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Aliases for LY6E Gene

Aliases for LY6E Gene

  • Lymphocyte Antigen 6 Family Member E 2 3 5
  • Lymphocyte Antigen 6 Complex, Locus E 2 3
  • Retinoic Acid-Induced Gene E Protein 3 4
  • Retinoic Acid Induced Gene E 2 3
  • Thymic Shared Antigen 1 3 4
  • Stem Cell Antigen 2 3 4
  • Ly-6E 3 4
  • RIG-E 3 4
  • SCA-2 3 4
  • TSA-1 3 4
  • RIGE 3 4
  • SCA2 3 4
  • Lymphocyte Antigen 6E 3
  • 9804 4
  • TSA1 4

External Ids for LY6E Gene

Previous GeneCards Identifiers for LY6E Gene

  • GC08P142338
  • GC08P144322
  • GC08P143874
  • GC08P144205
  • GC08P144171
  • GC08P139353
  • GC08P144099

Summaries for LY6E Gene

GeneCards Summary for LY6E Gene

LY6E (Lymphocyte Antigen 6 Family Member E) is a Protein Coding gene. Diseases associated with LY6E include Acute Promyelocytic Leukemia. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins.

UniProtKB/Swiss-Prot for LY6E Gene

  • Involved in T-cell development. Believed to act as a modulator of nicotinic acetylcholine receptors (nAChRs) activity. In vitro inhibits alpha-3:beta-4-containing nAChRs maximum response.

Gene Wiki entry for LY6E Gene

Additional gene information for LY6E Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LY6E Gene

Genomics for LY6E Gene

GeneHancer (GH) Regulatory Elements for LY6E Gene

Promoters and enhancers for LY6E Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08J143014 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 657 -0.1 -82 6.2 HDGF PKNOX1 CLOCK ARID4B NEUROD1 SIN3A DMAP1 ZBTB7B YY1 ZNF207 LY6E-DT LY6E EEF1D ZNF623 ZNF707 ENSG00000255050 GC08P142999
GH08J143012 Enhancer 1.3 FANTOM5 ENCODE dbSUPER 8.3 -4.3 -4336 2 ARID4B SIN3A DMAP1 NFXL1 THRB ZNF48 ZSCAN9 RAD21 RARA YY1 LY6E-DT ZNF623 ZNF707 TSNARE1 GLI4 JRK LY6E LY6K THEM6 GC08P142999
GH08J143275 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 2.3 +261.1 261092 6.5 HDGF PKNOX1 CLOCK SMAD1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 GLI4 MINCR ZNF623 GPAA1 PARP10 SHARPIN ENSG00000255050 ZNF707 ZFP41 EEF1D
GH08J142814 Enhancer 1.4 FANTOM5 Ensembl ENCODE 2.4 -202.3 -202284 2.8 HDGF PKNOX1 SIN3A YBX1 ZBTB7B ZNF121 GLIS2 ELK1 ZNF207 FOS LYNX1 ZNF623 JRK EEF1D LY6D ZNF696 TIGD5 ENSG00000255050 GPIHBP1 LY6E
GH08J142087 Enhancer 0.7 dbSUPER 4.7 -925.7 -925708 8.7 BCOR CTCF ZNF768 PTBP1 USF1 ZMYM3 NFXL1 ZNF205 ZFHX2 POLR2A LY6E ENSG00000261710 MIR4472-1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LY6E on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LY6E gene promoter:
  • TBP
  • LUN-1
  • c-Rel
  • NF-kappaB1
  • NF-kappaB
  • Lmo2
  • LCR-F1
  • IRF-1
  • En-1
  • C/EBPalpha

Genomic Locations for LY6E Gene

Genomic Locations for LY6E Gene
chr8:143,017,982-143,023,832
(GRCh38/hg38)
Size:
5,851 bases
Orientation:
Plus strand
chr8:144,099,399-144,105,249
(GRCh37/hg19)
Size:
5,851 bases
Orientation:
Plus strand

Genomic View for LY6E Gene

Genes around LY6E on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY6E Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY6E Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LY6E Gene

