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    Lysmd4 LysM, putative peptidoglycan-binding, domain containing 4 [ Mus musculus (house mouse) ]

    Gene ID: 75099, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Lysmd4provided by MGI
    Official Full Name
    LysM, putative peptidoglycan-binding, domain containing 4provided by MGI
    Primary source
    MGI:MGI:1922349
    See related
    Ensembl:ENSMUSG00000043831 AllianceGenome:MGI:1922349
    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
    4930506D23Rik
    Summary
    Predicted to be located in membrane. Is expressed in cranial ganglion and dorsal root ganglion. Orthologous to human LYSMD4 (LysM domain containing 4). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 8.6), whole brain E14.5 (RPKM 7.5) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lysmd4 in Genome Data Viewer
    Location:
    7 C; 7 36.71 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (66872292..66878216)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (67222544..67228468)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 17 Neighboring gene Y box protein 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_19094 Neighboring gene RIKEN cDNA 1700112J16 gene Neighboring gene STARR-positive B cell enhancer ABC_E4933 Neighboring gene STARR-seq mESC enhancer starr_19095 Neighboring gene myocyte enhancer factor 2A Neighboring gene STARR-seq mESC enhancer starr_19096 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74557695-74557804 Neighboring gene STARR-positive B cell enhancer ABC_E3725 Neighboring gene predicted gene, 51462

    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 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. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article
    2. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    3. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    4. 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
    5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (15) 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

    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
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    lysM and putative peptidoglycan-binding domain-containing protein 4

    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_001191051.1 → NP_001177980.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform A

      See identical proteins and their annotated locations for NP_001177980.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (A) encodes isoform A. Both variants A and B encode the same protein.
      Source sequence(s)
      AC158751, AK033681, AK143241
      Consensus CDS
      CCDS21350.1
      UniProtKB/Swiss-Prot
      Q6PFQ8, Q8CC84
      Related
      ENSMUSP00000146557.2, ENSMUST00000208998.2
      Conserved Domains (1) summary
      smart00257
      Location:77 → 115
      LysM; Lysin motif

    2. NM_001357962.1 → NP_001344891.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform C

      Status: VALIDATED

      Description
      Transcript Variant: This variant (C) encodes isoform C. Variants C, D and E encode the same protein.
      Source sequence(s)
      AC158751, CD774408
      Consensus CDS
      CCDS90251.1
      UniProtKB/TrEMBL
      A0A140LI06, A0A140LIK8
      Related
      ENSMUSP00000146624.2, ENSMUST00000208698.2

    3. NM_001357963.1 → NP_001344892.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform C

      Status: VALIDATED

      Description
      Transcript Variant: This variant (D) encodes isoform C. Variants C, D and E encode the same protein.
      Source sequence(s)
      AC158751
      Consensus CDS
      CCDS90251.1
      UniProtKB/TrEMBL
      A0A140LI06, A0A140LIK8
      Related
      ENSMUSP00000147179.2, ENSMUST00000207823.2

    4. NM_001357964.1 → NP_001344893.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform C

      Status: VALIDATED

      Description
      Transcript Variant: This variant (E) encodes isoform C. Variants C, D and E encode the same protein.
      Source sequence(s)
      AC158751
      Consensus CDS
      CCDS90251.1
      UniProtKB/TrEMBL
      A0A140LI06, A0A140LIK8
      Related
      ENSMUSP00000136151.3, ENSMUST00000179106.3

    5. NM_175215.4 → NP_780424.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform A

      See identical proteins and their annotated locations for NP_780424.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (B) differs in the 5' UTR compared to variant A. Both variants A and B encode the same protein.
      Source sequence(s)
      AC158751, AK033681
      Consensus CDS
      CCDS21350.1
      UniProtKB/Swiss-Prot
      Q6PFQ8, Q8CC84
      Related
      ENSMUSP00000053341.6, ENSMUST00000058771.13
      Conserved Domains (1) summary
      smart00257
      Location:77 → 115
      LysM; Lysin motif

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      66872292..66878216
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030243046.1 → XP_030098906.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform X3

      UniProtKB/TrEMBL
      A0A140LHI0, A0A140LIK8
      Related
      ENSMUSP00000146421.2, ENSMUST00000208213.2

    2. XM_030243045.2 → XP_030098905.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform X2

    3. XM_006541236.4 → XP_006541299.1  lysM and putative peptidoglycan-binding domain-containing protein 4 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CC84.1 GenPept UniProtKB/Swiss-Prot:Q8CC84

    Gene LinkOut

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

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