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    LY6E lymphocyte antigen 6 family member E [ Homo sapiens (human) ]

    Gene ID: 4061, updated on 5-Mar-2024

    Summary

    Official Symbol
    LY6Eprovided by HGNC
    Official Full Name
    lymphocyte antigen 6 family member Eprovided by HGNC
    Primary source
    HGNC:HGNC:6727
    See related
    Ensembl:ENSG00000160932 MIM:601384; AllianceGenome:HGNC:6727
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RIGE; SCA2; RIG-E; SCA-2; TSA-1
    Summary
    This gene belongs to the human Ly6 gene family and encodes a glycosylphosphatidyl-inositol (GPI)-anchored cell surface protein. The protein plays an important role in T cell physiology, oncogenesis and immunological regulation. The protein is also involved in modulation of viral infection by coronaviruses, SARS-CoV, MERS-CoV and SARS-CoV-2. [provided by RefSeq, Aug 2021]
    Annotation information
    Note: This gene has been reviewed for its involvement in coronavirus biology, and is involved in immune response or antiviral activity.
    Expression
    Ubiquitous expression in liver (RPKM 110.6), spleen (RPKM 88.2) and 24 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See LY6E in Genome Data Viewer
    Location:
    8q24.3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (143018529..143022409)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (144162226..144166106)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (144099946..144103826)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375794 Neighboring gene Sharpr-MPRA regulatory region 5092 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144033761-144034332 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:144063636-144063766 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144070153-144070654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144073720-144074227 Neighboring gene LY6E divergent transcript Neighboring gene CDC42 pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144089139-144089952 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144089953-144090765 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144104683-144105446 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144105447-144106208 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144106209-144106972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144107735-144108497 Neighboring gene uncharacterized LOC124902034 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:144116775-144117420 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144120298-144120849 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144122871-144123446 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144124023-144124598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144126601-144127213 Neighboring gene LY6S antisense RNA 1 Neighboring gene lymphocyte antigen 6 family member S

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables acetylcholine receptor inhibitor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    lymphocyte antigen 6E
    Names
    ly-6E
    lymphocyte antigen 6 complex, locus E
    retinoic acid induced gene E
    retinoic acid-induced gene E protein
    stem cell antigen 2
    thymic shared antigen 1

    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_001127213.2NP_001120685.1  lymphocyte antigen 6E precursor

      See identical proteins and their annotated locations for NP_001120685.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC083982
      Consensus CDS
      CCDS6394.1
      UniProtKB/Swiss-Prot
      B2R4X5, D3DWJ2, Q0VDE5, Q16553
      UniProtKB/TrEMBL
      Q53G57
      Related
      ENSP00000414307.2, ENST00000429120.6
      Conserved Domains (1) summary
      smart00134
      Location:21105
      LU; Ly-6 antigen / uPA receptor -like domain
    2. NM_002346.3NP_002337.1  lymphocyte antigen 6E precursor

      See identical proteins and their annotated locations for NP_002337.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC083982
      Consensus CDS
      CCDS6394.1
      UniProtKB/Swiss-Prot
      B2R4X5, D3DWJ2, Q0VDE5, Q16553
      UniProtKB/TrEMBL
      Q53G57
      Related
      ENSP00000292494.6, ENST00000292494.11
      Conserved Domains (1) summary
      smart00134
      Location:21105
      LU; Ly-6 antigen / uPA receptor -like domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      143018529..143022409
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_187573.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      8817..12697
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      144162226..144166106
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)