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DDX60 DExD/H-box helicase 60 [ Homo sapiens (human) ]

Gene ID: 55601, updated on 3-Apr-2024

Summary

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Official Symbol
DDX60provided by HGNC
Official Full Name
DExD/H-box helicase 60provided by HGNC
Primary source
HGNC:HGNC:25942
See related
Ensembl:ENSG00000137628 MIM:613974; AllianceGenome:HGNC:25942
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
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]
Expression
Ubiquitous expression in stomach (RPKM 14.0), colon (RPKM 7.7) and 24 other tissues See more
Orthologs
all
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Genomic context

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Location:
4q32.3
Exon count:
42
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (168216294..168325979, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (171575326..171684983, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (169137445..169239903, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900170 Neighboring gene annexin A10 Neighboring gene uncharacterized LOC105377524 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22124 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_76106 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_76110 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_76113 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_76114 Neighboring gene DExD/H-box 60 like Neighboring gene small nucleolar RNA SNORA51 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22125 Neighboring gene uncharacterized LOC107986198 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:169408038-169409237 Neighboring gene palladin, cytoskeletal associated protein

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Integrative Bioinformatics Analysis Identifies DDX60 as a Potential Biomarker for Systemic Lupus Erythematosus. Chen W, et al. Dis Markers, 2023. PMID 36655136, Free PMC Article
  2. Subsite-specific association of DEAD box RNA helicase DDX60 with the development and prognosis of oral squamous cell carcinoma. Fu TY, et al. Oncotarget, 2016 Dec 20. PMID 27835882, Free PMC Article
  3. Glomerular endothelial expression of type I IFN-stimulated gene, DExD/H-Box helicase 60 via toll-like receptor 3 signaling: possible involvement in the pathogenesis of lupus nephritis. Karasawa T, et al. Ren Fail, 2022 Dec. PMID 35392757, Free PMC Article
  4. DDX60 Is Involved in RIG-I-Dependent and Independent Antiviral Responses, and Its Function Is Attenuated by Virus-Induced EGFR Activation. Oshiumi H, et al. Cell Rep, 2015 May 26. PMID 25981042
  5. DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting RIG-I-like receptor-mediated signaling. Miyashita M, et al. Mol Cell Biol, 2011 Sep. PMID 21791617, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. DDX60 Promotes Migration and Invasion of Head and Neck Squamous Cell Carcinoma Cell through the NF-kappaB/IFI27 Signaling Pathway.
    Title: DDX60 Promotes Migration and Invasion of Head and Neck Squamous Cell Carcinoma Cell through the NF-κB/IFI27 Signaling Pathway.
  2. Possible involvement of DExD/H box helicase 60 in synovial inflammation of rheumatoid arthritis: role of toll-like receptor 3 signaling.
    Title: Possible involvement of DExD/H box helicase 60 in synovial inflammation of rheumatoid arthritis: role of toll-like receptor 3 signaling.
  3. Integrative Bioinformatics Analysis Identifies DDX60 as a Potential Biomarker for Systemic Lupus Erythematosus.
    Title: Integrative Bioinformatics Analysis Identifies DDX60 as a Potential Biomarker for Systemic Lupus Erythematosus.
  4. Glomerular endothelial expression of type I IFN-stimulated gene, DExD/H-Box helicase 60 via toll-like receptor 3 signaling: possible involvement in the pathogenesis of lupus nephritis.
    Title: Glomerular endothelial expression of type I IFN-stimulated gene, DExD/H-Box helicase 60 via toll-like receptor 3 signaling: possible involvement in the pathogenesis of lupus nephritis.
  5. DDX60 is a novel and unfavorable biomarker for tumorigenesis and prognosis of oral squamous cell carcinoma in a subsite-specific manner
    Title: Subsite-specific association of DEAD box RNA helicase DDX60 with the development and prognosis of oral squamous cell carcinoma.
  6. Results define DDX60 as a sentinel for cytoplasmic antiviral response, which is counteracted by virus-mediated EGF receptor activation.
    Title: DDX60 Is Involved in RIG-I-Dependent and Independent Antiviral Responses, and Its Function Is Attenuated by Virus-Induced EGFR Activation.
  7. DDX60 is a novel antiviral helicase promoting RIG-I-like receptor-mediated signaling.
    Title: DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting RIG-I-like receptor-mediated signaling.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vpr vpr HIV-1 Vpr upregulates the gene expression of DDX60 in human monocyte-derived dendritic cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ10787, FLJ20035

