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    Lysmd1 LysM, putative peptidoglycan-binding, domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 217779, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Lysmd1provided by MGI
    Official Full Name
    LysM, putative peptidoglycan-binding, domain containing 1provided by MGI
    Primary source
    MGI:MGI:1919409
    See related
    Ensembl:ENSMUSG00000053769 AllianceGenome:MGI:1919409
    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
    2610022K04Rik
    Summary
    Predicted to be located in nucleoplasm. Orthologous to human LYSMD1 (LysM domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 9.5), cerebellum adult (RPKM 8.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lysmd1 in Genome Data Viewer
    Location:
    3 F2.1; 3 40.74 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (95041399..95046836)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (95134088..95139525)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene vacuolar protein sorting 72 Neighboring gene tropomodulin 4 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:94937828-94938011 Neighboring gene sodium channel modifier 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:94945477-94945712 Neighboring gene microRNA 8099-1 Neighboring gene tumor necrosis factor, alpha-induced protein 8-like 2 Neighboring gene predicted gene 9169 Neighboring gene STARR-seq mESC enhancer starr_08369 Neighboring gene sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C

    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. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    2. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC38837

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    lysM and putative peptidoglycan-binding domain-containing protein 1

    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_153121.2 → NP_694761.1  lysM and putative peptidoglycan-binding domain-containing protein 1

      See identical proteins and their annotated locations for NP_694761.1

      Status: VALIDATED

      Source sequence(s)
      AC131769, BC024838
      Consensus CDS
      CCDS17602.1
      UniProtKB/Swiss-Prot
      Q9D0E3
      UniProtKB/TrEMBL
      A6H624
      Related
      ENSMUSP00000067811.6, ENSMUST00000066386.6
      Conserved Domains (2) summary
      cd00118
      Location:42 → 84
      LysM; Lysine Motif is a small domain involved in binding peptidoglycan
      COG1388
      Location:42 → 82
      LysM; LysM repeat [Cell wall/membrane/envelope biogenesis]

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      95041399..95046836
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D0E3.1 GenPept UniProtKB/Swiss-Prot:Q9D0E3

    Gene LinkOut

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

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