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Aliases for LY6G6C Gene

Aliases for LY6G6C Gene

  • Lymphocyte Antigen 6 Complex, Locus G6C 2 3 5
  • C6orf24 3 4
  • NG24 3 4
  • G6c 3 4
  • Lymphocyte Antigen 6 Complex Locus Protein G6c 3
  • Chromosome 6 Open Reading Frame 24 2
  • Lymphocyte Antigen-6 G6C 3

External Ids for LY6G6C Gene

Previous HGNC Symbols for LY6G6C Gene

  • C6orf24

Previous GeneCards Identifiers for LY6G6C Gene

  • GC06M031749
  • GC06M031457
  • GC06M031790
  • GC06M031794
  • GC06M031691
  • GC06M031692
  • GC06M031472
  • GC06M031699
  • GC06M031719
  • GC06M031729
  • GC06M031795

Summaries for LY6G6C Gene

Entrez Gene Summary for LY6G6C Gene

  • LY6G6C 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 LY6G6C Gene

LY6G6C (Lymphocyte Antigen 6 Complex, Locus G6C) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LY6G6C Gene

Genomics for LY6G6C Gene

Regulatory Elements for LY6G6C Gene

Enhancers for LY6G6C 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
GH06F031829 0.2 ENCODE 24.6 -112.3 -112312 9.1 CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 MEF2D GLIS1 ATF6B LSM2 LY6G5B DDX39B SKIV2L DXO GTF2H4 VARS LY6G6C CSNK2B
GH06F031817 1.1 FANTOM5 ENCODE 14 -100.9 -100935 10.7 CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TBX21 BAG6 ATF6B SKIV2L DDX39B MICA LSM2 STK19B LY6G5B VARS C4A
GH06F031762 0.5 Ensembl ENCODE 11.8 -41.7 -41749 1.5 HDGF ARNT NFRKB RAD21 ZNF366 SCRT2 PAF1 CEBPB KAT8 SREBF1 LY6G6C SKIV2L SAPCD1 SAPCD1-AS1
GH06F031750 0.5 ENCODE 9.1 -28.7 -28722 0.6 ZMYM3 DMAP1 ZKSCAN1 CTBP1 GATA3 POLR2A STAT2 FOS NR2F6 RCOR1 C4A LY6G6C RNU6-850P MSH5 MSH5-SAPCD1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LY6G6C on UCSC Golden Path with GeneCards custom track

Genomic Location for LY6G6C Gene

31,718,648 bp from pter
31,721,845 bp from pter
3,198 bases
Minus strand

Genomic View for LY6G6C Gene

Genes around LY6G6C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LY6G6C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LY6G6C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for LY6G6C Gene

  • Protein details for LY6G6C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Lymphocyte antigen 6 complex locus protein G6c
    Protein Accession:
    Secondary Accessions:
    • Q5SRS8
    • Q8IY94

    Protein attributes for LY6G6C Gene

    125 amino acids
    Molecular mass:
    13821 Da
    Quaternary structure:
    • Monomer.

neXtProt entry for LY6G6C Gene

Post-translational modifications for LY6G6C Gene

Other Protein References for LY6G6C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LY6G6C Gene

Domains & Families for LY6G6C Gene

Gene Families for LY6G6C Gene

Protein Domains for LY6G6C Gene


Suggested Antigen Peptide Sequences for LY6G6C 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 LY6G6C: view

Function for LY6G6C Gene

genes like me logo Genes that share phenotypes with LY6G6C: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LY6G6C

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LY6G6C Gene

Localization for LY6G6C Gene

Subcellular locations from UniProtKB/Swiss-Prot for LY6G6C Gene

Cell membrane; Lipid-anchor, GPI-anchor.

