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

Gene ID: 445113, updated on 4-Jan-2025

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, Jan 2025]
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

Gene LinkOut

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