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Aliases for CLCA4 Gene

Aliases for CLCA4 Gene

  • Chloride Channel Accessory 4 2 3 5
  • Chloride Channel, Calcium Activated, Family Member 4 2 3
  • Calcium-Activated Chloride Channel Family Member 4 3 4
  • Calcium-Activated Chloride Channel Protein 2 3 4
  • Chloride Channel Regulator 4 2 3
  • HCaCC-2 3 4
  • CaCC-2 3 4
  • HCLCA4 3 4
  • CaCC2 3 4
  • EC 3.4.-.- 4
  • CACC 3

External Ids for CLCA4 Gene

Previous GeneCards Identifiers for CLCA4 Gene

  • GC01P087514
  • GC01P086181
  • GC01P086305
  • GC01P086435
  • GC01P086724
  • GC01P087012
  • GC01P085123

Summaries for CLCA4 Gene

Entrez Gene Summary for CLCA4 Gene

  • The protein encoded by this gene belongs to the calcium sensitive chloride conductance protein family. To date, all members of this gene family map to the same site on chromosome 1p31-p22 and share high degrees of homology in size, sequence and predicted structure, but differ significantly in their tissue distributions. Alternative splicing results in multiple transcript variants, only one of which is thought to be protein coding. [provided by RefSeq, Dec 2008]

GeneCards Summary for CLCA4 Gene

CLCA4 (Chloride Channel Accessory 4) is a Protein Coding gene. Diseases associated with CLCA4 include cystic fibrosis. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Hepatic ABC Transporters. GO annotations related to this gene include metallopeptidase activity and intracellular calcium activated chloride channel activity. An important paralog of this gene is CLCA1.

UniProtKB/Swiss-Prot for CLCA4 Gene

  • May be involved in mediating calcium-activated chloride conductance.

Gene Wiki entry for CLCA4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLCA4 Gene

Genomics for CLCA4 Gene

Regulatory Elements for CLCA4 Gene

Genomic Location for CLCA4 Gene

86,547,076 bp from pter
86,580,758 bp from pter
33,683 bases
Plus strand

Genomic View for CLCA4 Gene

Genes around CLCA4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLCA4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLCA4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLCA4 Gene

Proteins for CLCA4 Gene

  • Protein details for CLCA4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Calcium-activated chloride channel regulator 4
    Protein Accession:
    Secondary Accessions:
    • A8MQC9
    • B7Z1Q5
    • Q6UX81
    • Q9UNF7

    Protein attributes for CLCA4 Gene

    919 amino acids
    Molecular mass:
    101283 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for CLCA4 Gene


neXtProt entry for CLCA4 Gene

Proteomics data for CLCA4 Gene at MOPED

Post-translational modifications for CLCA4 Gene

  • The translation product is autoproteolytically cleaved by the metalloprotease domain in the endoplasmic reticulum into a N-terminal and a C-terminal products that remain physically associated with each other. The cleavage is necessary for calcium-activated chloride channel (CaCC) activation activity.
  • Glycosylation at Asn 75, Asn 340, Asn 504, Asn 542, Asn 588, Asn 628, Asn 811, Asn 832, Asn 837, and Asn 852
  • Modification sites at PhosphoSitePlus

Other Protein References for CLCA4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLCA4 Gene

Domains & Families for CLCA4 Gene

Gene Families for CLCA4 Gene

Protein Domains for CLCA4 Gene


Graphical View of Domain Structure for InterPro Entry



  • The metalloprotease region is responsible for autoproteolytic processing. It can also cross-cleave other CLCA Substrates.
  • Belongs to the CLCR family.
  • The metalloprotease region is responsible for autoproteolytic processing. It can also cross-cleave other CLCA Substrates.
  • Contains 1 VWFA domain.
  • Belongs to the CLCR family.
genes like me logo Genes that share domains with CLCA4: view

Function for CLCA4 Gene

Molecular function for CLCA4 Gene

UniProtKB/Swiss-Prot Function:
May be involved in mediating calcium-activated chloride conductance.
UniProtKB/Swiss-Prot Induction:
Down-regulated in oral tongue squamous cell carcinomas.

