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    LYSMD1 LysM domain containing 1 [ Homo sapiens (human) ]

    Gene ID: 388695, updated on 3-Apr-2024

    Summary

    Official Symbol
    LYSMD1provided by HGNC
    Official Full Name
    LysM domain containing 1provided by HGNC
    Primary source
    HGNC:HGNC:32070
    See related
    Ensembl:ENSG00000163155 AllianceGenome:HGNC:32070
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SB145
    Summary
    Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in spleen (RPKM 7.3), lymph node (RPKM 5.9) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    Location:
    1q21.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (151148496..151165902, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (150272196..150289846, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (151132224..151138378, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904418 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1707 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151104130-151104914 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1313 Neighboring gene semaphorin 6C Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1314 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1315 Neighboring gene TNFAIP8L2-SCNM1 readthrough Neighboring gene TNF alpha induced protein 8 like 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:151137860-151138565 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151138566-151139272 Neighboring gene sodium channel modifier 1 Neighboring gene tropomodulin 4 Neighboring gene vacuolar protein sorting 72 homolog Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1710

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC35223

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    lysM and putative peptidoglycan-binding domain-containing protein 1
    Names
    LysM, putative peptidoglycan-binding, domain containing 1
    RP11-68I18.5

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001136543.2NP_001130015.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region and uses an upstream start codon, compared to variant 1. Isoform b has a shorter N-terminus, compared to isoform a.
      Source sequence(s)
      AK298706, BX647911
      Consensus CDS
      CCDS44218.1
      UniProtKB/Swiss-Prot
      Q96S90
      Related
      ENSP00000404059.2, ENST00000440902.2
    2. NM_212551.5NP_997716.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform a

      See identical proteins and their annotated locations for NP_997716.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AL592424, BX647911, DA176882
      Consensus CDS
      CCDS986.1
      UniProtKB/Swiss-Prot
      B4DQA1, Q69YX9, Q96S90
      UniProtKB/TrEMBL
      B4DQI5
      Related
      ENSP00000357904.5, ENST00000368908.10
      Conserved Domains (1) summary
      cd00118
      Location:4284
      LysM; Lysine Motif is a small domain involved in binding peptidoglycan

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      151148496..151165902 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047420112.1XP_047276068.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B4DQA1, Q69YX9, Q96S90
    2. XM_047420105.1XP_047276061.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B4DQA1, Q69YX9, Q96S90
    3. XM_047420115.1XP_047276071.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B4DQA1, Q69YX9, Q96S90
    4. XM_047420118.1XP_047276074.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      150272196..150289846 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054336526.1XP_054192501.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      B4DQA1, Q69YX9, Q96S90
    2. XM_054336527.1XP_054192502.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X3

    3. XM_054336528.1XP_054192503.1  lysM and putative peptidoglycan-binding domain-containing protein 1 isoform X2

    RNA

    1. XR_008486045.1 RNA Sequence

    2. XR_008486044.1 RNA Sequence

    3. XR_008486046.1 RNA Sequence