Proteins for LY6E Gene

  • Protein details for LY6E Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q16553-LY6E_HUMAN
    Recommended name:
    Lymphocyte antigen 6E
    Protein Accession:
    Q16553
    Secondary Accessions:
    • B2R4X5
    • D3DWJ2
    • Q0VDE5

    Protein attributes for LY6E Gene

    Size:
    131 amino acids
    Molecular mass:
    13507 Da
    Quaternary structure:
    • Interacts with CHRNA4.

neXtProt entry for LY6E Gene

Post-translational modifications for LY6E Gene

  • Glycosylation at posLast=9999
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LY6E Gene

Domains & Families for LY6E Gene

Gene Families for LY6E Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for LY6E Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LY6E Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LY6E: view

No data available for UniProtKB/Swiss-Prot for LY6E Gene

Function for LY6E Gene

Molecular function for LY6E Gene

UniProtKB/Swiss-Prot Function:
Involved in T-cell development. Believed to act as a modulator of nicotinic acetylcholine receptors (nAChRs) activity. In vitro inhibits alpha-3:beta-4-containing nAChRs maximum response.
UniProtKB/Swiss-Prot Induction:
By retinoic acid; in promyelocytic leukemia NB4 and in myeloblast HL-60 cell lines. Activated by IFN-alpha in monocytic cell line U-937 and in peripheral blood monocyte cells.
GENATLAS Biochemistry:
lymphocyte antigen 6 complex,member E,homolog with the murine LY-6 family members of small cysteine-rich proteins,involved in signal transduction

Gene Ontology (GO) - Molecular Function for LY6E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030550 acetylcholine receptor inhibitor activity IBA --
genes like me logo Genes that share ontologies with LY6E: view
genes like me logo Genes that share phenotypes with LY6E: view

Animal Models for LY6E Gene

MGI Knock Outs for LY6E:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LY6E Gene

Localization for LY6E Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY6E Gene

Cell membrane; Lipid-anchor, GPI-anchor.

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 LY6E gene
Compartment Confidence
plasma membrane 5
extracellular 5

Gene Ontology (GO) - Cellular Components for LY6E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 8650192
GO:0016020 membrane IEA,IBA --
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with LY6E: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LY6E Gene

Pathways & Interactions for LY6E Gene

genes like me logo Genes that share pathways with LY6E: view

Pathways by source for LY6E Gene

Gene Ontology (GO) - Biological Process for LY6E Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006501 C-terminal protein lipidation TAS --
GO:0007166 cell surface receptor signaling pathway TAS 8650192
genes like me logo Genes that share ontologies with LY6E: view

No data available for SIGNOR curated interactions for LY6E Gene

Drugs & Compounds for LY6E Gene

(1) Additional Compounds for LY6E Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LY6E: view

Transcripts for LY6E Gene

mRNA/cDNA for LY6E Gene

Unigene Clusters for LY6E Gene

Lymphocyte antigen 6 complex, locus E:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LY6E Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e · 7f · 7g · 7h · 7i · 7j · 7k · 7l · 7m ^ 8
SP1: - - -
SP2: - -
SP3: - - -
SP4: - -
SP5: - - - - - - - -
SP6: - - - -
SP7: - - - -
SP8: - - - -
SP9: - - - - -
SP10: - - - -
SP11: - - - - -
SP12: - - - - -
SP13: - - -
SP14: - - - - - - - - - - - - - - - -
SP15: - -
SP16: - - -

Relevant External Links for LY6E Gene

GeneLoc Exon Structure for
LY6E
ECgene alternative splicing isoforms for
LY6E

Expression for LY6E Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LY6E Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LY6E Gene

This gene is overexpressed in Testis (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LY6E Gene



Protein tissue co-expression partners for LY6E Gene

NURSA nuclear receptor signaling pathways regulating expression of LY6E Gene:

LY6E

SOURCE GeneReport for Unigene cluster for LY6E Gene:

Hs.521903

mRNA Expression by UniProt/SwissProt for LY6E Gene:

Q16553-LY6E_HUMAN
Tissue specificity: Widely expressed, predominantly in liver, kidney, ovary, spleen and peripheral blood Leukocytes.

