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LYNX1 Ly6/neurotoxin 1 [ Homo sapiens (human) ]

Gene ID: 66004, updated on 5-Aug-2018

Summary

Official Symbol
LYNX1provided by HGNC
Official Full Name
Ly6/neurotoxin 1provided by HGNC
Primary source
HGNC:HGNC:29604
See related
Ensembl:ENSG00000180155 MIM:606110; Vega:OTTHUMG00000164694
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
Summary
This gene encodes a GPI-anchored, cell membrane bound member of the Ly6/uPAR (LU) superfamily of proteins containing the unique three-finger LU domain. This protein interacts with nicotinic acetylcholine receptors (nAChRs), and is thought to function as a modulator of nAChR activity to prevent excessive excitation. Alternatively spliced transcript variants have been found for this gene. Read-through transcription between this gene and the neighboring downstream gene (SLURP2) generates naturally-occurring transcripts (LYNX1-SLURP2) that encode a fusion protein comprised of sequence sharing identity with each individual gene product. [provided by RefSeq, Sep 2017]
Expression
Broad expression in brain (RPKM 28.8), heart (RPKM 21.3) and 18 other tissues See more
Orthologs

Genomic context

See LYNX1 in Genome Data Viewer
Location:
8q24.3
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 8 NC_000008.11 (142771197..142777848, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (143845756..143859640, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene LY6/PLAUR domain containing 2 Neighboring gene LYNX1-SLURP2 readthrough Neighboring gene secreted LY6/PLAUR domain containing 2 Neighboring gene lymphocyte antigen 6 family member D Neighboring gene glycosylphosphatidylinositol anchored molecule like

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough LYNX1-SLURP2

Readthrough gene: LYNX1-SLURP2, Included gene: SLURP2

Homology

Clone Names

  • MGC40364

Gene Ontology Provided by GOA

Function Evidence Code Pubs
acetylcholine receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
acetylcholine receptor inhibitor activity IEA
Inferred from Electronic Annotation
more info
 
acetylcholine receptor regulator activity IDA
Inferred from Direct Assay
more info
PubMed 
ion channel inhibitor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
negative regulation of signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
regulation of neurotransmitter receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
synaptic transmission, cholinergic IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
anchored component of membrane IEA
Inferred from Electronic Annotation
more info
 
dendrite IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
ly-6/neurotoxin-like protein 1
Names
Ly-6 neurotoxin-like protein 1
endogenous prototoxin LYNX1
testicular tissue protein Li 112

NCBI Reference Sequences (RefSeq)

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_001356370.1NP_001343299.1  ly-6/neurotoxin-like protein 1 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' terminal exon compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC083841, AF321824, BF994257, BU683767
    Consensus CDS
    CCDS6389.1
    Conserved Domains (1) summary
    cd00117
    Location:2193
    LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...
  2. NM_177457.4NP_803252.1  ly-6/neurotoxin-like protein 1 precursor

    See identical proteins and their annotated locations for NP_803252.1

    Status: REVIEWED

    Description
    Transcript Variant:This variant (3) contains an alternate 5' terminal exon compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC083841, AF321824, BU683767
    Consensus CDS
    CCDS6389.1
    UniProtKB/Swiss-Prot
    P0DP58
    Related
    ENSP00000478390.1, OTTHUMP00000276104, ENST00000621401.4, OTTHUMT00000379787
    Conserved Domains (1) summary
    cd00117
    Location:2193
    LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...
  3. NM_177476.3NP_803429.1  ly-6/neurotoxin-like protein 1 precursor

    See identical proteins and their annotated locations for NP_803429.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC083841, BG701653, BM172253, BU683767
    Consensus CDS
    CCDS6389.1
    UniProtKB/Swiss-Prot
    P0DP58
    Related
    ENSP00000478402.1, OTTHUMP00000276105, ENST00000620006.4, OTTHUMT00000379888
    Conserved Domains (1) summary
    cd00117
    Location:2193
    LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...
  4. NM_177477.3NP_803430.1  ly-6/neurotoxin-like protein 1 precursor

    See identical proteins and their annotated locations for NP_803430.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC083841, BU683767, DB501423, HY110957
    Consensus CDS
    CCDS6389.1
    UniProtKB/Swiss-Prot
    P0DP58
    Related
    ENSP00000477648.1, ENST00000614491.1
    Conserved Domains (1) summary
    cd00117
    Location:2193
    LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p12 Primary Assembly

    Range
    142771197..142777848 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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