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Rigi RNA sensor RIG-I [ Mus musculus (house mouse) ]

Gene ID: 230073, updated on 4-Dec-2022

Summary

Official Symbol
Rigiprovided by MGI
Official Full Name
RNA sensor RIG-Iprovided by MGI
Primary source
MGI:MGI:2442858
See related
Ensembl:ENSMUSG00000040296 AllianceGenome:MGI:2442858
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Ddx58; RIG-I; RLR-1; C330021E21; 6430573D20Rik
Summary
Enables double-stranded DNA binding activity; double-stranded RNA binding activity; and single-stranded RNA binding activity. Involved in innate immune response; positive regulation of cytokine production; and response to virus. Acts upstream of or within response to exogenous dsRNA. Predicted to be located in several cellular components, including actin cytoskeleton; bicellular tight junction; and ruffle membrane. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasm. Is expressed in several structures, including alimentary system; olfactory epithelium; ovary; and renal calyx. Orthologous to human DDX58 (DExD/H-box helicase 58). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 6.5), spleen adult (RPKM 6.4) and 28 other tissues See more
Orthologs
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Genomic context

See Rigi in Genome Data Viewer
Location:
4; 4 A5
Exon count:
18
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (40203775..40239843, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (40203777..40239825, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 pseudogene Neighboring gene aconitase 1 Neighboring gene topoisomerase I binding, arginine/serine-rich Neighboring gene small integral membrane protein 27 Neighboring gene NADH:ubiquinone oxidoreductase subunit B6

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Endonuclease-mediated (5) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP hydrolysis activity ISO
Inferred from Sequence Orthology
more info
 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables GTP binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA helicase activity ISO
Inferred from Sequence Orthology
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
PubMed 
enables double-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables double-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
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
PubMed 
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables single-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in RIG-I signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in antiviral innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in antiviral innate immune response ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to exogenous dsRNA ISO
Inferred from Sequence Orthology
more info
 
involved_in cytosolic pattern recognition receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in defense response to virus ISO
Inferred from Sequence Orthology
more info
 
involved_in detection of virus ISO
Inferred from Sequence Orthology
more info
 
involved_in gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
involved_in innate immune response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in innate immune response ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of defense response to virus by host ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of granulocyte macrophage colony-stimulating factor production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interferon-alpha production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interferon-beta production IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of interferon-beta production ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in positive regulation of interferon-beta production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-6 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-8 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of myeloid dendritic cell cytokine production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of response to cytokine stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within response to exogenous dsRNA IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to virus IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
located_in bicellular tight junction ISO
Inferred from Sequence Orthology
more info
 
located_in cell junction IEA
Inferred from Electronic Annotation
more info
 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
 
located_in ruffle membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
antiviral innate immune response receptor RIG-I
Names
ATP-dependent RNA helicase DDX58
DEAD (Asp-Glu-Ala-Asp) box polypeptide 58
DEAD box protein 58
DEAD/H box helicase 58
DEAD/H box polypeptide RIG-I
RIG-1
RIG-I-like receptor 1
probable ATP-dependent RNA helicase DDX58
retinoic acid-inducible gene 1 protein
retinoic acid-inducible gene I protein
retinoic acid-inducible gene-I
NP_766277.3
XP_036019879.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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.

mRNA and Protein(s)

  1. NM_172689.3NP_766277.3  antiviral innate immune response receptor RIG-I

    See identical proteins and their annotated locations for NP_766277.3

    Status: VALIDATED

    Source sequence(s)
    AK049305, AK087261, BC127163
    Consensus CDS
    CCDS18043.1
    UniProtKB/Swiss-Prot
    Q6Q899, Q8C7T2
    UniProtKB/TrEMBL
    A1L0V6
    Related
    ENSMUSP00000042433.6, ENSMUST00000037907.13
    Conserved Domains (7) summary
    COG1111
    Location:242807
    MPH1; ERCC4-related helicase [Replication, recombination and repair]
    cd00046
    Location:259411
    DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
    cd08816
    Location:292
    CARD_RIG-I_r1; Caspase activation and recruitment domain found in RIG-I, first repeat
    cd08817
    Location:100188
    CARD_RIG-I_r2; Caspase activation and recruitment domain found in RIG-I, second repeat
    cd12090
    Location:470605
    MDA5_ID; Insert domain of MDA5
    pfam00271
    Location:614734
    Helicase_C; Helicase conserved C-terminal domain
    pfam11648
    Location:808923
    RIG-I_C-RD; C-terminal domain of RIG-I

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    40203775..40239843 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036163986.1XP_036019879.1  antiviral innate immune response receptor RIG-I isoform X1

    Conserved Domains (4) summary
    cd15805
    Location:437550
    RIG-I_C; C-terminal domain of Retinoic acid-inducible gene (RIG)-I protein, a cytoplasmic viral RNA receptor
    cd12090
    Location:101236
    MDA5_ID; Insert domain of MDA5
    cl38915
    Location:241374
    DEAD-like_helicase_C; C-terminal helicase domain of the DEAD-like helicases
    cl28899
    Location:174
    DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily