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

Gene ID: 75099, updated on 5-Mar-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. Predicted to be integral component of membrane. Is expressed in cranial ganglion and dorsal root ganglion. Orthologous to human LYSMD4 (LysM domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
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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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
  • 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. 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. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, 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

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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