Subcellular locations from

Jensen Localization Image for LY6G6C Gene COMPARTMENTS Subcellular localization image for LY6G6C gene
Compartment Confidence
extracellular 3
plasma membrane 1

Gene Ontology (GO) - Cellular Components for LY6G6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with LY6G6C: view

Pathways & Interactions for LY6G6C Gene

genes like me logo Genes that share pathways with LY6G6C: view

Interacting Proteins for LY6G6C Gene

Selected Interacting proteins: O95867-LY66C_HUMAN for LY6G6C Gene via IID

Symbol External ID(s) Details

Gene Ontology (GO) - Biological Process for LY6G6C Gene


No data available for SIGNOR curated interactions for LY6G6C Gene

Transcripts for LY6G6C Gene

mRNA/cDNA for LY6G6C Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(19) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LY6G6C Gene

Lymphocyte antigen 6 complex, locus G6C:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LY6G6C Gene

No ASD Table

Relevant External Links for LY6G6C Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LY6G6C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LY6G6C Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LY6G6C Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x26.0) and Skin - Not Sun Exposed (Suprapubic) (x21.9).

Protein differential expression in normal tissues from HIPED for LY6G6C Gene

This gene is overexpressed in Cervix (62.9) and Placenta (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LY6G6C Gene

Protein tissue co-expression partners for LY6G6C Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LY6G6C Gene:


SOURCE GeneReport for Unigene cluster for LY6G6C Gene:


mRNA Expression by UniProt/SwissProt for LY6G6C Gene:

Tissue specificity: Highly expressed at the leading edges of cells, on filopodia.
genes like me logo Genes that share expression patterns with LY6G6C: view

Primer Products

Orthologs for LY6G6C Gene

This gene was present in the common ancestor of mammals.

Orthologs for LY6G6C Gene

Organism Taxonomy Gene Similarity Type Details
(Canis familiaris)
Mammalia LY6G6C 34 35
  • 89.07 (n)
(Bos Taurus)
Mammalia LY6G6C 34 35
  • 86.93 (n)
(Rattus norvegicus)
Mammalia Ly6g6c 34
  • 85.42 (n)
(Mus musculus)
Mammalia Ly6g6c 34 16 35
  • 85.12 (n)
(Monodelphis domestica)
Mammalia LY6G6C 35
  • 57 (a)
Species where no ortholog for LY6G6C 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • 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 LY6G6C Gene

Gene Tree for LY6G6C (if available)
Gene Tree for LY6G6C (if available)

Paralogs for LY6G6C Gene

No data available for Paralogs for LY6G6C Gene

Variants for LY6G6C Gene

Sequence variations from dbSNP and Humsavar for LY6G6C Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1065356 -- 31,719,231(-) AACCG(C/T)AAGCT upstream-variant-2KB, reference, synonymous-codon
rs111494486 -- 31,718,276(+) GCTTG(A/G)TGCCC downstream-variant-500B
rs112648088 -- 31,718,891(+) GTCCT(A/G)GAAGG upstream-variant-2KB, utr-variant-3-prime
rs112943189 -- 31,723,328(+) CCCCC(A/C)CAACC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs113665807 -- 31,718,395(+) CCCTC(A/G)AGCCA downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for LY6G6C 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

Variation tolerance for LY6G6C Gene

Residual Variation Intolerance Score: 73.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.42; 27.82% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LY6G6C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LY6G6C Gene

Disorders for LY6G6C Gene

Relevant External Links for LY6G6C

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

No disorders were found for LY6G6C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LY6G6C Gene

Publications for LY6G6C 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. Genes encoding three new members of the leukocyte antigen 6 superfamily and a novel member of Ig superfamily, together with genes encoding the regulatory nuclear chloride ion channel protein (hRNCC) and an N omega-N omega-dimethylarginine dimethylaminohydrolase homologue, are found in a 30-kb segment of the MHC class III region. (PMID: 10384126) Ribas G. … Campbell R.D. (J. Immunol. 1999) 2 3 4 64
  3. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  4. 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
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4 64

Products for LY6G6C Gene

Sources for LY6G6C Gene

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