Enzyme Numbers (IUBMB) for CLCA4 Gene

Gene Ontology (GO) - Molecular Function for CLCA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004222 metalloendopeptidase activity TAS --
GO:0005254 chloride channel activity TAS 10437792
genes like me logo Genes that share ontologies with CLCA4: view
genes like me logo Genes that share phenotypes with CLCA4: view

Animal Model Products

CRISPR Products

miRNA for CLCA4 Gene

miRTarBase miRNAs that target CLCA4

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CLCA4 Gene

Localization for CLCA4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLCA4 Gene

Cell membrane; Single-pass membrane protein. Apical cell membrane. Secreted. Note=The C-terminus 30 kDa form is anchored to the membrane. The N-terminus 110 kDa form is released from the membrane triggered by an unknown stimulus. {ECO:0000250}.

Subcellular locations from

Jensen Localization Image for CLCA4 Gene COMPARTMENTS Subcellular localization image for CLCA4 gene
Compartment Confidence
extracellular 5
plasma membrane 5

No data available for Gene Ontology (GO) - Cellular Components for CLCA4 Gene

Pathways & Interactions for CLCA4 Gene

genes like me logo Genes that share pathways with CLCA4: view

Interacting Proteins for CLCA4 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
Selected Interacting proteins: ENSP00000359594 for CLCA4 Gene via STRING

Gene Ontology (GO) - Biological Process for CLCA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006821 chloride transport TAS --
GO:0034220 ion transmembrane transport TAS --
GO:1902476 chloride transmembrane transport TAS 10437792
genes like me logo Genes that share ontologies with CLCA4: view

No data available for SIGNOR curated interactions for CLCA4 Gene

Drugs & Compounds for CLCA4 Gene

(1) Drugs for CLCA4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0

(1) Additional Compounds for CLCA4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Chloride ion
  • Bertholite
  • Chloor
  • Chlor
  • Chlore
  • Chloride
genes like me logo Genes that share compounds with CLCA4: view

Transcripts for CLCA4 Gene

mRNA/cDNA for CLCA4 Gene

Unigene Clusters for CLCA4 Gene

Chloride channel accessory 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CLCA4 Gene

No ASD Table

Relevant External Links for CLCA4 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLCA4 Gene

mRNA expression in normal human tissues for CLCA4 Gene

mRNA differential expression in normal tissues according to GTEx for CLCA4 Gene

This gene is overexpressed in Esophagus - Mucosa (x22.8), Colon - Transverse (x13.3), and Minor Salivary Gland (x6.0).

Protein differential expression in normal tissues from HIPED for CLCA4 Gene

This gene is overexpressed in Cervix (39.6), Nasal epithelium (13.0), and Colon (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLCA4 Gene

SOURCE GeneReport for Unigene cluster for CLCA4 Gene Hs.567422

mRNA Expression by UniProt/SwissProt for CLCA4 Gene

Tissue specificity: Primarily expressed in the digestive tract, mainly in colon. Detected in smaller amounts in brain, urogenital organs, testis, and salivary and mammary glands. Highly expressed in the epithelial layer and submucosal gland of the inferior turbinate mucosa. Lower levels in the epithelial layer of nasal polyp.
genes like me logo Genes that share expression patterns with CLCA4: view

Protein tissue co-expression partners for CLCA4 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for CLCA4 Gene

