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

    Gene ID: 17087, updated on 9-Dec-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 cellular response to lipopolysaccharide; 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, Dec 2024]
    Expression
    Broad expression in bladder adult (RPKM 5.4), placenta adult (RPKM 3.9) and 26 other tissues See more
    Orthologs
    NEW
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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)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (4) 
    • Targeted (1)  1 citation

    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 lipopolysaccharide immune receptor activity ISS
    Inferred from Sequence or Structural Similarity
    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
     
    involved_in detection of lipopolysaccharide ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in inflammatory 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 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 IEA
    Inferred from Electronic Annotation
    more info
     
    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
     
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    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)

    NEW Try the new Transcript table

    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)