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    lysmd2 LysM, putative peptidoglycan-binding, domain containing 2 [ Danio rerio (zebrafish) ]

    Gene ID: 445113, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lysmd2provided by ZNC
    Official Full Name
    LysM, putative peptidoglycan-binding, domain containing 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040801-250
    See related
    Ensembl:ENSDARG00000091771 AllianceGenome:ZFIN:ZDB-GENE-040801-250
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:91941
    Summary
    Is expressed in central nervous system; hypophysis; notochord; and pancreas primordium. Orthologous to human LYSMD2 (LysM domain containing 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lysmd2 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (39416504..39430956)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (39435496..39449948)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene LEO1 homolog, Paf1/RNA polymerase II complex component Neighboring gene tropomodulin 2 Neighboring gene secretogranin III Neighboring gene acyl-CoA dehydrogenase long chain

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. LysMD3 is a type II membrane protein without an in vivo role in the response to a range of pathogens. Yokoyama CC, et al. J Biol Chem, 2018 Apr 20. PMID 29496999, Free PMC Article
    2. The embryonic expression patterns of zebrafish genes encoding LysM-domains. Laroche FJ, et al. Gene Expr Patterns, 2013 Oct. PMID 23567754
    3. Evolutionary divergence of the vertebrate TNFAIP8 gene family: Applying the spotted gar orthology bridge to understand ohnolog loss in teleosts. Sullivan C, et al. PLoS One, 2017. PMID 28658311, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    lysM and putative peptidoglycan-binding domain-containing protein 2

    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_001003507.1 → NP_001003507.1  lysM and putative peptidoglycan-binding domain-containing protein 2

      See identical proteins and their annotated locations for NP_001003507.1

      Status: PROVISIONAL

      Source sequence(s)
      BC077165
      UniProtKB/Swiss-Prot
      A3KQQ8, Q6DEF4
      Related
      ENSDARP00000111919.2, ENSDART00000127955.4
      Conserved Domains (2) summary
      cd00118
      Location:65 → 109
      LysM; Lysine Motif is a small domain involved in binding peptidoglycan
      COG1388
      Location:28 → 117
      LysM; LysM repeat [Cell wall/membrane/envelope biogenesis]

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007129.7 Reference GRCz11 Primary Assembly

      Range
      39416504..39430956
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395044.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      58150..72602
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6DEF4.1 GenPept UniProtKB/Swiss-Prot:Q6DEF4

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