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Lypd6 LY6/PLAUR domain containing 6 [ Mus musculus (house mouse) ]

Gene ID: 320343, updated on 5-Mar-2024

Summary

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Official Symbol
Lypd6provided by MGI
Official Full Name
LY6/PLAUR domain containing 6provided by MGI
Primary source
MGI:MGI:2443848
See related
Ensembl:ENSMUSG00000050447 AllianceGenome:MGI:2443848
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
E130115E03Rik
Summary
Enables acetylcholine receptor regulator activity. Predicted to be involved in positive regulation of canonical Wnt signaling pathway. Predicted to be located in membrane and neuron projection. Is expressed in several structures, including central nervous system; forelimb bud; gut; male reproductive gland or organ; and sensory organ. Orthologous to human LYPD6 (LY6/PLAUR domain containing 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in adrenal adult (RPKM 4.3), cortex adult (RPKM 3.4) and 17 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 C1.1; 2 28.84 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (49956413..50083576)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (50066400..50193569)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene kinesin family member 5C Neighboring gene predicted gene, 46738 Neighboring gene STARR-seq mESC enhancer starr_04444 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:49672814-49673015 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:49703331-49703484 Neighboring gene LY6/PLAUR domain containing 6B Neighboring gene STARR-seq mESC enhancer starr_04445 Neighboring gene STARR-positive B cell enhancer ABC_E5915 Neighboring gene STARR-positive B cell enhancer ABC_E9514 Neighboring gene STARR-seq mESC enhancer starr_04449 Neighboring gene methylmalonic aciduria (cobalamin deficiency) cblD type, with homocystinuria Neighboring gene predicted gene 13483 Neighboring gene predicted gene 48908

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Activation of Somatostatin Interneurons by Nicotinic Modulator Lypd6 Enhances Plasticity and Functional Recovery in the Adult Mouse Visual Cortex. Sadahiro M, et al. J Neurosci, 2020 Jul 1. PMID 32467358, Free PMC Article
  2. Loss of Lypd6 leads to reduced anxiety-like behaviour and enhanced responses to nicotine. Arvaniti M, et al. Prog Neuropsychopharmacol Biol Psychiatry, 2018 Mar 2. PMID 29195920
  3. Modulation of the Ca2+ conductance of nicotinic acetylcholine receptors by Lypd6. Darvas M, et al. Eur Neuropsychopharmacol, 2009 Sep. PMID 19403274, Free PMC Article
  4. A TBR1-K228E Mutation Induces Tbr1 Upregulation, Altered Cortical Distribution of Interneurons, Increased Inhibitory Synaptic Transmission, and Autistic-Like Behavioral Deficits in Mice. Yook C, et al. Front Mol Neurosci, 2019. PMID 31680851, Free PMC Article
  5. Lypd6 enhances Wnt/β-catenin signaling by promoting Lrp6 phosphorylation in raft plasma membrane domains. Özhan G, et al. Dev Cell, 2013 Aug 26. PMID 23987510

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Activation of Somatostatin Interneurons by Nicotinic Modulator Lypd6 Enhances Plasticity and Functional Recovery in the Adult Mouse Visual Cortex.
    Title: Activation of Somatostatin Interneurons by Nicotinic Modulator Lypd6 Enhances Plasticity and Functional Recovery in the Adult Mouse Visual Cortex.
  2. Study employ the marble burying (MB) and elevated zero maze (EZM) tests in Lypd6 knock-out (KO) and wild-type (WT) mice and find that loss of Lypd6 leads to decreased digging behaviour in the MB test and increased time spent in the open area in the EZM test; demonstrate that acute nicotine administration reduces digging in the MB test in both KO and WT mice and further accentuates the inherent genotype difference.
    Title: Loss of Lypd6 leads to reduced anxiety-like behaviour and enhanced responses to nicotine.
  3. Lypd6 appears to control Lrp6 activation specifically in membrane rafts, which is essential for downstream signaling.
    Title: Lypd6 enhances Wnt/β-catenin signaling by promoting Lrp6 phosphorylation in raft plasma membrane domains.
  4. Lypd6 seems to constitute a novel modulator of nAChRs that affects receptor function by selectively increasing Ca2+-influx through ion channels
    Title: Modulation of the Ca2+ conductance of nicotinic acetylcholine receptors by Lypd6.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (3) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables acetylcholine receptor inhibitor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables acetylcholine receptor inhibitor activity ISO
Inferred from Sequence Orthology
more info
  
enables acetylcholine receptor regulator activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Process Evidence Code Pubs
involved_in positive regulation of canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cell projection IEA
Inferred from Electronic Annotation
more info
  
is_active_in cellular_component ND
No biological Data available
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
located_in neuron projection ISO
Inferred from Sequence Orthology
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
  
located_in synapse IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
ly6/PLAUR domain-containing protein 6

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_001419680.1 → NP_001406609.1  ly6/PLAUR domain-containing protein 6 precursor

    Status: VALIDATED

    Source sequence(s)
    AL806528, AL845157
    UniProtKB/Swiss-Prot
    Q8BPP5

  2. NM_177139.6 → NP_796113.1  ly6/PLAUR domain-containing protein 6 precursor

    See identical proteins and their annotated locations for NP_796113.1

    Status: VALIDATED

    Source sequence(s)
    AL806528, AL845157
    Consensus CDS
    CCDS16026.1
    UniProtKB/Swiss-Prot
    Q8BPP5
    Related
    ENSMUSP00000108332.4, ENSMUST00000112712.10
    Conserved Domains (1) summary
    pfam16975
    Location:41 → 145
    UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    49956413..50083576
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011239116.4 → XP_011237418.1  ly6/PLAUR domain-containing protein 6 isoform X1

    See identical proteins and their annotated locations for XP_011237418.1

    UniProtKB/Swiss-Prot
    Q8BPP5
    Conserved Domains (1) summary
    pfam16975
    Location:41 → 145
    UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BPP5.1 GenPept UniProtKB/Swiss-Prot:Q8BPP5

Gene LinkOut

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