LY6D lymphocyte antigen 6 family member D [Homo sapiens (human)] - Gene

Summary

Official Symbol: LY6Dprovided by HGNC
Official Full Name: lymphocyte antigen 6 family member Dprovided by HGNC
Primary source: HGNC:HGNC:13348
See related: Ensembl:ENSG00000167656 MIM:606204; AllianceGenome:HGNC:13348
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: E48; Ly-6D
Summary: Predicted to be involved in lymphocyte differentiation. Predicted to act upstream of or within response to stilbenoid. Predicted to be located in extracellular region and plasma membrane. Predicted to be active in cell surface. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in esophagus (RPKM 212.7) and skin (RPKM 206.5) See more
Orthologs: mouse all
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Genomic context

Location:: 8q24.3

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	8	NC_000008.11 (142784882..142786539, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	8	NC_060932.1 (143928320..143929977, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	8	NC_000008.10 (143866298..143867955, complement)

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?

Investigation of Candidate Genes and Pathways in Basal/TNBC Patients by Integrated Analysis.
Title: Investigation of Candidate Genes and Pathways in Basal/TNBC Patients by Integrated Analysis.
LY6D-induced macropinocytosis as a survival mechanism of senescent cells.
Title: LY6D-induced macropinocytosis as a survival mechanism of senescent cells.
LY6D may serve as a prognostic maker for advanced prostate cancer.
Title: Single-Cell Analysis Identifies LY6D as a Marker Linking Castration-Resistant Prostate Luminal Cells to Prostate Progenitors and Cancer.
Study results suggest that OLFM4, LY6D and S100A7 immunoreactivity are associated with an aggressive phenotype of estrogen receptor (ER)-positive breast carcinoma, and these are potent markers for distant metastasis of ER-positive breast cancer patients.
Title: OLFM4, LY6D and S100A7 as potent markers for distant metastasis in estrogen receptor-positive breast carcinoma.
LY6D is the most highly up-regulated in HTR-8/SVneo-SP cells and it has potential to maintain cell proliferation of the cells. it is important for the maintenance of the cells.
Title: Up-regulation of lymphocyte antigen 6 complex expression in side-population cells derived from a human trophoblast cell line HTR-8/SVneo.
E48 expression was strong and diffuse in non-neoplastic squamous epithelium, and decreased with progression to laryngeal squamous cell carcinoma. Poorly differentiated tumors had fewer E48-positive cells than well- to moderately- differentiated cases.
Title: Expression of Ep-CAM, but not of E48, associates with nodal involvement in advanced squamous cell carcinomas of the larynx.
induction of LY6D expression is triggered through a pathway regulated by ATM, CHK2 and p53
Title: Expression of LY6D is induced at the surface of MCF10A cells by X-ray irradiation.

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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)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of lymphocyte antigen 6 complex, locus D (LY6D) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells	PubMed

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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 protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in lymphocyte differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to stilbenoid	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular region	TAS Traceable Author Statement more info
located_in membrane	TAS Traceable Author Statement more info	PubMed
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 6D

Names: e48 antigen; lymphocyte antigen 6 complex, locus D

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.