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Aliases for CIRBP Gene

Aliases for CIRBP Gene

  • Cold Inducible RNA Binding Protein 2 3 5
  • Cold-Inducible RNA-Binding Protein 2 3
  • Glycine-Rich RNA Binding Protein 2 3
  • A18 HnRNP 3 4
  • CIRP 3 4
  • Glycine-Rich RNA-Binding Protein CIRP 4
  • Cold Inducible RNA-Binding Protein 2
  • Testicular Tissue Protein Li 39 3
  • A18HNRNP 4

External Ids for CIRBP Gene

Previous GeneCards Identifiers for CIRBP Gene

  • GC19P001327
  • GC19P001209
  • GC19P001220
  • GC19P001044

Summaries for CIRBP Gene

GeneCards Summary for CIRBP Gene

CIRBP (Cold Inducible RNA Binding Protein) is a Protein Coding gene. Diseases associated with CIRBP include Cryptorchidism. Among its related pathways are Neuroscience and Translational Control. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is RBM3.

UniProtKB/Swiss-Prot for CIRBP Gene

  • Cold-inducible mRNA binding protein that plays a protective role in the genotoxic stress response by stabilizing transcripts of genes involved in cell survival. Acts as a translational activator. Seems to play an essential role in cold-induced suppression of cell proliferation. Binds specifically to the 3-untranslated regions (3-UTRs) of stress-responsive transcripts RPA2 and TXN. Acts as a translational repressor (By similarity). Promotes assembly of stress granules (SGs), when overexpressed.

Gene Wiki entry for CIRBP Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CIRBP Gene

Genomics for CIRBP Gene

Regulatory Elements for CIRBP Gene

Enhancers for CIRBP Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F001202 1 Ensembl ENCODE 93.9 -52.6 -52628 8.0 MLX CREB3L1 ZFP64 FEZF1 YY1 SLC30A9 ZNF143 SP3 NFYC MEF2D CIRBP TMEM259 LOC100288123 GRIN3B SCAMP4 ENSG00000261526 ENSG00000267317 MIER2 POLRMT C19orf24
GH19F001382 0.6 ENCODE 61.7 +124.6 124642 2.2 MLX CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC SF3A2 TMEM259 CIRBP LOC100288123 ENSG00000267317 GRIN3B ENSG00000261526 ENSG00000266990 RNA5SP462 CFD
GH19F001667 1.2 FANTOM5 Ensembl ENCODE 30.6 +409.0 409046 2.5 HDGF GLI4 YBX1 ZBTB40 ZNF48 ZNF155 ZEB1 ZNF335 GLIS2 ZNF366 SF3A2 TMEM259 CIRBP LOC100288123 RNU6-1223P ATP8B3 MIR1909 REXO1 RPS15 GRIN3B
GH19F000856 1 Ensembl 28.4 -402.2 -402198 0.4 ZFP64 RAD21 ZNF121 ZNF366 ZNF362 ZNF654 SP3 ZNF680 ZBTB11 REST LOC100288123 TMEM259 CIRBP GRIN3B ENSG00000267317 CFD POLRMT MIER2 ELANE
GH19F001236 1.3 FANTOM5 ENCODE 23.3 -2.5 -2526 41.1 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF263 SF3A2 TMEM259 LOC100288123 C19orf24 MIER2 ENSG00000267317 MIDN CIRBP MUM1 RPS15
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around CIRBP on UCSC Golden Path with GeneCards custom track

Promoters for CIRBP Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001815140 -184 401 HDGF ZFP64 ARID4B SIN3A SLC30A9 ZNF143 ZNF207 KLF13 ZNF263 PAF1

Genomic Location for CIRBP Gene

Chromosome:
19
Start:
1,259,384 bp from pter
End:
1,274,880 bp from pter
Size:
15,497 bases
Orientation:
Plus strand

Genomic View for CIRBP Gene

Genes around CIRBP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CIRBP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CIRBP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CIRBP Gene

Proteins for CIRBP Gene

  • Protein details for CIRBP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14011-CIRBP_HUMAN
    Recommended name:
    Cold-inducible RNA-binding protein
    Protein Accession:
    Q14011
    Secondary Accessions:
    • B3KT17
    • B4E2X2

    Protein attributes for CIRBP Gene

    Size:
    172 amino acids
    Molecular mass:
    18648 Da
    Quaternary structure:
    • Interacts with EIF4G1. Associates with ribosomes.

