Ybx2 Y box protein 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ybx2provided by MGI
Official Full Name: Y box protein 2provided by MGI
Primary source: MGI:MGI:1096372
See related: Ensembl:ENSMUSG00000018554 AllianceGenome:MGI:1096372
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: Msy2
Summary: Enables several functions, including chromatin binding activity; mRNA 3'-UTR binding activity; and ribonucleoprotein complex binding activity. Involved in positive regulation of cold-induced thermogenesis. Acts upstream of or within germ cell development and post-transcriptional regulation of gene expression. Located in cytoplasm. Part of ribonucleoprotein complex. Is expressed in several structures, including eye; gonad; lung; trunk somite; and uterus. Orthologous to human YBX2 (Y-box binding protein 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in testis adult (RPKM 508.1) and colon adult (RPKM 19.1) See more
Orthologs: human all
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Genomic context

Location:: 11 B3; 11 42.93 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (69826652..69832430)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (69935805..69941604)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PAIP1 regulates the translation of YBX2-masked mRNAs during spermiogenesis and this YBX2-PAIP1 interaction may play an important role in male germ cell development.
Title: Murine PAIP1 stimulates translation of spermiogenic mRNAs stored by YBX2 via its interaction with YBX2†.
Ybx2 is a novel regulator that controls brown adipose tissue activation by regulating mRNA stability.
Title: RNA Binding Protein Ybx2 Regulates RNA Stability During Cold-Induced Brown Fat Activation.
mRNAs, possibly in a complex with MSY2 and PADI6, are bound in the cytoplasmic lattices (CPLs) and may play a role in securing the mRNA-MSY2 complex to the CPLs.
Title: Role for PADI6 in securing the mRNA-MSY2 complex to the oocyte cytoplasmic lattices.
YBX2 has the important role of coordinating the storage of translationally repressed mRNAs in round spermatids by inhibiting translational activity and the degradation of transcripts via translation-dependent deadenylation.
Title: Position-dependent interactions of Y-box protein 2 (YBX2) with mRNA enable mRNA storage in round spermatids by repressing mRNA translation and blocking translation-dependent mRNA decay.
homozygous double mutants could not be generated as haploinsufficiency of both Ybx2 and Ybx3 caused sterility characterized by extensive defects in spermatid differentiation.
Title: Compound Heterozygosity for Y Box Proteins Causes Sterility Due to Loss of Translational Repression.
central role in regulating mRNA stability
Title: Absence of MSY2 in mouse oocytes perturbs oocyte growth and maturation, RNA stability, and the transcriptome.
Results show that MSY-RNAs are in both nuclei and cytoplasm.
Title: MIWI-independent small RNAs (MSY-RNAs) bind to the RNA-binding protein, MSY2, in male germ cells.
Study reports that CDC2A (CDK1)-mediated phosphorylation of MSY2 triggers an abrupt transition in which most maternal mRNAs are significantly degraded.
Title: CDC2A (CDK1)-mediated phosphorylation of MSY2 triggers maternal mRNA degradation during mouse oocyte maturation.
data suggest that MSY2 packages mRNAs in vivo with relatively little sequence specificity, which may lead to both stabilization and translation repression of maternal mRNAs
Title: RNA-binding properties and translation repression in vitro by germ cell-specific MSY2 protein.
role for MSY2 in stabilizing maternal mRNAs in growing oocytes
Title: Transgenic RNAi-mediated reduction of MSY2 in mouse oocytes results in reduced fertility.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI505953 (e-PCR)
- UniSTS:180235

Ybx2 (e-PCR), detects polymorphism
- UniSTS:532523

Ybx2 (e-PCR), detects polymorphism
- UniSTS:532524

Ybx2 (e-PCR), detects polymorphism
- UniSTS:498758

RH126545 (e-PCR)
- UniSTS:142225

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables lipid binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 3'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables nucleic acid binding	IBA Inferred from Biological aspect of Ancestor more info
enables ribonucleoprotein complex binding	IDA Inferred from Direct Assay more info	PubMed
enables translation regulator activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within mRNA stabilization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of binding	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of translation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within oogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cold-induced thermogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within spermatid development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: Y-box-binding protein 2

Names: Y-box protein MSY2; germ cell-specific Y-box-binding protein

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_001347634.3 → NP_001334563.1 Y-box-binding protein 2 isoform 2

Status: VALIDATED

Source sequence(s)

AL596185

Consensus CDS

CCDS83830.1

UniProtKB/TrEMBL

A0A0A0MQD2

Related

ENSMUSP00000104242.3, ENSMUST00000108601.3
NM_001404612.1 → NP_001391541.1 Y-box-binding protein 2 isoform 3

Status: VALIDATED

Source sequence(s)

AL596185
NM_016875.4 → NP_058571.2 Y-box-binding protein 2 isoform 1

See identical proteins and their annotated locations for NP_058571.2

Status: VALIDATED

Source sequence(s)

AL596185

Consensus CDS

CCDS36200.1

UniProtKB/Swiss-Prot

Q5NCW8, Q5NCW9, Q9Z2C7, Q9Z2C8

UniProtKB/TrEMBL

B2RUF0

Related

ENSMUSP00000018698.6, ENSMUST00000018698.12

Conserved Domains (1) summary

pfam00313
Location:95 → 164

CSD; 'Cold-shock' DNA-binding domain

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

NC_000077.7 Reference GRCm39 C57BL/6J

Range

69826652..69832430

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036156844.1 → XP_036012737.1 Y-box-binding protein 2 isoform X1

UniProtKB/Swiss-Prot

Q5NCW8, Q5NCW9, Q9Z2C7, Q9Z2C8

Conserved Domains (1) summary

pfam00313
Location:95 → 164

CSD; 'Cold-shock' DNA-binding domain
XM_036156845.1 → XP_036012738.1 Y-box-binding protein 2 isoform X2

Conserved Domains (1) summary

cd04458
Location:97 → 126

CSP_CDS; Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. ...
XM_036156846.1 → XP_036012739.1 Y-box-binding protein 2 isoform X3

Conserved Domains (1) summary

pfam00313
Location:18 → 87

CSD; 'Cold-shock' DNA-binding domain
XM_036156847.1 → XP_036012740.1 Y-box-binding protein 2 isoform X4