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables double-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables double-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables single-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in defense response to virus IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of MDA-5 signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of RIG-I signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to virus IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in intermediate filament cytoskeleton IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
probable ATP-dependent RNA helicase DDX60
Names
ATP-dependent RNA helicase DDX60
DEAD (Asp-Glu-Ala-Asp) box polypeptide 60
DEAD box protein 60
DEAD-box helicase 60
NP_001397790.1
NP_060101.3
XP_011530406.1
XP_016863872.1
XP_016863873.1
XP_024309900.1
XP_024309901.1
XP_054206430.1
XP_054206431.1
XP_054206432.1
XP_054206433.1
XP_054206434.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_054636.2 RefSeqGene

    Range
    12227..114685
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001410861.1 → NP_001397790.1  probable ATP-dependent RNA helicase DDX60 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC068989, AC093888
    Consensus CDS
    CCDS93666.1
    UniProtKB/TrEMBL
    A0A7P0T8Y0
    Related
    ENSP00000505292.1, ENST00000680771.1

  2. NM_017631.6 → NP_060101.3  probable ATP-dependent RNA helicase DDX60 isoform 1

    See identical proteins and their annotated locations for NP_060101.3

    Status: REVIEWED

    Source sequence(s)
    AK001649, AK307404, BC020601, BC038115, BC074781
    Consensus CDS
    CCDS34097.1
    UniProtKB/Swiss-Prot
    Q6PK35, Q8IY21, Q9NVE3
    UniProtKB/TrEMBL
    A0A3G9HN97, A0A7P0TAZ7
    Related
    ENSP00000377344.3, ENST00000393743.8
    Conserved Domains (1) summary
    cl28230
    Location:762 → 1373
    Dob10; Superfamily II RNA helicase [Replication, recombination and repair]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    168216294..168325979 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024454132.2 → XP_024309900.1  probable ATP-dependent RNA helicase DDX60 isoform X1

    UniProtKB/Swiss-Prot
    Q6PK35, Q8IY21, Q9NVE3
    UniProtKB/TrEMBL
    A0A3G9HN97, A0A7P0TAZ7
    Conserved Domains (1) summary
    cl28230
    Location:762 → 1373
    Dob10; Superfamily II RNA helicase [Replication, recombination and repair]

  2. XM_024454133.2 → XP_024309901.1  probable ATP-dependent RNA helicase DDX60 isoform X1

    UniProtKB/Swiss-Prot
    Q6PK35, Q8IY21, Q9NVE3
    UniProtKB/TrEMBL
    A0A3G9HN97, A0A7P0TAZ7
    Conserved Domains (1) summary
    cl28230
    Location:762 → 1373
    Dob10; Superfamily II RNA helicase [Replication, recombination and repair]

  3. XM_011532104.4 → XP_011530406.1  probable ATP-dependent RNA helicase DDX60 isoform X2

    UniProtKB/TrEMBL
    A0A7P0TAZ7
    Conserved Domains (1) summary
    pfam00270
    Location:768 → 922
    DEAD; DEAD/DEAH box helicase

  4. XM_017008384.2 → XP_016863873.1  probable ATP-dependent RNA helicase DDX60 isoform X4

  5. XM_017008383.2 → XP_016863872.1  probable ATP-dependent RNA helicase DDX60 isoform X3

    Related
    ENST00000679744.1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    171575326..171684983 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054350456.1 → XP_054206431.1  probable ATP-dependent RNA helicase DDX60 isoform X1

    UniProtKB/Swiss-Prot
    Q6PK35, Q8IY21, Q9NVE3
    UniProtKB/TrEMBL
    A0A3G9HN97

  2. XM_054350455.1 → XP_054206430.1  probable ATP-dependent RNA helicase DDX60 isoform X1

    UniProtKB/Swiss-Prot
    Q6PK35, Q8IY21, Q9NVE3
    UniProtKB/TrEMBL
    A0A3G9HN97

  3. XM_054350457.1 → XP_054206432.1  probable ATP-dependent RNA helicase DDX60 isoform X2

  4. XM_054350459.1 → XP_054206434.1  probable ATP-dependent RNA helicase DDX60 isoform X4

  5. XM_054350458.1 → XP_054206433.1  probable ATP-dependent RNA helicase DDX60 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8IY21.3 GenPept UniProtKB/Swiss-Prot:Q8IY21

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