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LY75 lymphocyte antigen 75 [ Homo sapiens (human) ]

Gene ID: 4065, updated on 16-Apr-2024

Summary

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Official Symbol
LY75provided by HGNC
Official Full Name
lymphocyte antigen 75provided by HGNC
Primary source
HGNC:HGNC:6729
See related
Ensembl:ENSG00000054219 MIM:604524; AllianceGenome:HGNC:6729
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
CD205; LY-75; CLEC13B; DEC-205; GP200-MR6
Summary
Predicted to enable signaling receptor activity. Predicted to be involved in immune response and inflammatory response. Located in extracellular exosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in lymph node (RPKM 17.2), appendix (RPKM 13.2) and 17 other tissues See more
Orthologs
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Genomic context

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Location:
2q24.2
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (159803355..159904756, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (160260710..160363008, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (160659866..160761267, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:160568592-160569258 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:160594100-160595092 Neighboring gene membrane associated ring-CH-type finger 7 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_53909 Neighboring gene LY75-CD302 readthrough Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_53950 Neighboring gene uncharacterized LOC124906083 Neighboring gene CD302 molecule Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16688 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16689 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16690 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16691 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16692 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16695 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16693 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:160761228-160761469 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16696 Neighboring gene phospholipase A2 receptor 1 Neighboring gene uncharacterized LOC105373717 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:160911725-160912406 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16697 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr2:160982362-160982960 Neighboring gene integrin subunit beta 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:161037195-161037767 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:161037768-161038339

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. LY75 Ablation Mediates Mesenchymal-Epithelial Transition (MET) in Epithelial Ovarian Cancer (EOC) Cells Associated with DNA Methylation Alterations and Suppression of the Wnt/β-Catenin Pathway. Mehdi S, et al. Int J Mol Sci, 2020 Mar 7. PMID 32156068, Free PMC Article
  2. Lymphocyte Antigen 75 Polymorphisms Are Associated with Disease Susceptibility and Phenotype in Japanese Patients with Inflammatory Bowel Disease. Hirayama A, et al. Dis Markers, 2016. PMID 27965521, Free PMC Article
  3. Keratin mediates the recognition of apoptotic and necrotic cells through dendritic cell receptor DEC205/CD205. Cao L, et al. Proc Natl Acad Sci U S A, 2016 Nov 22. PMID 27821726, Free PMC Article
  4. The mannose receptor LY75 (DEC205/CD205) modulates cellular phenotype and metastatic potential of ovarian cancer cells. Faddaoui A, et al. Oncotarget, 2016 Mar 22. PMID 26871602, Free PMC Article
  5. pH-Dependent recognition of apoptotic and necrotic cells by the human dendritic cell receptor DEC205. Cao L, et al. Proc Natl Acad Sci U S A, 2015 Jun 9. PMID 26039988, Free PMC Article

