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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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