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Aliases for CLC Gene

Aliases for CLC Gene

  • Charcot-Leyden Crystal Galectin 2 3
  • Charcot-Leyden Crystal Protein 2 3 4
  • Eosinophil Lysophospholipase 2 3 4
  • Lysolecithin Acylhydrolase 2 3 4
  • Galectin 10 2 3
  • LGALS10A 3 4
  • LGALS10 3 4
  • Gal-10 3 4
  • Lectin, Galactoside-Binding, Soluble, 10 3
  • Galactoside-Binding 2
  • Galectin-10 3
  • Soluble 2
  • Lectin 2
  • GAL10 3
  • 10 2

External Ids for CLC Gene

Summaries for CLC Gene

Entrez Gene Summary for CLC Gene

  • Lysophospholipases are enzymes that act on biological membranes to regulate the multifunctional lysophospholipids. The protein encoded by this gene is a lysophospholipase expressed in eosinophils and basophils. It hydrolyzes lysophosphatidylcholine to glycerophosphocholine and a free fatty acid. This protein may possess carbohydrate or IgE-binding activities. It is both structurally and functionally related to the galectin family of beta-galactoside binding proteins. It may be associated with inflammation and some myeloid leukemias. [provided by RefSeq, Jul 2008]

GeneCards Summary for CLC Gene

CLC (Charcot-Leyden Crystal Galectin) is a Protein Coding gene. Diseases associated with CLC include cold-induced sweating syndrome 2. GO annotations related to this gene include carbohydrate binding and cysteine-type endopeptidase activity involved in apoptotic process. An important paralog of this gene is LGALS14.

UniProtKB/Swiss-Prot for CLC Gene

  • Regulates immune responses through the recognition of cell-surface glycans. Essential for the anergy and suppressive function of CD25-positive regulatory T-cells (Treg).

Gene Wiki entry for CLC Gene

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

Genomics for CLC Gene

Genomic Location for CLC Gene

39,731,250 bp from pter
39,738,029 bp from pter
6,780 bases
Minus strand

Genomic View for CLC Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CLC Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLC Gene

Regulatory Elements for CLC Gene

Proteins for CLC Gene

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

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • C5HZ13
    • C5HZ14
    • Q0VDE3

    Protein attributes for CLC Gene

    142 amino acids
    Molecular mass:
    16453 Da
    Quaternary structure:
    • Interacts with CEL.
    • Forms hexagonal bipyramidal crystals, known as Charcot-Leyden crystals, in tissues and secretions from sites of eosinophil-associated inflammation and some myeloid leukemias

    Three dimensional structures from OCA and Proteopedia for CLC Gene

neXtProt entry for CLC Gene

Proteomics data for CLC Gene at MOPED

Post-translational modifications for CLC Gene

No Post-translational modifications

Other Protein References for CLC Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLC Gene

Domains for CLC Gene

Gene Families for CLC Gene

  • LGALS :Lectins, galactoside-binding

Protein Domains for CLC Gene

Suggested Antigen Peptide Sequences for CLC Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 galectin domain.:
    • Q05315
genes like me logo Genes that share domains with CLC: view

Function for CLC Gene

Molecular function for CLC Gene

GENATLAS Biochemistry: Charcot-Leyden crystal protein,eosinophil lysophospholipase,also expressed in basophil,galectin family of galactoride-beta binding protein
UniProtKB/Swiss-Prot Function: Regulates immune responses through the recognition of cell-surface glycans. Essential for the anergy and suppressive function of CD25-positive regulatory T-cells (Treg).

Gene Ontology (GO) - Molecular Function for CLC Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004622 NOT contributes_to lysophospholipase activity IDA 11834744
GO:0005515 protein binding IPI 11834744
GO:0030246 carbohydrate binding IEA --
GO:0097153 cysteine-type endopeptidase activity involved in apoptotic process IDA 17502455
genes like me logo Genes that share ontologies with CLC: view

Phenotypes for CLC Gene

GenomeRNAi human phenotypes for CLC:
genes like me logo Genes that share phenotypes with CLC: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CLC Gene

Localization for CLC Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLC Gene

Cytoplasm, cytosol. Cytoplasmic granule. Note=Localized in granules from where it may be secreted or transported to other locations in the cell.

Subcellular locations from

Jensen Localization Image for CLC Gene COMPARTMENTS Subcellular localization image for CLC gene
Compartment Confidence
extracellular 3
cytosol 2
lysosome 2
nucleus 2
vacuole 2
mitochondrion 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for CLC Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IDA 17502455
genes like me logo Genes that share ontologies with CLC: view

Pathways for CLC Gene

SuperPathways for CLC Gene

No Data Available

Interacting Proteins for CLC Gene

STRING Interaction Network Preview (showing 4 interactants - click image to see details)
Selected Interacting proteins: ENSP00000221804 for CLC Gene via STRING

Gene Ontology (GO) - Biological Process for CLC Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002667 regulation of T cell anergy IMP 17502455
GO:0002724 regulation of T cell cytokine production IMP 17502455
GO:0007275 multicellular organismal development TAS 8400237
GO:0046006 regulation of activated T cell proliferation IMP 17502455
GO:0070231 T cell apoptotic process IDA 17502455
genes like me logo Genes that share ontologies with CLC: view

