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

Gene ID: 4061, updated on 22-Aug-2021

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
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
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Genomic context

See LY6E in Genome Data Viewer
Location:
8q24.3
Exon count:
4
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 8 NC_000008.11 (143018529..143022409)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (144099946..144103826)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 5092 Neighboring gene LY6E divergent transcript Neighboring gene cell division cycle 42 pseudogene 3 Neighboring gene uncharacterized LOC105375795 Neighboring gene long intergenic non-protein coding RNA 2904 Neighboring gene adenylate kinase 3 pseudogene 2

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables acetylcholine receptor binding IEA
Inferred from Electronic Annotation
more info
 
enables acetylcholine receptor inhibitor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in acetylcholine receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in adrenal gland development IEA
Inferred from Electronic Annotation
more info
 
involved_in cell surface receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
involved_in epinephrine secretion IEA
Inferred from Electronic Annotation
more info
 
involved_in in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of viral entry into host cell IDA
Inferred from Direct Assay
more info
PubMed 
involved_in norepinephrine metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in organ growth IEA
Inferred from Electronic Annotation
more info
 
involved_in ventricular cardiac muscle tissue morphogenesis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in anchored component of membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular region TAS
Traceable Author Statement
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in synapse 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)

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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_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
    Q16553
    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
    Q16553
    Related
    ENSP00000292494.6, ENST00000292494.11
    Conserved Domains (1) summary
    smart00134
    Location:21105
    LU; Ly-6 antigen / uPA receptor -like domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p13 Primary Assembly

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

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NT_187573.1 Reference GRCh38.p13 ALT_REF_LOCI_1

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