    Three dimensional structures from OCA and Proteopedia for CIRBP Gene

    Alternative splice isoforms for CIRBP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CIRBP Gene

Post-translational modifications for CIRBP Gene

  • Methylated on arginine residues. Methylation of the RGG motifs is a prerequisite for recruitment into SGs (By similarity).
  • Phosphorylated by CK2, GSK3A and GSK3B. Phosphorylation by GSK3B increases RNA-binding activity to the TXN 3-UTR transcript upon exposure to UV radiation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for CIRBP (CIRBP)
  • Cloud-Clone Corp. Antibodies for CIRBP
  • Santa Cruz Biotechnology (SCBT) Antibodies for CIRBP

No data available for DME Specific Peptides for CIRBP Gene

Domains & Families for CIRBP Gene

Gene Families for CIRBP Gene

Graphical View of Domain Structure for InterPro Entry

Q14011

UniProtKB/Swiss-Prot:

CIRBP_HUMAN :
  • Both the RRM domain and the arginine, glycine (RGG) rich domain are necessary for binding to the TXN 3-untranslated region. Both the RRM domain and the arginine, glycine (RGG) rich domain (RGG repeats) are necessary for optimal recruitment into SGs upon cellular stress. The C-terminal domain containing RGG repeats is necessary for translational repression (By similarity).
Domain:
  • Both the RRM domain and the arginine, glycine (RGG) rich domain are necessary for binding to the TXN 3-untranslated region. Both the RRM domain and the arginine, glycine (RGG) rich domain (RGG repeats) are necessary for optimal recruitment into SGs upon cellular stress. The C-terminal domain containing RGG repeats is necessary for translational repression (By similarity).
  • Contains 1 RRM (RNA recognition motif) domain.
genes like me logo Genes that share domains with CIRBP: view

Function for CIRBP Gene

Molecular function for CIRBP Gene

GENATLAS Biochemistry:
cold inducible RNA binding-protein,18kDa,ubiquitously expressed,mouse Cirp homolog
UniProtKB/Swiss-Prot Function:
Cold-inducible mRNA binding protein that plays a protective role in the genotoxic stress response by stabilizing transcripts of genes involved in cell survival. Acts as a translational activator. Seems to play an essential role in cold-induced suppression of cell proliferation. Binds specifically to the 3-untranslated regions (3-UTRs) of stress-responsive transcripts RPA2 and TXN. Acts as a translational repressor (By similarity). Promotes assembly of stress granules (SGs), when overexpressed.
UniProtKB/Swiss-Prot Induction:
By cold stress in response to DNA damage induced by UV irradiation or UV mimetic agents. Up-regulated by hypoxia.

Gene Ontology (GO) - Molecular Function for CIRBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0003730 mRNA 3-UTR binding IDA 11574538
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with CIRBP: view
genes like me logo Genes that share phenotypes with CIRBP: view

Animal Models for CIRBP Gene

MGI Knock Outs for CIRBP:

Animal Model Products

miRNA for CIRBP Gene

miRTarBase miRNAs that target CIRBP

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CIRBP

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CIRBP Gene

Localization for CIRBP Gene

Subcellular locations from UniProtKB/Swiss-Prot for CIRBP Gene

Nucleus, nucleoplasm. Cytoplasm. Note=Translocates from the nucleus to the cytoplasm after exposure to UV radiation. Translocates from the nucleus to the cytoplasm into stress granules upon various cytoplasmic stresses, such as osmotic and heat shocks. Its recruitment into stress granules occurs in the absence of TIAR proteins (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CIRBP Gene COMPARTMENTS Subcellular localization image for CIRBP gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for CIRBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS,IDA --
GO:0005654 nucleoplasm IEA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm ISS --
GO:0010494 cytoplasmic stress granule ISS --
genes like me logo Genes that share ontologies with CIRBP: view

Pathways & Interactions for CIRBP Gene

genes like me logo Genes that share pathways with CIRBP: view

Pathways by source for CIRBP Gene

3 Cell Signaling Technology pathways for CIRBP Gene

Gene Ontology (GO) - Biological Process for CIRBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009409 response to cold TAS 9151692
GO:0009411 response to UV IDA 11574538
GO:0017148 negative regulation of translation IEA --
GO:0034063 stress granule assembly ISS --
GO:0045727 positive regulation of translation IDA 11574538
genes like me logo Genes that share ontologies with CIRBP: view

No data available for SIGNOR curated interactions for CIRBP Gene

Drugs & Compounds for CIRBP Gene

(3) Additional Compounds for CIRBP Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CIRBP: view

Transcripts for CIRBP Gene

Unigene Clusters for CIRBP Gene

Cold inducible RNA binding protein:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CIRBP

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CIRBP Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b · 8c ^ 9 ^ 10 ^ 11
SP1: - - - - - - - - -
SP2: - - -
SP3: -
SP4: - -
SP5: - - - - -
SP6: - - - - - -
SP7: - -
SP8: -

Relevant External Links for CIRBP Gene

GeneLoc Exon Structure for
CIRBP
ECgene alternative splicing isoforms for
CIRBP

Expression for CIRBP Gene

mRNA expression in normal human tissues for CIRBP Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CIRBP Gene

This gene is overexpressed in Nasal epithelium (7.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CIRBP Gene



Protein tissue co-expression partners for CIRBP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CIRBP Gene:

CIRBP

SOURCE GeneReport for Unigene cluster for CIRBP Gene:

Hs.618145

mRNA Expression by UniProt/SwissProt for CIRBP Gene:

Q14011-CIRBP_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with CIRBP: view

Primer Products

No data available for mRNA differential expression in normal tissues for CIRBP Gene

Orthologs for CIRBP Gene

This gene was present in the common ancestor of animals.

