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LY6S lymphocyte antigen 6 family member S [ Homo sapiens (human) ]

Gene ID: 105375795, updated on 4-Jan-2025

Summary

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Official Symbol
LY6Sprovided by HGNC
Official Full Name
lymphocyte antigen 6 family member Sprovided by HGNC
Primary source
HGNC:HGNC:54397
See related
Ensembl:ENSG00000291309 AllianceGenome:HGNC:54397
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
LY6A
Summary
Predicted to act upstream of or within response to bacterium. Predicted to be located in external side of plasma membrane. [provided by Alliance of Genome Resources, Jan 2025]
Expression
Broad expression in spleen (RPKM 1.7), thyroid (RPKM 1.5) and 22 other tissues See more
Orthologs
all
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Genomic context

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See LY6S in Genome Data Viewer
Location:
8q24.3
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (143040839..143076471, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (144184770..144189740, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (144122256..144127127, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes 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 lymphocyte antigen 6 family member E 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 AK3 pseudogene 2 Neighboring gene ribosomal protein S26 pseudogene 36 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144175908-144176436 Neighboring gene lymphocyte antigen 6 family member L Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144197383-144198380 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:144198381-144199378 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144208311-144208870 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:144221912-144222650 Neighboring gene uncharacterized LOC124902035 Neighboring gene lymphocyte antigen 6 family member H

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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Related articles in PubMed

  1. A systematic survey of LU domain-containing proteins reveals a novel human gene, LY6A, which encodes the candidate ortholog of mouse Ly-6A/Sca-1 and is aberrantly expressed in pituitary tumors. Liu D, et al. Front Med, 2023 Jun. PMID 36928550
  2. LY6S, a New IFN-Inducible Human Member of the Ly6a Subfamily Expressed by Spleen Cells and Associated with Inflammation and Viral Resistance. Shmerling M, et al. Immunohorizons, 2022 Apr 19. PMID 35440514, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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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)

General gene information

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Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables acetylcholine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables acetylcholine receptor inhibitor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in acetylcholine receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  

General protein information

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Preferred Names
lymphocyte antigen 6S
Names
Lymphocyte antigen 6S

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_001406477.1 → NP_001393406.1  lymphocyte antigen 6S precursor

    Status: VALIDATED

    Source sequence(s)
    AC083982
    UniProtKB/Swiss-Prot
    P0DTL4
    Related
    ENSP00000520471.1, ENST00000715551.1

  2. NM_001406478.1 → NP_001393407.1  lymphocyte antigen 6S precursor

    Status: VALIDATED

    Source sequence(s)
    AC083982
    UniProtKB/Swiss-Prot
    P0DTL4
    Related
    ENSP00000516627.1, ENST00000706920.2

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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
    143040839..143076471 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054328425.1 → XP_054184400.1  lymphocyte antigen 6S isoform X2

  2. XM_054328424.1 → XP_054184399.1  lymphocyte antigen 6S isoform X1

RNA

  1. XR_008485573.1 RNA Sequence

  2. XR_008485574.1 RNA Sequence

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187573.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    31127..35998 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    144184770..144189740 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0DTL4.1 GenPept UniProtKB/Swiss-Prot:P0DTL4

Gene LinkOut

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