No data available for Pathways by source for CLC Gene

Compounds for CLC Gene

(1003) HMDB Compounds for CLC Gene

Compound Synonyms Cas Number PubMed IDs
Arachidic acid
  • Arachate
Arachidonic acid
  • 5,8,11,14-Eicosatetraenoic acid
  • 2-[[(2,3-dihydroxypropoxy)hydroxyphosphinyl]oxy]-N,N,N-trimethyl-Ethanaminium inner salt
  • 2-aminoethyl ester 1-Glycerophosphoric acid
Heptadecanoic acid
  • Heptadecanoate

(3) Drugbank Compounds for CLC Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
7322-31-8 target
128-53-0 target
Para-Mercury-Benzenesulfonic Acid

(2) Novoseek inferred chemical compound relationships for CLC Gene

Compound -log(P) Hits PubMed IDs
chloride 49.1 1
mannose 44.7 3
genes like me logo Genes that share compounds with CLC: view

Transcripts for CLC Gene

mRNA/cDNA for CLC Gene

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

Unigene Clusters for CLC Gene

Charcot-Leyden crystal protein:
Representative Sequences:

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

No ASD Table

Relevant External Links for CLC Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLC Gene

mRNA expression in normal human tissues for CLC Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Whole Blood (47.6).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CLC Gene

SOURCE GeneReport for Unigene cluster for CLC Gene Hs.889

mRNA Expression by UniProt/SwissProt for CLC Gene

Tissue specificity: Expressed abundantly in the bone marrow. Expressed exclusively by eosinophils and basophils. Not detected in monocytes and neutrophils. Expressed in CD25-positive regulatory T-cells (Treg) (at protein level). Found in intestinal tissue from patients with Celiac disease, expression is directly related to the histological grade of mucosal damage and to the number of eosinophils found in the duodenal lesion (at protein level). Found in sputum of patients with eosinophilic inflammatory diseases such as asthma (at protein level).
genes like me logo Genes that share expressions with CLC: view

Orthologs for CLC Gene

This gene was present in the common ancestor of mammals.

Orthologs for CLC Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LOC100610880 35
  • 80.38 (n)
  • 67.63 (a)
(Bos Taurus)
Mammalia -- 36
  • 41 (a)
(Mus musculus)
Mammalia Clc 16
(Monodelphis domestica)
Mammalia -- 36
  • 41 (a)
Species with no ortholog for CLC:
  • 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)
  • dog (Canis familiaris)
  • 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)
  • rat (Rattus norvegicus)
  • 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 CLC Gene

Gene Tree for CLC (if available)
Gene Tree for CLC (if available)

Paralogs for CLC Gene

Paralogs for CLC Gene

Selected SIMAP similar genes for CLC Gene using alignment to 1 proteins: Pseudogenes for CLC Gene

genes like me logo Genes that share paralogs with CLC: view

Variants for CLC Gene

Sequence variations from dbSNP and Humsavar for CLC Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type MAF
rs17608 - 39,735,006(-) ACTTG(C/T)CTGTT reference, missense
rs44048 -- 39,735,762(+) tggca(A/C/T)gtaTA intron-variant
rs44049 -- 39,735,838(+) TTCAA(C/T)TCTGA intron-variant
rs104734 -- 39,736,035(+) tgttt(A/G)gtgat intron-variant
rs364911 -- 39,737,710(+) TCAGA(C/T)ACCAT intron-variant

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

Variant ID Type Subtype PubMed ID
nsv911695 CNV Loss 21882294
nsv9723 CNV Loss 18304495
dgv1082e1 CNV Complex 17122850

Relevant External Links for CLC Gene

HapMap Linkage Disequilibrium report

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

Disorders for CLC Gene

(2) University of Copenhagen DISEASES for CLC Gene

(4) Novoseek inferred disease relationships for CLC Gene

Disease -log(P) Hits PubMed IDs
allergic rhinitis 44.4 3
cystic fibrosis 37.3 2
allergy 25.9 1
inflammation 5.96 1

Relevant External Links for CLC

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with CLC: view

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

Publications for CLC Gene

  1. Localization of the human eosinophil Charcot-Leyden crystal protein (lysophospholipase) gene (CLC) to chromosome 19 and the human ribonuclease 2 (eosinophil-derived neurotoxin) and ribonuclease 3 (eosinophil cationic protein) genes (RNS2 and RNS3) to chromosome 14. (PMID: 1577491) Mastrianni D.M. … Ackerman S.J. (Genomics 1992) 2 3 4 23
  2. Charcot-Leyden crystal protein (galectin-10) is not a dual function galectin with lysophospholipase activity but binds a lysophospholipase inhibitor in a novel structural fashion. (PMID: 11834744) Ackerman S.J. … Acharya K.R. (J. Biol. Chem. 2002) 2 3 4 23
  3. The genomic structure of the human Charcot-Leyden crystal protein gene is analogous to those of the galectin genes. (PMID: 9119387) Dyer K.D. … Rosenberg H.F. (Genomics 1997) 3 4 23
  4. Selective recognition of mannose by the human eosinophil Charcot- Leyden crystal protein (galectin-10): a crystallographic study at 1.8 A resolution. (PMID: 10529229) Swaminathan G.J. … Acharya K.R. (Biochemistry 1999) 3 4 23
  5. CLC- a novel susceptibility gene for allergic rhinitis? (PMID: 19650845) Bryborn M. … Cardell L.O. (Allergy 2010) 3 23 48

Products for CLC Gene

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Allergy & Asthma in human,mouse,rat
    • Growth Factors in human,mouse,rat
    • Inflammatory Response & Autoimmunity 384HT in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate CLC
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for CLC
    • Block miRNA regulation of CLC using miScript Target Protectors

    Sources for CLC Gene

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