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rigi RNA sensor RIG-I [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 100495207, updated on 17-Aug-2024

Summary

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Official Symbol
rigiprovided by Xenbase
Official Full Name
RNA sensor RIG-Iprovided by Xenbase
Primary source
Xenbase:XB-GENE-980097
See related
Ensembl:ENSXETG00000009200
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as
ddx58; rig-i
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 1
Exon count:
22
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 1 NC_030677.2 (117199584..117233580)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 1 NC_030677.1 (105036619..105070301)

Chromosome 1 - NC_030677.2Genomic Context describing neighboring genes Neighboring gene phospholipid phosphatase related 1 Neighboring gene tRNA methyltransferase 10B Neighboring gene aconitase 1 Neighboring gene coiled-coil domain containing 171

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables double-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables single-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in antiviral innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cytoplasmic pattern recognition receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
probable ATP-dependent RNA helicase DDX58
Names
DEAD (Asp-Glu-Ala-Asp) box polypeptide 58
DEXD/H-box helicase 58

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

  1. NC_030677.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    117199584..117233580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_002935671.5 → XP_002935717.2  probable ATP-dependent RNA helicase DDX58 isoform X2

    UniProtKB/TrEMBL
    A0A6I8QTQ6, A0A6I8SD42
    Related
    ENSXETP00000072999.2, ENSXETT00000094606.2
    Conserved Domains (5) summary
    COG1111
    Location:276 → 838
    MPH1; ERCC4-related helicase [Replication, recombination and repair]
    cd15805
    Location:840 → 953
    RIG-I_C; C-terminal domain of Retinoic acid-inducible gene (RIG)-I protein, a cytoplasmic viral RNA receptor
    cd18073
    Location:277 → 478
    DEXHc_RIG-I_DDX58; DEXH-box helicase domain of RIG-I
    pfam16739
    Location:99 → 190
    CARD_2; Caspase recruitment domain
    cl14633
    Location:4 → 88
    DD; Death Domain Superfamily of protein-protein interaction domains

  2. XM_031890382.1 → XP_031746242.1  probable ATP-dependent RNA helicase DDX58 isoform X1

    UniProtKB/TrEMBL
    A0A6I8SD42, F7E080
    Related
    ENSXETP00000020202.5, ENSXETT00000020202.5
    Conserved Domains (5) summary
    COG1111
    Location:276 → 838
    MPH1; ERCC4-related helicase [Replication, recombination and repair]
    cd18073
    Location:277 → 478
    DEXHc_RIG-I_DDX58; DEXH-box helicase domain of RIG-I
    pfam16739
    Location:100 → 190
    CARD_2; Caspase recruitment domain
    cl13152
    Location:840 → 951
    RLR_C_like; C-terminal domain of Retinoic acid-inducible gene (RIG)-I-like Receptors, Cereblon (CRBN), and similar protein domains
    cl14633
    Location:4 → 88
    DD; Death Domain Superfamily of protein-protein interaction domains
Nucleotide Protein Strain
Heading Accession and Version

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