160897
nsv474625 CNV novel sequence insertion 20440878
nsv4596 CNV insertion 18451855
esv2728713 CNV deletion 23290073
esv2728712 CNV deletion 23290073

Variation tolerance for DDX60 Gene

Residual Variation Intolerance Score: 4.36% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.76; 73.44% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DDX60 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DDX60

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX60 Gene

Disorders for DDX60 Gene

Additional Disease Information for DDX60

No disorders were found for DDX60 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DDX60 Gene

Publications for DDX60 Gene

  1. DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting RIG-I-like receptor-mediated signaling. (PMID: 21791617) Miyashita M … Seya T (Molecular and cellular biology 2011) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Genome-wide transcriptional profiling reveals that HIV-1 Vpr differentially regulates interferon-stimulated genes in human monocyte-derived dendritic cells. (PMID: 26116899) Zahoor MA … Aida Y (Virus research 2015) 3 58
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein MY … Mann M (Cell 2015) 3 58
  5. DDX60 Is Involved in RIG-I-Dependent and Independent Antiviral Responses, and Its Function Is Attenuated by Virus-Induced EGFR Activation. (PMID: 25981042) Oshiumi H … Seya T (Cell reports 2015) 3 58

Products for DDX60 Gene

Sources for DDX60 Gene

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