Aliases for LY75 Gene

Aliases for LY75 Gene

  • Lymphocyte Antigen 75 2 3 4 5
  • C-Type Lectin Domain Family 13 Member B 3 4
  • CLEC13B 3 4
  • DEC-205 3 4
  • CD205 3 4
  • CD205 Antigen 4
  • GP200-MR6 3
  • Gp200-MR6 4
  • LY-75 3
  • Ly-75 4

External Ids for LY75 Gene

Previous GeneCards Identifiers for LY75 Gene

  • GC02M158591
  • GC02M159188
  • GC02M160623
  • GC02M160862
  • GC02M160485
  • GC02M160368
  • GC02M152542
  • GC02M160659

Summaries for LY75 Gene

GeneCards Summary for LY75 Gene

LY75 (Lymphocyte Antigen 75) is a Protein Coding gene. Diseases associated with LY75 include Pneumonic Plague and Adenoiditis. Among its related pathways are Dendritic Cells Developmental Lineage Pathway. Gene Ontology (GO) annotations related to this gene include carbohydrate binding. An important paralog of this gene is LY75-CD302.

UniProtKB/Swiss-Prot Summary for LY75 Gene

  • Acts as an endocytic receptor to direct captured antigens from the extracellular space to a specialized antigen-processing compartment (By similarity). Causes reduced proliferation of B-lymphocytes.

Gene Wiki entry for LY75 Gene

Additional gene information for LY75 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LY75 Gene

Genomics for LY75 Gene

GeneHancer (GH) Regulatory Elements for LY75 Gene

Promoters and enhancers for LY75 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
GH02J159902 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 551.7 -0.1 -96 4.9 SIN3A NCOR1 EP300 ZIC2 POLR2A KDM6A TCF7 RELA ZBTB25 RCOR1 LY75 LY75-CD302 lnc-LY75-1 lnc-MARCH7-2 BTF3L4P2 HSALNG0019938
GH02J159840 Promoter 0.4 EPDnew 500.2 +63.9 63910 0.1 ZBTB48 LY75 CD302 lnc-CD302-2 ENSG00000227055 LY75-CD302 lnc-LY75-1
GH02J160061 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas 21.5 -158.4 -158388 4.7 PHF8 TEAD4 SAP30 HDAC2 MXI1 POLR2A GATA3 CEBPB TCF12 SIN3A PLA2R1 LY75 ENSG00000226266 piR-50443-222 HSALNG0019943 LOC105373717
GH02J159890 Enhancer 1.2 FANTOM5 Ensembl ENCODE 29.1 +11.6 11555 6.8 ZBTB40 USF1 SP1 JUND EP300 RELA TRIM22 POLR2A NFYB RBM25 LY75 LY75-CD302 lnc-LY75-1 ENSG00000227055 lnc-CD302-2
GH02J159945 Enhancer 0.7 Ensembl ENCODE 42.3 -42.1 -42089 2.5 TCF12 FOS POLR2A FOSL2 JUND NR3C1 STAT3 JUN TCF7L2 FOXA1 piR-38562-041 lnc-PLA2R1-1-002 piR-36756-044 LY75 LY75-CD302 NONHSAG029648.2 PLA2R1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LY75 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LY75

Top Transcription factor binding sites by QIAGEN in the LY75 gene promoter:
  • CUTL1
  • IRF-2
  • Nkx2-5
  • POU2F1
  • POU2F1a
  • POU2F1b
  • POU2F1c
  • TGIF

Genomic Locations for LY75 Gene

Genomic Locations for LY75 Gene
chr2:159,803,355-159,904,756
(GRCh38/hg38)
Size:
101,402 bases
Orientation:
Minus strand
chr2:160,628,362-160,761,267
(GRCh37/hg19)
Size:
132,906 bases
Orientation:
Minus strand

Genomic View for LY75 Gene

Genes around LY75 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY75 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY75 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LY75 Gene

Proteins for LY75 Gene

  • Protein details for LY75 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60449-LY75_HUMAN
    Recommended name:
    Lymphocyte antigen 75
    Protein Accession:
    O60449
    Secondary Accessions:
    • O75913
    • Q53R46
    • Q53TF5
    • Q7Z575
    • Q7Z577

    Protein attributes for LY75 Gene

    Size:
    1722 amino acids
    Molecular mass:
    198311 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Isoform 2 and isoform 3 are produced in HRS cells by a transcriptional control mechanism which cotranscribe an mRNA containing LY75 and CD302 prior to generating the intergenically spliced mRNA to produce LY75/CD302 fusion proteins.
    • [Isoform 2]: Produced by intergenic splicing of LY75 and CD302.
    • [Isoform 3]: Produced by intergenic splicing of LY75 and CD302.