Orthologs for CIRBP Gene

Organism Taxonomy Gene Similarity Type Details
platypus
(Ornithorhynchus anatinus)
Mammalia CIRBP 35
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CIRBP 34 35
  • 91.09 (n)
cow
(Bos Taurus)
Mammalia CIRBP 34 35
  • 90.56 (n)
mouse
(Mus musculus)
Mammalia Cirbp 34 16 35
  • 86.63 (n)
rat
(Rattus norvegicus)
Mammalia Cirbp 34
  • 85.08 (n)
chimpanzee
(Pan troglodytes)
Mammalia CIRBP 34 35
  • 83.18 (n)
oppossum
(Monodelphis domestica)
Mammalia CIRBP 35
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves CIRBP 34 35
  • 82.44 (n)
lizard
(Anolis carolinensis)
Reptilia CIRBP 35
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cirbp 34
  • 71.17 (n)
African clawed frog
(Xenopus laevis)
Amphibia cirbp-prov 34
zebrafish
(Danio rerio)
Actinopterygii cirbpa 34
  • 61.01 (n)
CIRBP (2 of 2) 35
  • 58 (a)
OneToMany
cirbp 35
  • 54 (a)
OneToMany
wufb74g05 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3932 34
fruit fly
(Drosophila melanogaster)
Insecta tra2 35
  • 16 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 35
  • 19 (a)
OneToMany
Species where no ortholog for CIRBP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CIRBP Gene

ENSEMBL:
Gene Tree for CIRBP (if available)
TreeFam:
Gene Tree for CIRBP (if available)

Paralogs for CIRBP Gene

genes like me logo Genes that share paralogs with CIRBP: view

Variants for CIRBP Gene

Sequence variations from dbSNP and Humsavar for CIRBP Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1054695 -- 1,274,602(+) GTCCC(C/T)CGCCT intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs1061076 -- 1,269,648(-) CCTCG(A/T)GCTCG intron-variant
rs111343011 -- 1,273,893(+) GTGCA(A/G)CCAGG intron-variant, nc-transcript-variant, upstream-variant-2KB, utr-variant-3-prime
rs111436335 -- 1,271,790(+) GGACA(G/T)TCGCA intron-variant, upstream-variant-2KB
rs111473786 -- 1,272,425(+) TCCTC(A/C/T)GCTAC intron-variant, nc-transcript-variant, reference, synonymous-codon, splice-acceptor-variant

Structural Variations from Database of Genomic Variants (DGV) for CIRBP Gene

Variant ID Type Subtype PubMed ID
dgv136n111 CNV deletion 26073780
esv2758743 CNV gain+loss 17122850
esv3643389 CNV gain 21293372
esv3643390 CNV loss 21293372
esv3643391 CNV gain 21293372
nsv1055164 CNV gain 25217958
nsv1058677 CNV loss 25217958
nsv1060536 CNV gain 25217958
nsv1160555 CNV deletion 26073780
nsv470103 CNV gain 18288195
nsv470104 CNV loss 18288195
nsv828368 CNV gain 20364138
nsv828371 CNV loss 20364138
nsv953941 CNV deletion 24416366
nsv9662 CNV gain 18304495

Variation tolerance for CIRBP Gene

Residual Variation Intolerance Score: 36.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.83; 17.48% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CIRBP Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CIRBP

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CIRBP Gene

Disorders for CIRBP Gene

MalaCards: The human disease database

(1) MalaCards diseases for CIRBP Gene - From: DISEASES and Novoseek

Disorder Aliases PubMed IDs
cryptorchidism
  • cryptorchism
- elite association - COSMIC cancer census association via MalaCards
Search CIRBP in MalaCards View complete list of genes associated with diseases

Relevant External Links for CIRBP

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CIRBP
genes like me logo Genes that share disorders with CIRBP: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CIRBP Gene

Publications for CIRBP Gene

  1. Cloning and characterization of human CIRP (cold-inducible RNA- binding protein) cDNA and chromosomal assignment of the gene. (PMID: 9434172) Nishiyama H. … Fujita J. (Gene 1997) 2 3 4 22 64
  2. Oxygen-regulated expression of the RNA-binding proteins RBM3 and CIRP by a HIF-1-independent mechanism. (PMID: 15075239) Wellmann S. … Seeger K. (J. Cell Sci. 2004) 3 4 22 64
  3. The UV-inducible RNA-binding protein A18 (A18 hnRNP) plays a protective role in the genotoxic stress response. (PMID: 11574538) Yang C. … Carrier F. (J. Biol. Chem. 2001) 3 4 22 64
  4. Cold-inducible RNA-binding protein bypasses replicative senescence in primary cells through extracellular signal-regulated kinase 1 and 2 activation. (PMID: 19158277) Artero-Castro A. … Lleonart M.E. (Mol. Cell. Biol. 2009) 3 22 64
  5. Down-regulating cold shock protein genes impairs cancer cell survival and enhances chemosensitivity. (PMID: 19277990) Zeng Y. … Getzenberg R.H. (J. Cell. Biochem. 2009) 3 22 64

Products for CIRBP Gene

Sources for CIRBP Gene

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