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    Lypd6b Ly6/Plaur domain containing 6B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362133, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Lypd6bprovided by RGD
    Official Full Name
    Ly6/Plaur domain containing 6Bprovided by RGD
    Primary source
    RGD:1562767
    See related
    EnsemblRapid:ENSRNOG00000004614 AllianceGenome:RGD:1562767
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562767
    Summary
    Predicted to enable acetylcholine receptor regulator activity. Predicted to be located in plasma membrane. Orthologous to human LYPD6B (LY6/PLAUR domain containing 6B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 12.8), Adrenal (RPKM 10.3) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lypd6b in Genome Data Viewer
    Location:
    3q12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (54608320..54769974)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (34199101..34360770)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (35271785..35437296)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene enhancer of polycomb homolog 2 Neighboring gene kinesin family member 5C Neighboring gene uncharacterized LOC102556679 Neighboring gene NS5A transactivated protein 4, pseudogene 3 Neighboring gene Ly6/Plaur domain containing 6 Neighboring gene transfer RNA valine (anticodon AAC) 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The prototoxin LYPD6B modulates heteromeric α3β4-containing nicotinic acetylcholine receptors, but not α7 homomers. Ochoa V, et al. FASEB J, 2016 Mar. PMID 26586467, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables acetylcholine receptor regulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables acetylcholine receptor regulator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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
    ly6/PLAUR domain-containing protein 6B

    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_001395757.1 → NP_001382686.1  ly6/PLAUR domain-containing protein 6B precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6JEZ8, D3ZUF1
      Conserved Domains (1) summary
      pfam16975
      Location:40 → 144
      UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      54608320..54769974
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105382.2 → XP_038961310.1  ly6/PLAUR domain-containing protein 6B isoform X1

      UniProtKB/TrEMBL
      A6JEZ8, D3ZUF1
      Conserved Domains (1) summary
      pfam16975
      Location:40 → 144
      UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

    2. XM_063284108.1 → XP_063140178.1  ly6/PLAUR domain-containing protein 6B isoform X1

    3. XM_039105390.2 → XP_038961318.1  ly6/PLAUR domain-containing protein 6B isoform X1

      UniProtKB/TrEMBL
      A6JEZ8, D3ZUF1
      Conserved Domains (1) summary
      pfam16975
      Location:40 → 144
      UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

    4. XM_039105384.2 → XP_038961312.1  ly6/PLAUR domain-containing protein 6B isoform X1

      UniProtKB/TrEMBL
      A6JEZ8, D3ZUF1
      Conserved Domains (1) summary
      pfam16975
      Location:40 → 144
      UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

    5. XM_039105387.2 → XP_038961315.1  ly6/PLAUR domain-containing protein 6B isoform X1

      UniProtKB/TrEMBL
      A6JEZ8, D3ZUF1
      Related
      ENSRNOP00000063299.2, ENSRNOT00000065989.4
      Conserved Domains (1) summary
      pfam16975
      Location:40 → 144
      UPAR_LY6_2; Ly6/PLAUR domain-containing protein 6, Lypd6

    6. XM_063284110.1 → XP_063140180.1  ly6/PLAUR domain-containing protein 6B isoform X1

    7. XM_063284109.1 → XP_063140179.1  ly6/PLAUR domain-containing protein 6B isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001134580.1: Suppressed sequence

      Description
      NM_001134580.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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