Ybx2 MGI Mouse Gene Detail - MGI:1096372

Symbol

Ybx2
Name

Y box protein 2
Synonyms

MSY2

Feature Type

protein coding gene
IDs

MGI:1096372
NCBI Gene: 53422
Alliance

gene page
Transcription Start Sites

17 TSS

Sequence Map

Chr11:69826652-69832430 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 42.93 cM, cytoband B4
Mapping Data

1 experiment

SNPs within 2kb

53 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1096372	protein coding gene	Chr11:69826622-69832431 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0018570	protein coding gene	Chr11:70424683-70430134 (+)
A/J	MGP_AJ_G0018538	protein coding gene	Chr11:67757653-67763275 (+)
AKR/J	MGP_AKRJ_G0018507	protein coding gene	Chr11:69779981-69785615 (+)
BALB/cJ	MGP_BALBcJ_G0018510	protein coding gene	Chr11:68089619-68095248 (+)
C3H/HeJ	MGP_C3HHeJ_G0018323	protein coding gene	Chr11:69817337-69822966 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018961	protein coding gene	Chr11:72551207-72556836 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016606	protein coding gene	Chr11:64686225-64691999 (+)
CAST/EiJ	MGP_CASTEiJ_G0017878	protein coding gene	Chr11:70060161-70065777 (+)
CBA/J	MGP_CBAJ_G0018295	protein coding gene	Chr11:75801529-75809387 (+)
DBA/2J	MGP_DBA2J_G0018405	protein coding gene	Chr11:67343451-67349040 (+)
FVB/NJ	MGP_FVBNJ_G0018395	protein coding gene	Chr11:66989254-66994905 (+)
LP/J	MGP_LPJ_G0018475	protein coding gene	Chr11:71006651-71013155 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018418	protein coding gene	Chr11:76394266-76399895 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0019003	protein coding gene	Chr11:70053183-70058812 (+)
PWK/PhJ	MGP_PWKPhJ_G0017652	protein coding gene	Chr11:67995800-68001414 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0017442	protein coding gene	Chr11:69864494-69874759 (+)
WSB/EiJ	MGP_WSBEiJ_G0017932	protein coding gene	Chr11:69717105-69722912 (+)

Human Ortholog

YBX2, Y-box binding protein 2

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

YBX2, Y-box binding protein 2
Synonyms

CONTRIN, CSDA3, DBPC, MSY2
Links

HGNC:17948

NCBI Gene ID: 51087

neXtProt AC: NX_Q9Y2T7

UniProt: Q9Y2T7
Chr Location

17p13.1; chr17:7288263-7294639 (-) GRCh38

MGI Vertebrate Homology

Ybx2 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: YBX2
Gene Tree

Ybx2

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Phenotype Summary

14 phenotypes from 1 allele in 1 genetic background
20 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

8
Chemically induced (other)

1
Endonuclease-mediated

3
Targeted

4
Genomic Mutations

2 involving Ybx2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

20 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous disruption of this gene leads to both male and female infertility. Spermatogenesis terminates in postmeiotic germ cells with no sperm seen in the epididymis and a marked increase of apoptosis during meiosis. Adult females exhibit a few growingfollicles and no corpora lutea.

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All GO Annotations

19
GO References

11

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

782
Tissues

35
cDNA Data

44
Literature Summary

20

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ybx2

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All Sequences

56
RefSeq

14
UniProt

6
CCDS

CCDS36200.1, CCDS83830.1

Ensembl

ENSMUSG00000018554 (Evidence)
NCBI Gene

53422

			Length	Strain/Species	Flank
genomic	53422	NCBI Gene Model \| MGI Sequence Detail	5779	C57BL/6J	± kb
transcript	NM_016875	RefSeq \| MGI Sequence Detail	1642	C57BL/6
polypeptide	Q9Z2C8	UniProt \| EBI \| MGI Sequence Detail	360	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000017526 Y-box-binding protein 2

(term hierarchy)
InterPro Domains

IPR019844 Cold-shock (CSD) domain

IPR011129 Cold shock domain

IPR050181 Cold shock domain-containing protein

IPR002059 Cold-shock protein, DNA-binding

IPR012340 Nucleic acid-binding, OB-fold
GlyGen

Q9Z2C8 1 site, 1 O-linked glycan (1 site)

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All nucleic 48

cDNA 44

Primer pair 4

Microarray probesets 3

Summaries

All 67

Developmental Gene Expression 20

Gene Ontology 11

Phenotypes 20
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:353355 Yao X, et al., BCAS2 regulates oocyte meiotic prophase I by participating in mRNA alternative splicing. FASEB J. 2024 Jan;38(1):e23361

TSS for Ybx2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr102563	Chr11:69826521-69826529 (+)	-127 bp
Tssr102564	Chr11:69826623-69826643 (+)	-19 bp
Tssr102565	Chr11:69826644-69826669 (+)	5 bp
Tssr102566	Chr11:69826671-69826680 (+)	24 bp
Tssr102567	Chr11:69826691-69826709 (+)	48 bp
Tssr102568	Chr11:69826720-69826757 (+)	87 bp
Tssr102569	Chr11:69826761-69826791 (+)	124 bp
Tssr102570	Chr11:69826815-69826826 (+)	169 bp
Tssr102571	Chr11:69830728-69830739 (+)	4,082 bp
Tssr102572	Chr11:69830933-69830942 (+)	4,286 bp
Tssr102573	Chr11:69831209-69831216 (+)	4,561 bp
Tssr102574	Chr11:69831412-69831425 (+)	4,767 bp
Tssr102575	Chr11:69831545-69831561 (+)	4,901 bp
Tssr102576	Chr11:69831889-69831904 (+)	5,245 bp
Tssr3565	Chr11:69831915-69831925 (+)	5,268 bp
Tssr102577	Chr11:69832066-69832097 (+)	5,430 bp
Tssr102578	Chr11:69832150-69832155 (+)	5,501 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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