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Ly96 lymphocyte antigen 96 [ Mus musculus (house mouse) ]

Gene ID: 17087, updated on 5-Mar-2024

Summary

Official Symbol
Ly96provided by MGI
Official Full Name
lymphocyte antigen 96provided by MGI
Primary source
MGI:MGI:1341909
See related
Ensembl:ENSMUSG00000025779 AllianceGenome:MGI:1341909
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
MD2; MD-2; ESOP-1
Summary
Predicted to enable lipopolysaccharide immune receptor activity. Involved in lipopolysaccharide-mediated signaling pathway; positive regulation of tumor necrosis factor production; and toll-like receptor 4 signaling pathway. Acts upstream of or within positive regulation of lipopolysaccharide-mediated signaling pathway. Part of lipopolysaccharide receptor complex. Is expressed in several structures, including extraembryonic component; gonad; immune system; integumental system; and nervous system. Orthologous to human LY96 (lymphocyte antigen 96). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in bladder adult (RPKM 5.4), placenta adult (RPKM 3.9) and 26 other tissues See more
Orthologs
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Genomic context

See Ly96 in Genome Data Viewer
Location:
1 A3; 1 5.1 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (16758680..16779829)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (16688456..16709605)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E11065 Neighboring gene STARR-seq mESC enhancer starr_00340 Neighboring gene isopentenyl-diphosphate delta isomerase, pseudogene 5 Neighboring gene STARR-seq mESC enhancer starr_00341 Neighboring gene transmembrane protein 70 Neighboring gene STARR-positive B cell enhancer ABC_E5744 Neighboring gene STARR-seq mESC enhancer starr_00342 Neighboring gene STARR-seq mESC enhancer starr_00343 Neighboring gene STARR-positive B cell enhancer ABC_E8769 Neighboring gene TOX high mobility group box family member 4 pseudogene Neighboring gene STARR-seq mESC enhancer starr_00344 Neighboring gene STARR-seq mESC enhancer starr_00345 Neighboring gene STARR-seq mESC enhancer starr_00346 Neighboring gene predicted gene, 53492 Neighboring gene STARR-seq mESC enhancer starr_00347 Neighboring gene STARR-seq mESC enhancer starr_00348

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Chemically induced (ENU) (1) 
  • Endonuclease-mediated (4) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC151162

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables Toll-like receptor 4 binding IEA
Inferred from Electronic Annotation
more info
 
enables lipopolysaccharide binding IEA
Inferred from Electronic Annotation
more info
 
enables lipopolysaccharide immune receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables lipopolysaccharide immune receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in cellular response to lipopolysaccharide IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cellular response to lipopolysaccharide IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in detection of lipopolysaccharide IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in detection of lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within inflammatory response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of lipopolysaccharide-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of lipopolysaccharide-mediated signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in lipopolysaccharide-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of lipopolysaccharide-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within positive regulation of lipopolysaccharide-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of lipopolysaccharide-mediated signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within positive regulation of lipopolysaccharide-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in positive regulation of tumor necrosis factor production IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
involved_in toll-like receptor 4 signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in toll-like receptor 4 signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in toll-like receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
part_of lipopolysaccharide receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of lipopolysaccharide receptor complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of lipopolysaccharide receptor complex ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
part_of receptor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
lymphocyte antigen 96
Names
ly-96
myeloid differentiation factor-2
myeloid differentiation protein-2
protein MD-2

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)

  1. NM_001159711.1NP_001153183.1  lymphocyte antigen 96 isoform B precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (B) has the same N- and C-termini but is shorter compared to isoform A.
    Source sequence(s)
    AB018550, AK019283, AY641431
    Consensus CDS
    CCDS78550.1
    UniProtKB/TrEMBL
    A0A087WQZ9, Q64HC9
    Related
    ENSMUSP00000140411.2, ENSMUST00000190366.2
    Conserved Domains (1) summary
    cl00274
    Location:23135
    ML; The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of ...
  2. NM_016923.2NP_058619.1  lymphocyte antigen 96 isoform A precursor

    See identical proteins and their annotated locations for NP_058619.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (A).
    Source sequence(s)
    AB018550, AK019283
    Consensus CDS
    CCDS14832.1
    UniProtKB/Swiss-Prot
    Q9JHF9
    UniProtKB/TrEMBL
    Q14AM4, Q64HC9
    Related
    ENSMUSP00000026881.5, ENSMUST00000026881.11
    Conserved Domains (1) summary
    cl00274
    Location:23153
    ML; The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of ...

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

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    16758680..16779829
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)