Orthologs for CLCA4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLCA4 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CLCA4 35
  • 82.39 (n)
  • 75.6 (a)
CLCA4 36
  • 74 (a)
(Canis familiaris)
Mammalia CLCA4 35
  • 85.32 (n)
  • 79.91 (a)
CLCA4 36
  • 78 (a)
(Mus musculus)
Mammalia AI747448 35
  • 76.9 (n)
  • 71.54 (a)
Clca4b 16
AI747448 36
  • 70 (a)
Clca6 36
  • 69 (a)
Gm6289 36
  • 70 (a)
(Pan troglodytes)
Mammalia CLCA4 35
  • 98.95 (n)
  • 98.26 (a)
CLCA4 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Clca4 35
  • 76.67 (n)
  • 69.76 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 49 (a)
-- 36
  • 38 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 44 (a)
-- 36
  • 47 (a)
-- 36
  • 53 (a)
-- 36
  • 56 (a)
-- 36
  • 54 (a)
-- 36
  • 55 (a)
(Gallus gallus)
Aves -- 36
  • 47 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 47 (a)
-- 36
  • 45 (a)
-- 36
  • 47 (a)
-- 36
  • 41 (a)
-- 36
  • 47 (a)
-- 36
  • 44 (a)
-- 36
  • 44 (a)
-- 36
  • 44 (a)
-- 36
  • 44 (a)
(Danio rerio)
Actinopterygii si:dkey-243k1.4 36
  • 41 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 29 (a)
-- 36
  • 33 (a)
-- 36
  • 26 (a)
-- 36
  • 38 (a)
-- 36
  • 28 (a)
Species with no ortholog for CLCA4:
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLCA4 Gene

Gene Tree for CLCA4 (if available)
Gene Tree for CLCA4 (if available)

Paralogs for CLCA4 Gene

Paralogs for CLCA4 Gene

(3) SIMAP similar genes for CLCA4 Gene using alignment to 3 proteins: Pseudogenes for CLCA4 Gene

genes like me logo Genes that share paralogs with CLCA4: view

Variants for CLCA4 Gene

Sequence variations from dbSNP and Humsavar for CLCA4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs2231580 - 86,547,246(+) GTGTG(C/T)CAGAA nc-transcript-variant, reference, missense
VAR_045817 -
VAR_045818 -
VAR_045819 -
rs772600 -- 86,568,551(+) CAATT(C/T)CTCAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CLCA4 Gene

Variant ID Type Subtype PubMed ID
nsv823464 CNV Loss 20364138
esv2670523 CNV Deletion 23128226

Variation tolerance for CLCA4 Gene

Residual Variation Intolerance Score: 21.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.21; 69.90% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLCA4 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLCA4 Gene

Disorders for CLCA4 Gene

MalaCards: The human disease database

(1) MalaCards diseases for CLCA4 Gene - From: Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
cystic fibrosis
  • pseudomonas aeruginosa chronic infection by, in cystic fibrosis
- elite association - COSMIC cancer census association via MalaCards
Search CLCA4 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CLCA4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CLCA4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLCA4 Gene

Publications for CLCA4 Gene

  1. Identification of three novel members of the calcium-dependent chloride channel (CaCC) family predominantly expressed in the digestive tract and trachea. (PMID: 10437792) Agnel M. … Culouscou J.-M. (FEBS Lett. 1999) 2 3 4 67
  2. CLCA4 variants determine the manifestation of the cystic fibrosis basic defect in the intestine. (PMID: 23073314) Kolbe E.W. … Stanke F. (Eur. J. Hum. Genet. 2013) 3
  3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M. … Moll S. (J Proteomics 2013) 3
  4. Loss of CLCA4 Promotes Epithelial-to-Mesenchymal Transition in Breast Cancer Cells. (PMID: 24386311) Yu Y. … Elble R.C. (PLoS ONE 2013) 3
  5. A genome-wide short hairpin RNA screening of jurkat T-cells for human proteins contributing to productive HIV-1 replication. (PMID: 19460752) Yeung M.L. … Jeang K.T. (J. Biol. Chem. 2009) 3

Products for CLCA4 Gene

Sources for CLCA4 Gene

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