Aliases for LY86 Gene

Aliases for LY86 Gene

  • Lymphocyte Antigen 86 2 3 4 5
  • Protein MD-1 3 4
  • DJ80N2.1 2 3
  • Ly-86 3 4
  • MD-1 2 3
  • MD1 3 4
  • MD-1, RP105-Associated 3
  • MMD-1 3
  • LY86 5

External Ids for LY86 Gene

Previous GeneCards Identifiers for LY86 Gene

  • GC06P006574
  • GC06P006533

Summaries for LY86 Gene

GeneCards Summary for LY86 Gene

LY86 (Lymphocyte Antigen 86) is a Protein Coding gene. Diseases associated with LY86 include Muscular Dystrophy, Duchenne Type and Common Bile Duct Neoplasm. Among its related pathways are Activated TLR4 signalling and Innate Immune System.

UniProtKB/Swiss-Prot Summary for LY86 Gene

  • May cooperate with CD180 and TLR4 to mediate the innate immune response to bacterial lipopolysaccharide (LPS) and cytokine production. Important for efficient CD180 cell surface expression (By similarity).

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LY86 Gene

Genomics for LY86 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LY86 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LY86 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LY86

Top Transcription factor binding sites by QIAGEN in the LY86 gene promoter:
  • C/EBPalpha
  • Lhx3a
  • LHX3b
  • Meis-1
  • Meis-1a
  • Pbx1a
  • POU2F1
  • POU2F1a
  • S8
  • TBP

Genomic Locations for LY86 Gene

Genomic Locations for LY86 Gene
chr6:6,588,108-6,654,983
(GRCh38/hg38)
Size:
66,876 bases
Orientation:
Plus strand
chr6:6,588,341-6,655,216
(GRCh37/hg19)
Size:
66,876 bases
Orientation:
Plus strand

Genomic View for LY86 Gene

Genes around LY86 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY86 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY86 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LY86 Gene

Proteins for LY86 Gene

  • Protein details for LY86 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95711-LY86_HUMAN
    Recommended name:
    Lymphocyte antigen 86
    Protein Accession:
    O95711
    Secondary Accessions:
    • Q9UQC4

    Protein attributes for LY86 Gene

    Size:
    162 amino acids
    Molecular mass:
    17906 Da
    Quaternary structure:
    • M-shaped tetramer of two CD180-LY86 heterodimers.
    SequenceCaution:
    • Sequence=BAA76410.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for LY86 Gene

neXtProt entry for LY86 Gene

Post-translational modifications for LY86 Gene

  • Glycosylation at Asn96 and Asn156
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for LY86 Gene

ENSEMBL proteins:
REFSEQ proteins:

Protein Products

  • Signalway Proteins for LY86
  • Abcam proteins for LY86

No data available for DME Specific Peptides for LY86 Gene

Domains & Families for LY86 Gene

Gene Families for LY86 Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for LY86 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LY86 Gene

GenScript: Design optimal peptide antigens:
  • MMD-1 (A3KLP2_HUMAN)
  • Protein MD-1 (LY86_HUMAN)
genes like me logo Genes that share domains with LY86: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LY86 Gene

Function for LY86 Gene

Molecular function for LY86 Gene

UniProtKB/Swiss-Prot Function:
May cooperate with CD180 and TLR4 to mediate the innate immune response to bacterial lipopolysaccharide (LPS) and cytokine production. Important for efficient CD180 cell surface expression (By similarity).
UniProtKB/Swiss-Prot Induction:
In monocytes, down-regulated by the cell-wall fraction of Mycobacterium bovis (BCG-CWS).

Phenotypes From GWAS Catalog for LY86 Gene

Gene Ontology (GO) - Molecular Function for LY86 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21857663
genes like me logo Genes that share ontologies with LY86: view
genes like me logo Genes that share phenotypes with LY86: view

Animal Models for LY86 Gene

MGI Knock Outs for LY86:
  • Ly86 Ly86<tm1Kmiy>

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LY86

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for LY86 Gene

Localization for LY86 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY86 Gene

Secreted, extracellular space. Note=Associated with CD180 at the cell surface.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LY86 gene
Compartment Confidence
extracellular 5
plasma membrane 2
nucleus 2
cytosol 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for LY86 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IEA --
genes like me logo Genes that share ontologies with LY86: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LY86 Gene

Pathways & Interactions for LY86 Gene

genes like me logo Genes that share pathways with LY86: view

Pathways by source for LY86 Gene

Gene Ontology (GO) - Biological Process for LY86 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002376 immune system process IEA --
GO:0006954 inflammatory response IEA --
GO:0006955 immune response IEA --
GO:0031666 positive regulation of lipopolysaccharide-mediated signaling pathway IGI 10880523
GO:0045087 innate immune response IEA --
genes like me logo Genes that share ontologies with LY86: view

No data available for SIGNOR curated interactions for LY86 Gene

Drugs & Compounds for LY86 Gene

No Compound Related Data Available

Transcripts for LY86 Gene

mRNA/cDNA for LY86 Gene

1 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LY86

Alternative Splicing Database (ASD) splice patterns (SP) for LY86 Gene

No ASD Table

Relevant External Links for LY86 Gene

GeneLoc Exon Structure for
LY86

Expression for LY86 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LY86 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LY86 Gene

This gene is overexpressed in Whole Blood (x10.0) and Spleen (x7.3).

