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    Cirbp cold inducible RNA binding protein [ Mus musculus (house mouse) ]

    Gene ID: 12696, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Cirbpprovided by MGI
    Official Full Name
    cold inducible RNA binding proteinprovided by MGI
    Primary source
    MGI:MGI:893588
    See related
    Ensembl:ENSMUSG00000045193 AllianceGenome:MGI:893588
    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
    Cirp
    Summary
    Enables poly(U) RNA binding activity and translation repressor activity. Involved in stress granule assembly. Acts upstream of or within cellular response to cold; negative regulation of cell growth; and regulation of cell cycle G1/S phase transition. Located in cytoplasmic stress granule and nucleoplasm. Is expressed in several structures, including central nervous system; olfactory epithelium; and retina. Orthologous to human CIRBP (cold inducible RNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 77.5), whole brain E14.5 (RPKM 68.5) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cirbp in Genome Data Viewer
    Location:
    10 C1; 10 39.72 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (80001824..80008620)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (80165990..80172786)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene calcium channel, voltage-dependent, beta subunit associated regulatory protein Neighboring gene STARR-positive B cell enhancer ABC_E11444 Neighboring gene STARR-positive B cell enhancer ABC_E1806 Neighboring gene ATP synthase F1 subunit delta Neighboring gene STARR-seq mESC enhancer starr_27268 Neighboring gene STARR-seq mESC enhancer starr_27269 Neighboring gene midnolin Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:79621397-79621506 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:79622453-79622640 Neighboring gene STARR-positive B cell enhancer ABC_E2949 Neighboring gene STARR-positive B cell enhancer ABC_E576 Neighboring gene family with sequence similarity 174, member C Neighboring gene ephrin A2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. A deficiency in cold-inducible RNA-binding protein accelerates the inflammation phase and improves wound healing. Idrovo JP, et al. Int J Mol Med, 2016 Feb. PMID 26743936
    2. Mammalian cold-inducible RNA-binding protein facilitates wound healing through activation of AMP-activated protein kinase. Higashitsuji H, et al. Biochem Biophys Res Commun, 2020 Dec 17. PMID 33041006
    3. Extracellular cold-inducible RNA-binding protein regulates neutrophil extracellular trap formation and tissue damage in acute pancreatitis. Linders J, et al. Lab Invest, 2020 Dec. PMID 32709888
    4. Diurnal change of the cold-inducible RNA-binding protein (Cirp) expression in mouse brain. Nishiyama H, et al. Biochem Biophys Res Commun, 1998 Apr 17. PMID 9571190
    5. Hypothermia induces changes in the alternative splicing pattern of cold-inducible RNA-binding protein transcripts in a non-hibernator, the mouse. Horii Y, et al. Biomed Res, 2019. PMID 31413236

    See all (92) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Extracellular CIRP promotes Kupffer cell inflammatory polarization in sepsis.
      Title: Extracellular CIRP promotes Kupffer cell inflammatory polarization in sepsis.
    2. BMAL2 promotes eCIRP-induced macrophage endotoxin tolerance.
      Title: BMAL2 promotes eCIRP-induced macrophage endotoxin tolerance.
    3. CIRP increases Foxp3[+] regulatory T cells and inhibits development of Th17 cells by enhancing TLR4-IL-2 signaling in the late phase of sepsis.
      Title: CIRP increases Foxp3(+) regulatory T cells and inhibits development of Th17 cells by enhancing TLR4-IL-2 signaling in the late phase of sepsis.
    4. The cold-inducible RNA-binding protein-Thioredoxin 1 pathway ameliorates mitochondrial dysfunction and mitochondrial dynamin-related protein 1 level in the hippocampus of aged mice with perioperative neurocognitive dysfunction.
      Title: The cold-inducible RNA-binding protein-Thioredoxin 1 pathway ameliorates mitochondrial dysfunction and mitochondrial dynamin-related protein 1 level in the hippocampus of aged mice with perioperative neurocognitive dysfunction.
    5. Extracellular CIRP induces CD4CD8alphaalpha intraepithelial lymphocyte cytotoxicity in sepsis.
      Title: Extracellular CIRP induces CD4CD8αα intraepithelial lymphocyte cytotoxicity in sepsis.
    6. Chronic social stress blunts core body temperature and molecular rhythms of Rbm3 and Cirbp in mouse lateral habenula.
      Title: Chronic social stress blunts core body temperature and molecular rhythms of Rbm3 and Cirbp in mouse lateral habenula.
    7. Radiation upregulates macrophage TREM-1 expression to exacerbate injury in mice.
      Title: Radiation upregulates macrophage TREM-1 expression to exacerbate injury in mice.
    8. Extracellular CIRP Promotes GPX4-Mediated Ferroptosis in Sepsis.
      Title: Extracellular CIRP Promotes GPX4-Mediated Ferroptosis in Sepsis.
    9. CIRBP-OGFR axis safeguards against cardiomyocyte apoptosis and cardiotoxicity induced by chemotherapy.
      Title: CIRBP-OGFR axis safeguards against cardiomyocyte apoptosis and cardiotoxicity induced by chemotherapy.
    10. Extracellular CIRP activates STING to exacerbate hemorrhagic shock.
      Title: Extracellular CIRP activates STING to exacerbate hemorrhagic shock.
    Submit: New GeneRIF Correction See all GeneRIFs (59)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (1)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 3'-UTR binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables poly(U) RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables small ribosomal subunit rRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables small ribosomal subunit rRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables translation repressor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to cold IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA stabilization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within negative regulation of cell growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within regulation of cell cycle G1/S phase transition IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to UV ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to UV ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in stress granule assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    cold-inducible RNA-binding protein
    Names
    A18 hnRNP
    glycine-rich RNA-binding protein CIRP

    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_001379421.1 → NP_001366350.1  cold-inducible RNA-binding protein isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC159999
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    2. NM_001379422.1 → NP_001366351.1  cold-inducible RNA-binding protein isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC159999
      UniProtKB/Swiss-Prot
      O09069, O09148, P60824, Q3V1A6, Q61413
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    3. NM_001379423.1 → NP_001366352.1  cold-inducible RNA-binding protein isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC159999
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    4. NM_001379424.1 → NP_001366353.1  cold-inducible RNA-binding protein isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC159999
      UniProtKB/Swiss-Prot
      O09069, O09148, P60824, Q3V1A6, Q61413
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    5. NM_001379425.1 → NP_001366354.1  cold-inducible RNA-binding protein isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC159999
      UniProtKB/Swiss-Prot
      O09069, O09148, P60824, Q3V1A6, Q61413
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    6. NM_007705.3 → NP_031731.1  cold-inducible RNA-binding protein isoform 1

      See identical proteins and their annotated locations for NP_031731.1

      Status: VALIDATED

      Source sequence(s)
      AI841072, AK132584
      Consensus CDS
      CCDS35975.1
      UniProtKB/Swiss-Prot
      O09069, O09148, P60824, Q3V1A6, Q61413
      Related
      ENSMUSP00000101004.3, ENSMUST00000105365.9
      Conserved Domains (1) summary
      cd12449
      Location:6 → 85
      RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

    RNA

    1. NR_152857.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC159999, BC075699, BE985260, BQ445205, CJ046415
      Related
      ENSMUST00000054666.7

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      80001824..80008620
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P60824.1 GenPept UniProtKB/Swiss-Prot:P60824

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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