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

    Gene ID: 320343, updated on 27-Nov-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; reproductive system; and sensory organ. Orthologous to human LYPD6 (LY6/PLAUR domain containing 6). [provided by Alliance of Genome Resources, Nov 2024]
    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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    See Lypd6 in Genome Data Viewer
    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 (31) 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)
    • Endonuclease-mediated (3) 
    • Targeted (3)  1 citation

    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 IEA
    Inferred from Electronic Annotation
    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
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in dendrite 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 membrane raft IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in neuron projection ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perikaryon IEA
    Inferred from Electronic Annotation
    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
      Related
      ENSMUSP00000061578.8, ENSMUST00000053208.14

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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