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

Gene ID: 12696, updated on 2-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 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

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