    Alternative splice isoforms for LY75 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LY75 Gene

Post-translational modifications for LY75 Gene

  • N-glycosylated.
  • Glycosylation at Asn135, Asn345, Asn377, Asn529, Asn843, Asn865, Asn934, Asn1076, Asn1103, Asn1225, Asn1320, Asn1392, Asn1593, Asn1626, and Asn1642
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for LY75 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Boster Bio Antibodies for LY75

No data available for DME Specific Peptides for LY75 Gene

Domains & Families for LY75 Gene

Gene Families for LY75 Gene

Protein Domains for LY75 Gene

Blocks:
  • Type II fibronectin collagen-binding domain
  • Ricin B lectin domain
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LY75 Gene

GenScript: Design optimal peptide antigens:
  • gp200-MR6 (LY75_HUMAN)
genes like me logo Genes that share domains with LY75: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LY75 Gene

Function for LY75 Gene

Molecular function for LY75 Gene

UniProtKB/Swiss-Prot Function:
Acts as an endocytic receptor to direct captured antigens from the extracellular space to a specialized antigen-processing compartment (By similarity). Causes reduced proliferation of B-lymphocytes.
GENATLAS Biochemistry:
lymphocyte antigen 75,putative antigen-uptake receptor on dendritic cells

Phenotypes From GWAS Catalog for LY75 Gene

Gene Ontology (GO) - Molecular Function for LY75 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004888 transmembrane signaling receptor activity IBA 21873635
GO:0030246 carbohydrate binding IEA --
GO:0038023 signaling receptor activity TAS 9553150
genes like me logo Genes that share ontologies with LY75: view
genes like me logo Genes that share phenotypes with LY75: view

Animal Models for LY75 Gene

MGI Knock Outs for LY75:

Animal Model Products

  • Taconic Biosciences Mouse Models for LY75

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LY75

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LY75 Gene

Localization for LY75 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY75 Gene

Membrane; Single-pass type I membrane protein.

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 LY75 gene
Compartment Confidence
plasma membrane 4
extracellular 2
cytoskeleton 2
nucleus 2
endoplasmic reticulum 2
endosome 2
cytosol 2
lysosome 2
mitochondrion 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LY75 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane TAS 9553150
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0070062 extracellular exosome HDA 20458337
genes like me logo Genes that share ontologies with LY75: view

Pathways & Interactions for LY75 Gene

PathCards logo

SuperPathways for LY75 Gene

genes like me logo Genes that share pathways with LY75: view

Pathways by source for LY75 Gene

1 R&D Systems pathway for LY75 Gene

Gene Ontology (GO) - Biological Process for LY75 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006897 endocytosis IEA --
GO:0006954 inflammatory response TAS 9553150
GO:0006955 immune response TAS 9553150
genes like me logo Genes that share ontologies with LY75: view

No data available for SIGNOR curated interactions for LY75 Gene

Drugs & Compounds for LY75 Gene

(1) Drugs for LY75 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with LY75: view

Transcripts for LY75 Gene

mRNA/cDNA for LY75 Gene

1 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
4 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 LY75

Alternative Splicing Database (ASD) splice patterns (SP) for LY75 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12
SP1:
SP2: - - -
SP3:
SP4:
SP5:
SP6: -

Relevant External Links for LY75 Gene

GeneLoc Exon Structure for
LY75

Expression for LY75 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LY75 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LY75 Gene

This gene is overexpressed in Lymph node (23.5), Peripheral blood mononuclear cells (13.6), and Blymphocyte (8.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LY75 Gene



Protein tissue co-expression partners for LY75 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LY75

SOURCE GeneReport for Unigene cluster for LY75 Gene:

Hs.153563

mRNA Expression by UniProt/SwissProt for LY75 Gene:

O60449-LY75_HUMAN
Tissue specificity: Expressed in spleen, thymus, colon and peripheral blood lymphocytes. Detected in myeloid and B-lymphoid cell lines. Isoform 2 and isoform 3 are expressed in malignant Hodgkin lymphoma cells called Hodgkin and Reed-Sternberg (HRS) cells.

Evidence on tissue expression from TISSUES for LY75 Gene

  • Spleen(3)
  • Lymph node(2.9)
  • Blood(2.4)
genes like me logo Genes that share expression patterns with LY75: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LY75 Gene

Orthologs for LY75 Gene

This gene was present in the common ancestor of animals.