Evidence on tissue expression from TISSUES for LY6E Gene

  • Nervous system(4.9)
  • Blood(4.5)
  • Skin(4.2)
  • Pancreas(4)
  • Lung(3.3)
  • Liver(2.9)
  • Kidney(2.8)
  • Intestine(2.3)
  • Bone marrow(2.2)
  • Muscle(2)
  • Spleen(2)
genes like me logo Genes that share expression patterns with LY6E: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LY6E Gene

Orthologs for LY6E Gene

This gene was present in the common ancestor of chordates.

Orthologs for LY6E Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LY6E 34 33
  • 98.98 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LY6E 34 33
  • 77.57 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LY6E 34 33
  • 73.33 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ly6e 33
  • 68.48 (n)
mouse
(Mus musculus)
Mammalia Ly6e 16 34 33
  • 68.18 (n)
chicken
(Gallus gallus)
Aves LY6E 34 33
  • 56.8 (n)
OneToMany
-- 34
  • 40 (a)
OneToMany
-- 34
  • 40 (a)
OneToMany
-- 34
  • 33 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 44 (a)
OneToMany
-- 34
  • 31 (a)
OneToMany
Species where no ortholog for LY6E was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • zebrafish (Danio rerio)

Evolution for LY6E Gene

ENSEMBL:
Gene Tree for LY6E (if available)
TreeFam:
Gene Tree for LY6E (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LY6E: view image

Paralogs for LY6E Gene

(1) SIMAP similar genes for LY6E Gene using alignment to 7 proteins:

  • LY6E_HUMAN
  • D3DWJ1_HUMAN
  • E5RGI6_HUMAN
  • E5RI33_HUMAN
  • E5RI58_HUMAN
  • E5RIQ1_HUMAN
  • E7EWF8_HUMAN
genes like me logo Genes that share paralogs with LY6E: view

No data available for Paralogs for LY6E Gene

Variants for LY6E Gene

Sequence variations from dbSNP and Humsavar for LY6E Gene

SNP ID Clin Chr 08 pos Variation AA Info Type
rs1000146671 -- 143,016,732(+) T/A upstream_transcript_variant
rs1001490623 -- 143,017,043(+) G/A upstream_transcript_variant
rs1002229761 -- 143,018,122(+) C/T upstream_transcript_variant
rs1002353141 -- 143,020,526(+) A/T intron_variant
rs1002899792 -- 143,017,956(+) C/A/G upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for LY6E Gene

Variant ID Type Subtype PubMed ID
nsv465991 CNV loss 19166990
nsv612717 CNV loss 21841781

Variation tolerance for LY6E Gene

Residual Variation Intolerance Score: 71.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.76; 66.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LY6E Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LY6E

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY6E Gene

Disorders for LY6E Gene

MalaCards: The human disease database

(1) MalaCards diseases for LY6E Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
acute promyelocytic leukemia
  • apl
- elite association - COSMIC cancer census association via MalaCards
Search LY6E in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LY6E

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LY6E: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LY6E Gene

Publications for LY6E Gene

  1. RIG-E, a human homolog of the murine Ly-6 family, is induced by retinoic acid during the differentiation of acute promyelocytic leukemia cell. (PMID: 8650192) Mao M … Chen Z (Proceedings of the National Academy of Sciences of the United States of America 1996) 2 3 4 22 58
  2. Identification through bioinformatics of cDNAs encoding human thymic shared Ag-1/stem cell Ag-2. A new member of the human Ly-6 family. (PMID: 8757598) Capone MC … Zlotnik A (Journal of immunology (Baltimore, Md. : 1950) 1996) 2 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Inhibition of the function of the FcgammaRIIB by a monoclonal antibody to thymic shared antigen-1, a Ly-6 family antigen. (PMID: 11576217) Ding L … Shevach EM (Immunology 2001) 3 22 58
  5. Characterization and mapping to human chromosome 8q24.3 of Ly-6-related gene 9804 encoding an apparent homologue of mouse TSA-1. (PMID: 9551972) Shan X … Palfree RG (Journal of immunology (Baltimore, Md. : 1950) 1998) 3 4 58

Products for LY6E Gene

Sources for LY6E Gene

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