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Aliases for LY6G5C Gene

Aliases for LY6G5C Gene

  • Lymphocyte Antigen 6 Complex, Locus G5C 2 3 5
  • C6orf20 3 4
  • NG33 3 4
  • G5C 3 4
  • Lymphocyte Antigen 6 Complex Locus Protein G5c 3
  • Chromosome 6 Open Reading Frame 20 2
  • Lymphocyte Antigen-6 G5C 3
  • LY6G5CA 3
  • LY6G5CB 3

External Ids for LY6G5C Gene

Previous HGNC Symbols for LY6G5C Gene

  • C6orf20

Previous GeneCards Identifiers for LY6G5C Gene

  • GC06M031707
  • GC06M031416
  • GC06M031748
  • GC06M031753
  • GC06M031644
  • GC06M031432

Summaries for LY6G5C Gene

Entrez Gene Summary for LY6G5C Gene

  • LY6G5C belongs to a cluster of leukocyte antigen-6 (LY6) genes located in the major histocompatibility complex (MHC) class III region on chromosome 6. Members of the LY6 superfamily typically contain 70 to 80 amino acids, including 8 to 10 cysteines. Most LY6 proteins are attached to the cell surface by a glycosylphosphatidylinositol (GPI) anchor that is directly involved in signal transduction (Mallya et al., 2002 [PubMed 12079290]).[supplied by OMIM, Mar 2008]

GeneCards Summary for LY6G5C Gene

LY6G5C (Lymphocyte Antigen 6 Complex, Locus G5C) is a Protein Coding gene.

UniProtKB/Swiss-Prot for LY6G5C Gene

  • May have a role in hematopoietic cell differentiation.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LY6G5C Gene

Genomics for LY6G5C Gene

Regulatory Elements for LY6G5C Gene

Enhancers for LY6G5C Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F031682 1.1 Ensembl ENCODE 46.9 +0.5 491 1.5 HDGF ATF1 PKNOX1 ARID4B SIN3A ELK1 KLF13 SP5 ZNF623 SREBF1 LY6G5C STK19B BAG6 LOC105375019
GH06F031680 0.8 ENCODE 46.8 +2.9 2935 1.8 ELF3 TBP TBL1XR1 WRNIP1 ZNF76 SIN3A ARID4B BMI1 ZSCAN9 RAD21 LY6G5C STK19B LOC105375019 LY6G5B
GH06F031689 1.1 ENCODE 46.4 -6.4 -6440 1.6 HDGF ATF1 PKNOX1 ARNT CREB3L1 SIN3A ARID4B GLIS2 GATA2 FOS LY6G5C LY6G5B DDX39B SKIV2L BAG6 GPSM3 C6orf47 C6orf25 AGER LOC105375018
GH06F031710 0.5 Ensembl 36.6 -27.5 -27461 2.2 YBX3 HDGF CTCF KLF1 ESRRA ETV1 KLF17 CDC5L RAD21 ZIC2 LY6G5C SKIV2L MSH5 MSH5-SAPCD1 SAPCD1 SAPCD1-AS1 VWA7 RNU6-850P ENSG00000201555 VARS
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LY6G5C on UCSC Golden Path with GeneCards custom track

Genomic Location for LY6G5C Gene

31,676,684 bp from pter
31,684,040 bp from pter
7,357 bases
Minus strand

Genomic View for LY6G5C Gene

Genes around LY6G5C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY6G5C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY6G5C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for LY6G5C Gene

  • Protein details for LY6G5C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Lymphocyte antigen 6 complex locus protein G5c
    Protein Accession:
    Secondary Accessions:
    • A6NCW4
    • B0UXB3
    • B0UXB4
    • B0UZ69
    • B0UZQ0
    • B1B0L9
    • O95871
    • Q5SQ59
    • Q8NDY0
    • Q8NDY1

    Protein attributes for LY6G5C Gene

    150 amino acids
    Molecular mass:
    16650 Da
    Quaternary structure:
    • Forms oligomers.
    • Sequence=CAI18529.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAM45830.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAQ06577.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAQ07007.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAQ10884.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for LY6G5C Gene


neXtProt entry for LY6G5C Gene

Post-translational modifications for LY6G5C Gene

Other Protein References for LY6G5C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LY6G5C Gene

Domains & Families for LY6G5C Gene

Gene Families for LY6G5C Gene

Protein Domains for LY6G5C Gene


Graphical View of Domain Structure for InterPro Entry



  • Contains 1 UPAR/Ly6 domain.
  • Contains 1 UPAR/Ly6 domain.
genes like me logo Genes that share domains with LY6G5C: view

Function for LY6G5C Gene

Molecular function for LY6G5C Gene

UniProtKB/Swiss-Prot Function:
May have a role in hematopoietic cell differentiation.

Phenotypes for LY6G5C Gene

genes like me logo Genes that share phenotypes with LY6G5C: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LY6G5C

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LY6G5C Gene

Localization for LY6G5C Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY6G5C Gene


Subcellular locations from

Jensen Localization Image for LY6G5C Gene COMPARTMENTS Subcellular localization image for LY6G5C gene
Compartment Confidence
nucleus 2
cytosol 1
extracellular 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for LY6G5C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LY6G5C: view

Pathways & Interactions for LY6G5C Gene

SuperPathways for LY6G5C Gene

No Data Available

Interacting Proteins for LY6G5C Gene

Selected Interacting proteins: Q5SRR4-LY65C_HUMAN for LY6G5C Gene via IID

Gene Ontology (GO) - Biological Process for LY6G5C Gene


No data available for Pathways by source and SIGNOR curated interactions for LY6G5C Gene

Transcripts for LY6G5C Gene

Unigene Clusters for LY6G5C Gene

Lymphocyte antigen 6 complex, locus G5C:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LY6G5C Gene

No ASD Table

Relevant External Links for LY6G5C Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LY6G5C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LY6G5C Gene

NURSA nuclear receptor signaling pathways regulating expression of LY6G5C Gene:


SOURCE GeneReport for Unigene cluster for LY6G5C Gene:


mRNA Expression by UniProt/SwissProt for LY6G5C Gene:

Tissue specificity: Detected in T-cell lines and fetal and adult lung.
genes like me logo Genes that share expression patterns with LY6G5C: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for LY6G5C Gene

Orthologs for LY6G5C Gene

This gene was present in the common ancestor of mammals.

Orthologs for LY6G5C Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LY6G5C 34 35
  • 98.89 (n)
(Canis familiaris)
Mammalia LY6G5C 34 35
  • 87.33 (n)
(Bos Taurus)
Mammalia LY6G5C 34 35
  • 78.57 (n)
(Mus musculus)
Mammalia Ly6g5c 34 16 35
  • 75 (n)
(Rattus norvegicus)
Mammalia Ly6g5c 34
  • 74.18 (n)
Species where no ortholog for LY6G5C 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)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • 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 LY6G5C Gene

Gene Tree for LY6G5C (if available)
Gene Tree for LY6G5C (if available)

Paralogs for LY6G5C Gene

No data available for Paralogs for LY6G5C Gene

Variants for LY6G5C Gene

Sequence variations from dbSNP and Humsavar for LY6G5C Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs111437489 -- 31,680,665(+) CACAG(A/G)GCACA upstream-variant-2KB
rs112406549 -- 31,677,560(+) TGCTG(A/C)TGCCC intron-variant
rs113731516 -- 31,679,497(+) AGAGC(A/G)CTTGG intron-variant
rs11443495 -- 31,677,202(+) AAAAA(-/A)GAAAA intron-variant
rs11575852 -- 31,679,224(-) TTCCA(C/T)TCCCC reference, missense

Structural Variations from Database of Genomic Variants (DGV) for LY6G5C Gene

Variant ID Type Subtype PubMed ID
dgv10403n54 CNV loss 21841781
dgv10404n54 CNV loss 21841781
nsv1073969 CNV deletion 25765185
nsv1112900 CNV deletion 24896259
nsv1126749 CNV deletion 24896259
nsv1161370 CNV deletion 26073780
nsv830627 CNV loss 17160897

Variation tolerance for LY6G5C Gene

Residual Variation Intolerance Score: 69.1% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LY6G5C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY6G5C Gene

Disorders for LY6G5C Gene

Relevant External Links for LY6G5C

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for LY6G5C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LY6G5C Gene

Publications for LY6G5C Gene

  1. Transcriptional analysis of a novel cluster of LY-6 family members in the human and mouse major histocompatibility complex: five genes with many splice forms. (PMID: 12079290) Mallya M. … Aguado B. (Genomics 2002) 2 3 4 64
  2. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos L.F. … Criswell L.A. (PLoS Genet. 2009) 3 46 64
  3. Fine mapping of the MHC Class III region demonstrates association of AIF1 and rheumatoid arthritis. (PMID: 18835879) Harney S.M. … Brown M.A. (Rheumatology (Oxford) 2008) 3 46 64
  4. Comparative gene expression profiling of in vitro differentiated megakaryocytes and erythroblasts identifies novel activatory and inhibitory platelet membrane proteins. (PMID: 17192395) Macaulay I.C. … Ouwehand W.H. (Blood 2007) 3 64
  5. Characterization of the five novel Ly-6 superfamily members encoded in the MHC, and detection of cells expressing their potential ligands. (PMID: 17008713) Mallya M. … Aguado B. (Protein Sci. 2006) 4 64

Products for LY6G5C Gene

Sources for LY6G5C Gene

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