cirbp.S cold inducible RNA binding protein S homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: cirbp.S
Official Full Name: cold inducible RNA binding protein S homeolog
Primary source: Xenbase:XB-GENE-492785
Locus tag: XELAEV_18009768mg
See related: EnsemblRapid:ENSXLAG00005034102 AllianceGenome:Xenbase:XB-GENE-492785
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: cirp; Xcirp; cirbp; cirp1; cirp2; cirbp2; xcirp2; cirbp-a; cirbp-b
Summary: Enables enzyme binding activity; mRNA binding activity; and ribosome binding activity. Acts upstream of or within several processes, including embryo development; gastrulation; and negative regulation of mRNA catabolic process. Located in cytoplasm and nucleus. Orthologous to human CIRBP (cold inducible RNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

Location:: chromosome: 1S

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	1S	NC_054372.1 (90454212..90459771, complement)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	1S	NC_030725.1 (85200699..85206209, complement)

Chromosome 1S - NC_054372.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

xCIRP2 protein is downregulated through calpain- and proteasome-mediated proteolysis in response to TH at the onset of metamorphosis, inducing apoptosis in tails and thereby degenerating them.
Title: The RNA-binding protein xCIRP2 is involved in apoptotic tail regression during metamorphosis in Xenopus laevis tadpoles.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	IPI Inferred from Physical Interaction more info	PubMed
enables mRNA 3'-UTR binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribosome binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mRNA stabilization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within mRNA stabilization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of nuclear-transcribed mRNA poly(A) tail shortening	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within pronephros development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within response to cold	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of spliceosomal complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: cold-inducible RNA-binding protein B

Names: Glycine-rich RNA-binding protein CIRP-B; cold-inducible RNA binding protein 2; xCIRP2

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_001086325.1 → NP_001079794.1 cold-inducible RNA-binding protein B

See identical proteins and their annotated locations for NP_001079794.1

Status: PROVISIONAL

Source sequence(s)

BC054250

UniProtKB/Swiss-Prot

Q9DED4

UniProtKB/TrEMBL

A0A974DU52

Related

ENSXLAP00005101964.1, ENSXLAT00005103955.1

Conserved Domains (1) summary

cd12449
Location:5 → 84

RRM_CIRBP_RBM3; RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054372.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

90454212..90459771 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_041572865.1 → XP_041428799.1 cold-inducible RNA-binding protein B isoform X1

UniProtKB/TrEMBL

A0A8J1LIA3

Related

ENSXLAP00005101993.1, ENSXLAT00005103984.1

Conserved Domains (1) summary

cd12449
Location:5 → 84

RRM_CIRBP_RBM3; RNA recognition motif (RRM) found in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins