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Ly6e lymphocyte antigen 6 family member E [ Mus musculus (house mouse) ]

Gene ID: 17069, updated on 2-Nov-2024

Summary

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Official Symbol
Ly6eprovided by MGI
Official Full Name
lymphocyte antigen 6 family member Eprovided by MGI
Primary source
MGI:MGI:106651
See related
Ensembl:ENSMUSG00000022587 AllianceGenome:MGI:106651
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
Ly67; Tsa1; RIG-E; Sca-2; TSA-1
Summary
Enables acetylcholine receptor binding activity and acetylcholine receptor inhibitor activity. Involved in negative regulation of viral entry into host cell. Acts upstream of or within several processes, including acetylcholine receptor signaling pathway; epinephrine secretion; and ventricular cardiac muscle tissue morphogenesis. Predicted to be located in side of membrane and synapse. Predicted to be active in plasma membrane. Is expressed in several structures, including alimentary system; brain; extraembryonic component; genitourinary system; and immune system. Orthologous to human LY6E (lymphocyte antigen 6 family member E). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in thymus adult (RPKM 431.0), spleen adult (RPKM 360.8) and 23 other tissues See more
Orthologs
human all
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Genomic context

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See Ly6e in Genome Data Viewer
Location:
15 D3; 15 34.29 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (74826874..74831753)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (74955025..74959904)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene 6610 Neighboring gene STARR-positive B cell enhancer ABC_E1173 Neighboring gene predicted gene, 39556 Neighboring gene STARR-seq mESC enhancer starr_39002 Neighboring gene STARR-positive B cell enhancer ABC_E7383 Neighboring gene predicted gene 28068 Neighboring gene lymphocyte antigen 6 family member I Neighboring gene predicted gene 8000

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks. Delgado-Chaves FM, et al. Genes (Basel), 2020 Jul 21. PMID 32708319, Free PMC Article
  2. Stem cell antigen 2 expression in adult and developing mice. Antica M, et al. Immunol Lett, 1997 Jan. PMID 9093881
  3. Functional characterization of hepatoma-specific stem cell antigen-2. He J, et al. Mol Carcinog, 2004 Jun. PMID 15170814
  4. Mouse stem cell antigen Sca-2 is a member of the Ly-6 family of cell surface proteins. Classon BJ, et al. Proc Natl Acad Sci U S A, 1994 Jun 7. PMID 8202484, Free PMC Article
  5. Identification through bioinformatics of cDNAs encoding human thymic shared Ag-1/stem cell Ag-2. A new member of the human Ly-6 family. Capone MC, et al. J Immunol, 1996 Aug 1. PMID 8757598

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LY6E impairs coronavirus fusion and confers immune control of viral disease.
    Title: LY6E impairs coronavirus fusion and confers immune control of viral disease.
  2. Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks.
    Title: Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks.
  3. demonstrate that LY6E is essential for the normal fusion of syncytiotrophoblast layer I, and for the proper morphogenesis of both fetal and maternal vasculatures within the placenta
    Title: Deletion of the Syncytin A receptor Ly6e impairs syncytiotrophoblast fusion and placental morphogenesis causing embryonic lethality in mice.
  4. Knocking down Ly6e greatly reduced SynA-induced cell fusion, thus suggesting that Ly6e is the sole receptor for SynA in vivo.
    Title: A Cell Fusion-Based Screening Method Identifies Glycosylphosphatidylinositol-Anchored Protein Ly6e as the Receptor for Mouse Endogenous Retroviral Envelope Syncytin-A.
  5. Sca-2 -- a signal transducer situated at the nexus of surface molecules regulating death receptor-mediated apoptosis in hepatoma
    Title: Functional characterization of hepatoma-specific stem cell antigen-2.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Targeted (3)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables acetylcholine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables acetylcholine receptor binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables acetylcholine receptor inhibitor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables acetylcholine receptor inhibitor activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in acetylcholine receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within acetylcholine receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within adrenal gland development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within epinephrine secretion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of viral entry into host cell IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of viral entry into host cell ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within norepinephrine metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within organ growth IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within ventricular cardiac muscle tissue morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
  
located_in synapse IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
lymphocyte antigen 6E
Names
lymphocyte antigen 6 complex, locus E
stem cell antigen 2
thymic shared antigen 1

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_001164036.2 → NP_001157508.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000139482.3, ENSMUST00000190810.8
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  2. NM_001164037.2 → NP_001157509.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000141145.3, ENSMUST00000185861.8
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  3. NM_001164038.2 → NP_001157510.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637, U04268
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000140145.3, ENSMUST00000188866.7
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  4. NM_001164039.2 → NP_001157511.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  5. NM_001164040.2 → NP_001157512.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000139471.3, ENSMUST00000187606.8
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  6. NM_001374138.1 → NP_001361067.1  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000140553.3, ENSMUST00000187284.8
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like domain

  7. NM_008529.4 → NP_032555.2  lymphocyte antigen 6E precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR, compared to variant 1. Variants 1 to 7 all encode the same protein.
    Source sequence(s)
    AC124637
    Consensus CDS
    CCDS27538.1
    UniProtKB/TrEMBL
    A0A087WNT2, A0A087WPY4
    Related
    ENSMUSP00000139549.3, ENSMUST00000191436.8
    Conserved Domains (1) summary
    smart00134
    Location:21 → 105
    LU; Ly-6 antigen / uPA receptor -like 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

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    74826874..74831753
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036159201.1 → XP_036015094.1  lymphocyte antigen 6E isoform X1

    UniProtKB/Swiss-Prot
    Q61128, Q64253, Q99JA5
    Related
    ENSMUSP00000141059.3, ENSMUST00000188042.3
    Conserved Domains (1) summary
    smart00134
    Location:27 → 111
    LU; Ly-6 antigen / uPA receptor -like domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q64253.3 GenPept UniProtKB/Swiss-Prot:Q64253

Gene LinkOut

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