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    Irf5 interferon regulatory factor 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296953, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Irf5provided by RGD
    Official Full Name
    interferon regulatory factor 5provided by RGD
    Primary source
    RGD:1310447
    See related
    Ensembl:ENSRNOG00000007437 AllianceGenome:RGD:1310447
    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
    Summary
    Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in several processes, including defense response to other organism; positive regulation of macromolecule metabolic process; and response to peptidoglycan. Located in cytoplasm and nucleus. Biomarker of obstructive jaundice and ureteral obstruction. Human ortholog(s) of this gene implicated in herpes simplex; inflammatory bowel disease 14; multiple sclerosis; rheumatoid arthritis; and systemic lupus erythematosus. Orthologous to human IRF5 (interferon regulatory factor 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 111.6), Thymus (RPKM 32.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Irf5 in Genome Data Viewer
    Location:
    4q22
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (59092914..59104596)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (58127577..58140665)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (56804477..56816271)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene involucrin-like Neighboring gene kielin cysteine rich BMP regulator Neighboring gene transportin 3 Neighboring gene uncharacterized LOC134486568 Neighboring gene uncharacterized LOC102552812

    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
    • 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. Depression Exacerbates Dextran Sulfate Sodium-Induced Colitis via IRF5-Mediated Macrophage Polarization. Liang C, et al. Dig Dis Sci, 2023 Apr. PMID 36088512
    2. Bone marrow mesenchymal stem cell-derived exosomal microRNA-125a promotes M2 macrophage polarization in spinal cord injury by downregulating IRF5. Chang Q, et al. Brain Res Bull, 2021 May. PMID 33609602
    3. Antibody response to homologous epitopes of Epstein-Barr virus, Mycobacterium avium subsp. paratuberculosis and IRF5 in patients with different connective tissue diseases and in mouse model of antigen-induced arthritis. Bo M, et al. J Transl Autoimmun, 2020. PMID 32743529, Free PMC Article
    4. The protective effect of interfering TLR9-IRF5 signaling pathway on the development of CVB3-induced myocarditis. Nie S, et al. Clin Immunol, 2019 Oct. PMID 31279856
    5. Sedum sarmentosum Bunge extract alleviates inflammation and kidney injury via inhibition of M1-macrophage polarization. Lu H, et al. Phytomedicine, 2019 Sep. PMID 31177020

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Depression Exacerbates Dextran Sulfate Sodium-Induced Colitis via IRF5-Mediated Macrophage Polarization.
      Title: Depression Exacerbates Dextran Sulfate Sodium-Induced Colitis via IRF5-Mediated Macrophage Polarization.
    2. BoDV-1 infection induces neuroinflammation by activating the TLR4/MyD88/IRF5 signaling pathway, leading to learning and memory impairment in rats.
      Title: BoDV-1 infection induces neuroinflammation by activating the TLR4/MyD88/IRF5 signaling pathway, leading to learning and memory impairment in rats.
    3. Bone marrow mesenchymal stem cell-derived exosomal microRNA-125a promotes M2 macrophage polarization in spinal cord injury by downregulating IRF5.
      Title: Bone marrow mesenchymal stem cell-derived exosomal microRNA-125a promotes M2 macrophage polarization in spinal cord injury by downregulating IRF5.
    4. MicroRNA-22-3p alleviates spinal cord ischemia/reperfusion injury by modulating M2 macrophage polarization via IRF5.
      Title: MicroRNA-22-3p alleviates spinal cord ischemia/reperfusion injury by modulating M2 macrophage polarization via IRF5.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cytokine-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in immune system process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cytokine production involved in immune response 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 type I interferon production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to muramyl dipeptide ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to peptidoglycan ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    interferon regulatory factor 5

    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_001106586.1 → NP_001100056.1  interferon regulatory factor 5

      See identical proteins and their annotated locations for NP_001100056.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473959
      UniProtKB/TrEMBL
      A0A8I5YBA0, A6IEE2, D3ZPU1
      Related
      ENSRNOP00000010001.5, ENSRNOT00000010001.7
      Conserved Domains (2) summary
      pfam00605
      Location:16 → 121
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:247 → 430
      IRF-3; Interferon-regulatory factor 3

    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_086022.1 Reference GRCr8

      Range
      59092914..59104596
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008762765.4 → XP_008760987.1  interferon regulatory factor 5 isoform X4

      See identical proteins and their annotated locations for XP_008760987.1

      UniProtKB/TrEMBL
      A0A8I5YBA0
      Related
      ENSRNOP00000076407.1
      Conserved Domains (2) summary
      pfam00605
      Location:16 → 121
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:251 → 434
      IRF-3; Interferon-regulatory factor 3

    2. XM_063285738.1 → XP_063141808.1  interferon regulatory factor 5 isoform X3

    3. XM_039107277.2 → XP_038963205.1  interferon regulatory factor 5 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JUR2, A0A8I5YBA0
      Related
      ENSRNOP00000069195.2
      Conserved Domains (2) summary
      pfam00605
      Location:43 → 148
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:278 → 461
      IRF-3; Interferon-regulatory factor 3

    4. XM_006236184.5 → XP_006236246.1  interferon regulatory factor 5 isoform X4

      See identical proteins and their annotated locations for XP_006236246.1

      UniProtKB/TrEMBL
      A0A8I5YBA0
      Conserved Domains (2) summary
      pfam00605
      Location:16 → 121
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:251 → 434
      IRF-3; Interferon-regulatory factor 3

    5. XM_006236185.5 → XP_006236247.1  interferon regulatory factor 5 isoform X4

      See identical proteins and their annotated locations for XP_006236247.1

      UniProtKB/TrEMBL
      A0A8I5YBA0
      Conserved Domains (2) summary
      pfam00605
      Location:16 → 121
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:251 → 434
      IRF-3; Interferon-regulatory factor 3

    6. XM_039107278.2 → XP_038963206.1  interferon regulatory factor 5 isoform X2

      UniProtKB/TrEMBL
      A0A8I5YBA0
      Conserved Domains (2) summary
      pfam00605
      Location:25 → 130
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:260 → 443
      IRF-3; Interferon-regulatory factor 3
    Nucleotide Protein Strain
    Heading Accession and Version

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