Cirbp cold inducible RNA binding protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cirbpprovided by RGD
Official Full Name: cold inducible RNA binding proteinprovided by RGD
Primary source: RGD:620756
See related: EnsemblRapid:ENSRNOG00000088478 AllianceGenome:RGD:620756
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable RNA binding activity and translation repressor activity. Involved in response to cold. Predicted to be located in cytoplasmic stress granule and nucleoplasm. Predicted to be part of spliceosomal complex. Orthologous to human CIRBP (cold inducible RNA binding protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 236.7), Adrenal (RPKM 202.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q11

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (10184515..10189623, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (9533857..9538899, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (12400066..12405054, complement)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Associations of cold-inducible RNA-binding protein with bacterial load, proinflammatory cytokines and mortality from pneumonia.
Title: Associations of cold-inducible RNA-binding protein with bacterial load, proinflammatory cytokines and mortality from pneumonia.
Upregulation of CIRP by its agonist prevents the development of heart failure in myocardial infarction rats.
Title: Upregulation of CIRP by its agonist prevents the development of heart failure in myocardial infarction rats.
Deficiency of cold-inducible RNA-binding protein exacerbated monocrotaline-induced pulmonary artery hypertension through Caveolin1 and CAVIN1.
Title: Deficiency of cold-inducible RNA-binding protein exacerbated monocrotaline-induced pulmonary artery hypertension through Caveolin1 and CAVIN1.
Cold-inducible RNA-binding protein modulates atrial fibrillation onset by targeting multiple ion channels.
Title: Cold-inducible RNA-binding protein modulates atrial fibrillation onset by targeting multiple ion channels.
Cold-Inducible RNA-Binding Protein Prevents an Excessive Heart Rate Response to Stress by Targeting Phosphodiesterase.
Title: Cold-Inducible RNA-Binding Protein Prevents an Excessive Heart Rate Response to Stress by Targeting Phosphodiesterase.
CIRBP Ameliorates Neuronal Amyloid Toxicity via Antioxidative and Antiapoptotic Pathways in Primary Cortical Neurons.
Title: CIRBP Ameliorates Neuronal Amyloid Toxicity via Antioxidative and Antiapoptotic Pathways in Primary Cortical Neurons.
Nerve regeneration in rat peripheral nerve allografts: Evaluation of cold-inducible RNA-binding protein in nerve storage and regeneration.
Title: Nerve regeneration in rat peripheral nerve allografts: Evaluation of cold-inducible RNA-binding protein in nerve storage and regeneration.
Enhanced cold-inducible RNA-binding protein in microglia aggravates neuronal injury by promoting the release of proinflammatory cytokines, which might be mediated through Brd2-NF-kappaB signals during deep hypothermic circulatory arrest.
Title: A novel target to reduce microglial inflammation and neuronal damage after deep hypothermic circulatory arrest.
cold temperature can induce an airway inflammatory response and excess mucus production via a CIRP-mediated increase in mRNA stability and protein translation
Title: Cold-inducible RNA-binding protein mediates airway inflammation and mucus hypersecretion through a post-transcriptional regulatory mechanism under cold stress.
therapeutic hypothermia exerts an important neuroprotective effects by up-regulating CIRP expression.
Title: Therapeutic Hypothermia Enhances Cold-Inducible RNA-Binding Protein Expression and Inhibits Mitochondrial Apoptosis in a Rat Model of Cardiac Arrest.

Submit: New GeneRIF Correction See all GeneRIFs (16)

General gene information

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Markers

Cirbp-rs1 (e-PCR), detects polymorphism
- UniSTS:141342

Cirbp (e-PCR), detects polymorphism
- UniSTS:479080

RH125133 (e-PCR)
- UniSTS:161955

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables translation repressor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to cold	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in stress granule assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
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	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
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)

NM_031147.4 → NP_112409.3 cold-inducible RNA-binding protein

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the protein-coding transcript.

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

P60825

UniProtKB/TrEMBL

A6K8P8, Q6NT88

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

NR_172713.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007
NR_172714.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

Related

ENSRNOT00000162080.1

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

NC_086025.1 Reference GRCr8

Range

10184515..10189623 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006241015.5 → XP_006241077.3 cold-inducible RNA-binding protein isoform X2

UniProtKB/Swiss-Prot

P60825

UniProtKB/TrEMBL

A6K8P8, Q6NT88

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
XM_063264303.1 → XP_063120373.1 cold-inducible RNA-binding protein isoform X1

UniProtKB/TrEMBL

A6K8P9
XM_039079945.2 → XP_038935873.1 cold-inducible RNA-binding protein isoform X1

UniProtKB/TrEMBL

A6K8P9, Q6NT88

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