Orthologs for LY75 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LY75 30
  • 99.36 (n)
-- 31
  • 99 (a)
OneToMany
dog
(Canis familiaris)
Mammalia LY75 30
  • 87.61 (n)
-- 31
  • 80 (a)
OneToMany
cow
(Bos Taurus)
Mammalia LY75 31 30
  • 86.28 (n)
OneToMany
mouse
(Mus musculus)
Mammalia Ly75 17 31 30
  • 80.84 (n)
rat
(Rattus norvegicus)
Mammalia Ly75 30
  • 80.36 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 67 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 57 (a)
OneToMany
chicken
(Gallus gallus)
Aves LY75 31 30
  • 62.85 (n)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 56 (a)
ManyToMany
-- 31
  • 35 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ly75 30
  • 55.82 (n)
zebrafish
(Danio rerio)
Actinopterygii ly75 31 30
  • 49.41 (n)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea clec-49 31
  • 26 (a)
ManyToMany
clec-50 31
  • 26 (a)
ManyToMany
clec-48 31
  • 26 (a)
ManyToMany
clec-52 31
  • 23 (a)
ManyToMany
clec-53 31
  • 23 (a)
ManyToMany
clec-51 31
  • 22 (a)
ManyToMany
clec-148 31
  • 21 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 23 (a)
OneToMany
Species where no ortholog for LY75 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)
  • 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 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)
  • wheat (Triticum aestivum)

Evolution for LY75 Gene

ENSEMBL:
Gene Tree for LY75 (if available)
TreeFam:
Gene Tree for LY75 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LY75: view image

Paralogs for LY75 Gene

Paralogs for LY75 Gene

(3) SIMAP similar genes for LY75 Gene using alignment to 2 proteins:

  • LY75_HUMAN
  • L8E7D1_HUMAN
genes like me logo Genes that share paralogs with LY75: view

Variants for LY75 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LY75 Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
710587 Likely Benign: not provided 159,835,606(-) G/A MISSENSE_VARIANT
721813 Likely Benign: not provided 159,879,291(-) C/T MISSENSE_VARIANT
727978 Likely Benign: not provided 159,805,161(-) G/A SYNONYMOUS_VARIANT,INTRON_VARIANT
730665 Benign: not provided 159,879,264(-) C/T MISSENSE_VARIANT
730666 Benign: not provided 159,881,206(-) G/A SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for LY75 Gene

Structural Variations from Database of Genomic Variants (DGV) for LY75 Gene

Variant ID Type Subtype PubMed ID
dgv1176e212 CNV loss 25503493
esv1275142 CNV insertion 17803354
esv1586275 CNV insertion 17803354
esv1681534 CNV deletion 17803354
esv2358013 CNV deletion 18987734
esv2665197 CNV deletion 23128226
esv2721034 CNV deletion 23290073
esv3893504 CNV loss 25118596
nsv1010774 CNV gain 25217958
nsv1116803 CNV deletion 24896259
nsv437546 CNV loss 16327808
nsv470497 CNV loss 18288195
nsv834436 CNV loss 17160897

Variation tolerance for LY75 Gene

Residual Variation Intolerance Score: 35% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 16.13; 97.56% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LY75 Gene

Human Gene Mutation Database (HGMD)
LY75
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LY75

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY75 Gene

Disorders for LY75 Gene

MalaCards: The human disease database

(5) MalaCards diseases for LY75 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
pneumonic plague
  • primary pneumonic plague
adenoiditis
  • chronic adenoiditis
lipid pneumonia
  • exogenous lipoid pneumonia
thymoma
  • thymus neoplasms
cone-rod dystrophy 2
  • cord2
- elite association - COSMIC cancer census association via MalaCards
Search LY75 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LY75

genes like me logo Genes that share disorders with LY75: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LY75 Gene

Publications for LY75 Gene

  1. cDNA cloning of human DEC-205, a putative antigen-uptake receptor on dendritic cells. (PMID: 9553150) Kato M … Hart DN (Immunogenetics 1998) 2 3 4 23 54
  2. Hodgkin's lymphoma cell lines express a fusion protein encoded by intergenically spliced mRNA for the multilectin receptor DEC-205 (CD205) and a novel C-type lectin receptor DCL-1. (PMID: 12824192) Kato M … Hart DN (The Journal of biological chemistry 2003) 3 4 23 54
  3. Expression of multilectin receptors and comparative FITC-dextran uptake by human dendritic cells. (PMID: 11058570) Kato M … Hart DN (International immunology 2000) 3 23 54
  4. A monoclonal antibody to the DEC-205 endocytosis receptor on human dendritic cells. (PMID: 10980384) Guo M … Steinman RM (Human immunology 2000) 3 23 54
  5. The gp200-MR6 molecule which is functionally associated with the IL-4 receptor modulates B cell phenotype and is a novel member of the human macrophage mannose receptor family. (PMID: 9862343) McKay PF … Ritter MA (European journal of immunology 1998) 3 4 54

Products for LY75 Gene

Sources for LY75 Gene