Ly96 MGI Mouse Gene Detail - MGI:1341909

Symbol

Ly96
Name

lymphocyte antigen 96
Synonyms

ESOP-1, MD-2, MD2, myeloid differentiation factor-2

Feature Type

protein coding gene
IDs

MGI:1341909
NCBI Gene: 17087
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr1:16758680-16779829 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 5.10 cM
Mapping Data

1 experiment

SNPs within 2kb

765 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1341909	protein coding gene	Chr1:16758275-16779835 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0015859	protein coding gene	Chr1:14204427-14228362 (+)
A/J	MGP_AJ_G0015840	protein coding gene	Chr1:14024186-14045642 (+)
AKR/J	MGP_AKRJ_G0015799	protein coding gene	Chr1:14049261-14075681 (+)
BALB/cJ	MGP_BALBcJ_G0015796	protein coding gene	Chr1:13756609-13779615 (+)
C3H/HeJ	MGP_C3HHeJ_G0015630	protein coding gene	Chr1:14085221-14108990 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0016250	protein coding gene	Chr1:14819679-14843528 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0013971	protein coding gene	Chr1:12626384-12647750 (+)
CAST/EiJ	MGP_CASTEiJ_G0015211	protein coding gene	Chr1:14159355-14185058 (+)
CBA/J	MGP_CBAJ_G0015603	protein coding gene	Chr1:15178430-15199689 (+)
DBA/2J	MGP_DBA2J_G0015702	protein coding gene	Chr1:13624862-13646212 (+)
FVB/NJ	MGP_FVBNJ_G0015707	protein coding gene	Chr1:13411931-13433232 (+)
LP/J	MGP_LPJ_G0015774	protein coding gene	Chr1:14409136-14432628 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0015726	protein coding gene	Chr1:15787297-15810739 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016297	protein coding gene	Chr1:14013194-14034752 (+)
PWK/PhJ	MGP_PWKPhJ_G0014995	protein coding gene	Chr1:13399618-13421537 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0014776	protein coding gene	Chr1:14203587-14225876 (+)
WSB/EiJ	MGP_WSBEiJ_G0015274	protein coding gene	Chr1:13942248-13965319 (+)

Human Ortholog

LY96, lymphocyte antigen 96

Vertebrate Orthologs

1

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LY96, lymphocyte antigen 96
Synonyms

ESOP-1, ly-96, MD-2, MD2
Links

HGNC:17156

NCBI Gene ID: 23643

neXtProt AC: NX_Q9Y6Y9

UniProt: Q9Y6Y9
Chr Location

8q21.11; chr8:73991392-74099857 (+) GRCh38

MGI Vertebrate Homology

Ly96 stringent orthology
1 human;1 mouse
HCOP

vertebrate homology predictions: LY96
Gene Tree

Ly96

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Phenotype Summary

10 phenotypes from 2 alleles in 2 genetic backgrounds
57 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 (ENU)

1
Endonuclease-mediated

4
Targeted

3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

13 strains or lines available

Mice homozygous for a knock-out allele display impaired responsiveness to LPS, are resistant to LPS-induced lethal toxicity but show increased susceptibility to Salmonella typhimurium infection.

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All GO Annotations

35
GO References

13

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

742
Tissues

34
cDNA Data

7
Literature Summary

1

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

39
RefSeq

4
UniProt

4
CCDS

CCDS14832.1, CCDS78550.1

Ensembl

ENSMUSG00000025779 (Evidence)
NCBI Gene

17087

			Length	Strain/Species	Flank
genomic	17087	NCBI Gene Model \| MGI Sequence Detail	21150	C57BL/6J	± kb
transcript	NM_016923	RefSeq \| MGI Sequence Detail	603	C57BL/6
polypeptide	Q9JHF9	UniProt \| EBI \| MGI Sequence Detail	160	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000003296 lymphocyte antigen 96

(term hierarchy)
PDB

2Z64, 3VQ1, 3VQ2, 5IJB, 5IJC, 5IJD, 7MLM
InterPro Domains

IPR014756 Immunoglobulin E-set

IPR039217 Lymphocyte antigen 96

IPR003172 MD-2-related lipid-recognition domain
GlyGen

Q9JHF9 3 sites, 1 N-linked glycan (1 site)

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All nucleic 7

cDNA 7

Microarray probesets 2

Summaries

All 115

Developmental Gene Expression 1

Gene Ontology 13

Phenotypes 57
Earliest

J:55323 Shimazu R, et al., MD-2, a molecule that confers lipopolysaccharide responsiveness on Toll-like receptor 4. J Exp Med. 1999 Jun 7;189(11):1777-82
Latest

J:347100 Wang M, et al., Inhibition of MD2 by natural product-drived JM-9 attenuates renal inflammation and diabetic nephropathy in mice. Biomed Pharmacother. 2023 Dec;168:115660

TSS for Ly96:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr6007	Chr1:16758256-16758297 (+)	-403 bp
Tssr6008	Chr1:16758629-16758682 (+)	-24 bp
Tssr6009	Chr1:16758683-16758695 (+)	9 bp
Tssr6010	Chr1:16758731-16758742 (+)	57 bp
Tssr6011	Chr1:16761955-16761972 (+)	3,284 bp
Tssr6012	Chr1:16779693-16779705 (+)	21,019 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)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24