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    LAYN layilin [ Homo sapiens (human) ]

    Gene ID: 143903, updated on 10-Dec-2024

    Summary

    Official Symbol
    LAYNprovided by HGNC
    Official Full Name
    layilinprovided by HGNC
    Primary source
    HGNC:HGNC:29471
    See related
    Ensembl:ENSG00000204381 MIM:618843; AllianceGenome:HGNC:29471
    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
    Summary
    Enables hyaluronic acid binding activity. Located in focal adhesion. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in ovary (RPKM 7.0), thyroid (RPKM 6.2) and 20 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LAYN in Genome Data Viewer
    Location:
    11q23.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (111540280..111561745)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (111550425..111571891)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (111411005..111432470)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene BTG anti-proliferation factor 4 Neighboring gene MIR34B and MIR34C host gene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:111410548-111411227 Neighboring gene microRNA 34c Neighboring gene HOATZ cilia and flagella associated protein Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:111424938-111426137 Neighboring gene Sharpr-MPRA regulatory region 3081 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:111435687-111436190 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3898 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5517 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3899 Neighboring gene salt inducible kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:111563346-111563859 Neighboring gene RN7SK pseudogene 273 Neighboring gene protein phosphatase 2 scaffold subunit Abeta Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:111594031-111594566 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:111603371-111604187 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:111605768-111606404 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:111636139-111637042

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Clone Names

    • FLJ30977, FLJ31092

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables hyaluronic acid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables hyaluronic acid binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in focal adhesion HDA PubMed 
    NOT located_in focal adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in ruffle ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    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_001258390.2NP_001245319.1  layilin isoform 1 precursor

      See identical proteins and their annotated locations for NP_001245319.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK055539, AK296231, AY358554, DA608521
      Consensus CDS
      CCDS58178.1
      UniProtKB/Swiss-Prot
      A6NJB0, B4DJU0, Q6UX15, Q8TAY8, Q96NC5, Q96NF3
      UniProtKB/TrEMBL
      B4DP26
      Related
      ENSP00000364765.3, ENST00000375615.7
      Conserved Domains (1) summary
      cd03595
      Location:38186
      CLECT_chondrolectin_like; C-type lectin-like domain (CTLD) of the type found in the human type-1A transmembrane proteins chondrolectin (CHODL) and layilin
    2. NM_001258391.2NP_001245320.1  layilin isoform 3

      See identical proteins and their annotated locations for NP_001245320.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two internal exons and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AK055539, AK296231, DA608521, DB006476
      Consensus CDS
      CCDS58179.1
      UniProtKB/Swiss-Prot
      Q6UX15
      Related
      ENSP00000392942.2, ENST00000436913.6
    3. NM_001318799.1NP_001305728.1  layilin isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (4) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AK055539, AP002008, DC398135
      UniProtKB/TrEMBL
      B4DDS5
      Conserved Domains (1) summary
      cl02432
      Location:134
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    4. NM_178834.5NP_849156.1  layilin isoform 2 precursor

      See identical proteins and their annotated locations for NP_849156.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AK055539, AK296231, DA608521
      Consensus CDS
      CCDS31676.1
      UniProtKB/TrEMBL
      B4DP26
      Related
      ENSP00000364764.2, ENST00000375614.7
      Conserved Domains (1) summary
      cd03595
      Location:30178
      CLECT_chondrolectin_like; C-type lectin-like domain (CTLD) of the type found in the human type-1A transmembrane proteins chondrolectin (CHODL) and layilin

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      111540280..111561745
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006718769.5XP_006718832.1  layilin isoform X1

      See identical proteins and their annotated locations for XP_006718832.1

      UniProtKB/TrEMBL
      B4DDS5
      Conserved Domains (1) summary
      cl02432
      Location:134
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      111550425..111571891
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054367767.1XP_054223742.1  layilin isoform X1

      UniProtKB/TrEMBL
      B4DDS5