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Interaction of human dendritic cell receptor DEC205/CD205 with keratins.
    Title: Interaction of human dendritic cell receptor DEC205/CD205 with keratins.
  2. LY75 Suppression in Mesenchymal Epithelial Ovarian Cancer Cells Generates a Stable Hybrid EOC Cellular Phenotype, Associated with Enhanced Tumor Initiation, Spreading and Resistance to Treatment in Orthotopic Xenograft Mouse Model.
    Title: LY75 Suppression in Mesenchymal Epithelial Ovarian Cancer Cells Generates a Stable Hybrid EOC Cellular Phenotype, Associated with Enhanced Tumor Initiation, Spreading and Resistance to Treatment in Orthotopic Xenograft Mouse Model.
  3. LY75 Ablation Mediates Mesenchymal-Epithelial Transition (MET) in Epithelial Ovarian Cancer (EOC) Cells Associated with DNA Methylation Alterations and Suppression of the Wnt/beta-Catenin Pathway.
    Title: LY75 Ablation Mediates Mesenchymal-Epithelial Transition (MET) in Epithelial Ovarian Cancer (EOC) Cells Associated with DNA Methylation Alterations and Suppression of the Wnt/β-Catenin Pathway.
  4. combined panel had the highest sensitivity and specificity at 96.3% and 100%, which was significantly or marginally higher than those of EZH2, C-KIT, and CD205 alone
    Title: An immunohistochemical panel consisting of EZH2, C-KIT, and CD205 is useful for distinguishing thymic squamous cell carcinoma from type B3 thymoma.
  5. keratins are the cellular ligands of human DEC205.
    Title: Keratin mediates the recognition of apoptotic and necrotic cells through dendritic cell receptor DEC205/CD205.
  6. High LY75 expression is associated with metastasis of ovarian cancer.
    Title: The mannose receptor LY75 (DEC205/CD205) modulates cellular phenotype and metastatic potential of ovarian cancer cells.
  7. IL-6, DEC205, and CD86 can be predictive biomarkers for the respiratory and immune effects of ambient PM2.5.
    Title: Effects of Components of PM(2.5) Collected in Japan on the Respiratory and Immune Systems.
  8. LY75 Gene Polymorphisms are Associated with Inflammatory Bowel Disease.
    Title: Lymphocyte Antigen 75 Polymorphisms Are Associated with Disease Susceptibility and Phenotype in Japanese Patients with Inflammatory Bowel Disease.
  9. results suggest that DEC205 is an immune receptor that recognizes apoptotic and necrotic cells specifically through a pH-dependent mechanism
    Title: pH-Dependent recognition of apoptotic and necrotic cells by the human dendritic cell receptor DEC205.
  10. Variants in LY75 were associated with a Crohn's disease phenotype involving erythema nodosum.
    Title: Identification of risk loci for Crohn's disease phenotypes using a genome-wide association study.
Submit: New GeneRIF Correction See all GeneRIFs (24)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Risk HLA-DQA1 and PLA(2)R1 alleles in idiopathic membranous nephropathy.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of LY75 PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with LY75; predicted interaction to be relevant to viral egress at plasma membrane/extracellular matrix PubMed
Tat tat Microarray analysis indicates HIV-1 Tat-induced upregulation of lymphocyte antigen 75 (LY75) in primary human brain microvascular endothelial cells PubMed
capsid gag When introduced the HIV p24 gag protein into a mAb that targets DEC-205/CD205, an endocytic receptor of DCs, low doses of alphaDEC-gag, but not control Ig-gag, stimulates proliferation and IFN-gamma production by CD8+ T cells from HIV-infected donors PubMed

Go to the HIV-1, Human Interaction Database

General gene information

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Markers

Readthrough LY75-CD302

Readthrough gene: LY75-CD302, Included gene: CD302

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
enables signaling receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in endocytosis IEA
Inferred from Electronic Annotation
more info
  
involved_in immune response TAS
Traceable Author Statement
more info
 PubMed 
involved_in inflammatory response TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular exosome HDA PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
lymphocyte antigen 75
Names
C-type lectin domain family 13 member B

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_002349.4 → NP_002340.2  lymphocyte antigen 75 precursor

    See identical proteins and their annotated locations for NP_002340.2

    Status: VALIDATED

    Source sequence(s)
    AA279177, AB208915, AF011333, AU099700, DB135177, DB146492, DB150194
    Consensus CDS
    CCDS2211.1
    UniProtKB/Swiss-Prot
    O60449, O75913, Q53R46, Q53TF5, Q7Z575, Q7Z577
    Related
    ENSP00000263636.4, ENST00000263636.5
    Conserved Domains (4) summary
    smart00059
    Location:162 → 209
    FN2; Fibronectin type 2 domain
    cd00037
    Location:1115 → 1222
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    smart00034
    Location:361 → 486
    CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
    smart00458
    Location:38 → 112
    RICIN; Ricin-type beta-trefoil

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    159803355..159904756 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    160260710..160363008 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O60449.3 GenPept UniProtKB/Swiss-Prot:O60449

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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