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

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: mouse all
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Genomic context

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_000008.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

LY6E protein facilitates adeno-associated virus crossing in a biomimetic chip model of the human blood-brain barrier.
Title: LY6E protein facilitates adeno-associated virus crossing in a biomimetic chip model of the human blood-brain barrier.
alpha5-nAChR associated with Ly6E modulates cell migration via TGF-beta1/Smad signaling in non-small cell lung cancer.
Title: α5-nAChR associated with Ly6E modulates cell migration via TGF-β1/Smad signaling in non-small cell lung cancer.
Multidimension Analysis of the Prognostic Value, Immune Regulatory Function, and ceRNA Network of LY6E in Individuals with Colorectal Cancer.
Title: Multidimension Analysis of the Prognostic Value, Immune Regulatory Function, and ceRNA Network of LY6E in Individuals with Colorectal Cancer.
A Phase I Study of DLYE5953A, an Anti-LY6E Antibody Covalently Linked to Monomethyl Auristatin E, in Patients with Refractory Solid Tumors.
Title: A Phase I Study of DLYE5953A, an Anti-LY6E Antibody Covalently Linked to Monomethyl Auristatin E, in Patients with Refractory Solid Tumors.
Protein LY6E as a candidate for mediating transport of adeno-associated virus across the human blood-brain barrier.
Title: Protein LY6E as a candidate for mediating transport of adeno-associated virus across the human blood-brain barrier.
LY6E downregulates the cell surface receptor CD4.
Title: CD4-Dependent Modulation of HIV-1 Entry by LY6E.
LY6E belongs to a growing class of interferon-inducible factors that broadly enhance viral infectivity in an interferon-independent manner.
Title: LY6E mediates an evolutionarily conserved enhancement of virus infection by targeting a late entry step.
LY6E knockdown by targeted-siRNA inhibited gastric cancer cell survival and proliferation and induced G1-S cell cycle arrest and apoptosis in gastric cancer cells
Title: Overexpression of Lymphocyte Antigen 6 Complex, Locus E in Gastric Cancer Promotes Cancer Cell Growth and Metastasis.
High LY6E expression is associated with breast cancer.
Title: LY6E: a conductor of malignant tumor growth through modulation of the PTEN/PI3K/Akt/HIF-1 axis.
LY6E overexpression is associated with Breast Cancer Progression, Immune Escape, and Drug Resistance.
Title: Ly6E/K Signaling to TGFβ Promotes Breast Cancer Progression, Immune Escape, and Drug Resistance.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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

Process	Evidence Code	Pubs
involved_in cell surface receptor signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of viral entry into host cell	IDA Inferred from Direct Assay 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

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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)

NM_001127213.2 → NP_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:21 → 105

LU; Ly-6 antigen / uPA receptor -like domain
NM_002346.3 → NP_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:21 → 105

LU; Ly-6 antigen / uPA receptor -like domain