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

Gene ID: 217779, updated on 5-Mar-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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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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