Protein differential expression in normal tissues from HIPED for LY86 Gene

This gene is overexpressed in Plasma (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LY86 Gene



Protein tissue co-expression partners for LY86 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LY86

SOURCE GeneReport for Unigene cluster for LY86 Gene:

Hs.653138

mRNA Expression by UniProt/SwissProt for LY86 Gene:

O95711-LY86_HUMAN
Tissue specificity: Highly expressed in B-cells, monocytes and tonsil.

Evidence on tissue expression from TISSUES for LY86 Gene

  • Blood(4.6)
  • Spleen(4.5)
  • Nervous system(3.1)
  • Lymph node(2.7)
  • Skin(2.7)
  • Intestine(2.5)
  • Muscle(2.2)
  • Lung(2.1)
  • Kidney(2)
  • Bone marrow(2)
  • Heart(2)
genes like me logo Genes that share expression patterns with LY86: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LY86 Gene

Orthologs for LY86 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LY86 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LY86 30 31
  • 96.06 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LY86 30 31
  • 81.67 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Ly86 30
  • 77.98 (n)
Mouse
(Mus musculus)
Mammalia Ly86 30 17 31
  • 77.57 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LY86 30 31
  • 77.36 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia LY86 31
  • 58 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia LY86 31
  • 52 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LY86 30 31
  • 53.38 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia LY86 31
  • 41 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii LOC101886351 30
  • 45.09 (n)
LY86 31
  • 30 (a)
OneToOne
Species where no ortholog for LY86 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for LY86 Gene

ENSEMBL:
Gene Tree for LY86 (if available)
TreeFam:
Gene Tree for LY86 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LY86: view image

Paralogs for LY86 Gene

(1) SIMAP similar genes for LY86 Gene using alignment to 1 proteins:

  • LY86_HUMAN
genes like me logo Genes that share paralogs with LY86: view

No data available for Paralogs for LY86 Gene

Variants for LY86 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LY86 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
717853 Benign: not provided 6,626,346(+) T/C MISSENSE_VARIANT
782469 Benign: not provided 6,588,764(+) C/T SYNONYMOUS_VARIANT
rs1802323 - p.Met160Val
rs5743649 - p.Ser93Pro
rs5743651 - p.Tyr121Cys

Additional dbSNP identifiers (rs#s) for LY86 Gene

Structural Variations from Database of Genomic Variants (DGV) for LY86 Gene

Variant ID Type Subtype PubMed ID
esv2071499 CNV deletion 18987734
esv2156368 CNV deletion 18987734
esv2565676 CNV deletion 19546169
esv2731534 CNV deletion 23290073
esv2731535 CNV deletion 23290073
esv3607998 CNV gain 21293372
nsv1025425 CNV loss 25217958
nsv1131935 CNV deletion 24896259
nsv1133014 OTHER inversion 24896259
nsv1151332 OTHER inversion 26484159

Variation tolerance for LY86 Gene

Residual Variation Intolerance Score: 79.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.27; 25.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LY86 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LY86

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY86 Gene

Disorders for LY86 Gene

MalaCards: The human disease database

(12) MalaCards diseases for LY86 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
muscular dystrophy, duchenne type
  • dmd
common bile duct neoplasm
  • neoplasm of common bile duct
interstitial emphysema
neurotic disorder
  • depressive neurosis
parametritis
  • pelvic cellulitis
- elite association - COSMIC cancer census association via MalaCards
Search LY86 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LY86

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with LY86: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LY86 Gene

Publications for LY86 Gene

  1. Association of single nucleotide polymorphisms of MD-1 gene with pediatric and adult asthma in the Taiwanese population. (PMID: 19255686) Lee SW … Wu LS (Journal of microbiology, immunology, and infection = Wei mian yu gan ran za zhi 2008) 3 23 41
  2. Human MD-1 homologue is a BCG-regulated gene product in monocytes: its identification by differential display. (PMID: 10079183) Begum NA … Toyoshima K (Biochemical and biophysical research communications 1999) 3 4 23
  3. RP105 is associated with MD-1 and transmits an activation signal in human B cells. (PMID: 9763566) Miura Y … Kimoto M (Blood 1998) 2 3 4
  4. Crystal structures of mouse and human RP105/MD-1 complexes reveal unique dimer organization of the toll-like receptor family. (PMID: 21959264) Ohto U … Shimizu T (Journal of molecular biology 2011) 3 4
  5. Novel loci for major depression identified by genome-wide association study of Sequenced Treatment Alternatives to Relieve Depression and meta-analysis of three studies. (PMID: 20038947) Shyn SI … Hamilton SP (Molecular psychiatry 2011) 3 41

Products for LY86 Gene

  • Signalway Proteins for LY86

Sources for LY86 Gene