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Ifih1 interferon induced with helicase C domain 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 499801, updated on 2-Nov-2024

Summary

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Official Symbol
Ifih1provided by RGD
Official Full Name
interferon induced with helicase C domain 1provided by RGD
Primary source
RGD:1560496
See related
EnsemblRapid:ENSRNOG00000006227 AllianceGenome:RGD:1560496
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1560496
Summary
Predicted to enable several functions, including ATP hydrolysis activity; RNA binding activity; and zinc ion binding activity. Predicted to be involved in several processes, including MDA-5 signaling pathway; antiviral innate immune response; and positive regulation of cytokine production. Predicted to act upstream of or within protein complex oligomerization and type I interferon-mediated signaling pathway. Predicted to be located in mitochondrion. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in Aicardi-Goutieres syndrome and primary immunodeficiency disease. Orthologous to human IFIH1 (interferon induced with helicase C domain 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 106.0), Liver (RPKM 93.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ifih1 in Genome Data Viewer
Location:
3q21
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (67635924..67683968, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (47228980..47275403, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (48557696..48604097, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene glucagon Neighboring gene fibroblast activation protein, alpha Neighboring gene SHOC2 leucine-rich repeat scaffold protein, pseudogene 1 Neighboring gene grancalcin Neighboring gene potassium voltage-gated channel subfamily H member 7 Neighboring gene small nucleolar RNA SNORA17

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Cooperative assembly and dynamic disassembly of MDA5 filaments for viral dsRNA recognition. Peisley A, et al. Proc Natl Acad Sci U S A, 2011 Dec 27. PMID 22160685, Free PMC Article
  2. Activation of MDA5 requires higher-order RNA structures generated during virus infection. Pichlmair A, et al. J Virol, 2009 Oct. PMID 19656871, Free PMC Article
  3. Structural basis of double-stranded RNA recognition by the RIG-I like receptor MDA5. Li X, et al. Arch Biochem Biophys, 2009 Aug 1. PMID 19531363
  4. Solution structures of cytosolic RNA sensor MDA5 and LGP2 C-terminal domains: identification of the RNA recognition loop in RIG-I-like receptors. Takahasi K, et al. J Biol Chem, 2009 Jun 26. PMID 19380577, Free PMC Article
  5. MDA5 is SUMOylated by PIAS2β in the upregulation of type I interferon signaling. Fu J, et al. Mol Immunol, 2011 Jan. PMID 21156324, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

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 RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA helicase activity ISO
Inferred from Sequence Orthology
more info
  
enables double-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables double-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables pattern recognition receptor activity ISO
Inferred from Sequence Orthology
more info
  
enables ribonucleoprotein complex binding ISO
Inferred from Sequence Orthology
more info
  
enables single-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables single-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in MDA-5 signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in MDA-5 signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in antiviral innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within 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 cellular response to virus IEA
Inferred from Electronic Annotation
more info
  
involved_in defense response to virus ISO
Inferred from Sequence Orthology
more info
  
involved_in innate immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of viral genome replication 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 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 response to cytokine stimulus ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein complex oligomerization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein sumoylation ISO
Inferred from Sequence Orthology
more info
  
involved_in response to virus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within type I interferon-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
interferon-induced helicase C domain-containing protein 1
NP_001102669.1
XP_038961599.1
XP_063140425.1

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.

mRNA and Protein(s)

  1. NM_001109199.1 → NP_001102669.1  interferon-induced helicase C domain-containing protein 1

    See identical proteins and their annotated locations for NP_001102669.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473949
    UniProtKB/TrEMBL
    A0A8I5Y1S7, A6HLW0, G3V6W5
    Related
    ENSRNOP00000009621.2, ENSRNOT00000009620.5
    Conserved Domains (6) summary
    COG1111
    Location:305 → 875
    MPH1; ERCC4-related helicase [Replication, recombination and repair]
    cd15807
    Location:902 → 1016
    MDA5_C; C-terminal domain of Melanoma differentiation-associated protein 5, a cytoplasmic viral RNA receptor
    cd12090
    Location:550 → 696
    MDA5_ID; Insert domain of MDA5
    pfam00271
    Location:710 → 825
    Helicase_C; Helicase conserved C-terminal domain
    pfam04851
    Location:307 → 493
    ResIII; Type III restriction enzyme, res subunit
    cl14633
    Location:8 → 99
    DD; Death Domain Superfamily of protein-protein interaction domains

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    67635924..67683968 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063284355.1 → XP_063140425.1  interferon-induced helicase C domain-containing protein 1 isoform X2

  2. XM_039105671.2 → XP_038961599.1  interferon-induced helicase C domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    B5DEI3
    Conserved Domains (5) summary
    cd15807
    Location:757 → 871
    MDA5_C; C-terminal domain of Melanoma differentiation-associated protein 5, a cytoplasmic viral RNA receptor
    cd12090
    Location:405 → 551
    MDA5_ID; Insert domain of MDA5
    cd18802
    Location:553 → 691
    SF2_C_dicer; C-terminal helicase domain of the endoribonuclease Dicer
    cl14633
    Location:7 → 56
    DD; Death Domain Superfamily of protein-protein interaction domains
    cl28899
    Location:163 → 378
    DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
Nucleotide Protein Strain
Heading Accession and Version

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