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Aliases for CLCA4 Gene

Aliases for CLCA4 Gene

  • Chloride Channel Accessory 4 2 3
  • 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
  • Calcium-Activated Chloride Channel Regulator 4 3
  • 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 and bestrophinopathy. Among its related pathways are Activation of cAMP-Dependent PKA and Activation of cAMP-Dependent PKA. GO annotations related to this gene include 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

86,547,015 bp from pter
86,580,754 bp from pter
33,740 bases
Plus strand

Genomic View for CLCA4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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 Asn75, Asn340, Asn504, Asn542, Asn588, Asn628, Asn811, Asn832, Asn837, and Asn852
  • Modification sites at PhosphoSitePlus

Other Protein References for CLCA4 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Santa Cruz Biotechnology (SCBT) Antibodies for CLCA4

No data available for DME Specific Peptides for CLCA4 Gene

Domains for CLCA4 Gene

Protein Domains for CLCA4 Gene

Graphical View of Domain Structure for InterPro Entry



  • Q14CN2
  • 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

No data available for Gene Families for CLCA4 Gene

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:0005229 intracellular calcium activated chloride channel activity IBA --
GO:0005254 chloride channel activity TAS 10437792
GO:0005515 protein binding --
GO:0008237 metallopeptidase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CLCA4: view

Phenotypes for CLCA4 Gene

GenomeRNAi human phenotypes for CLCA4:
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

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLCA4

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targeting 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
plasma membrane 5
extracellular 2
nucleus 1

Gene Ontology (GO) - Cellular Components for CLCA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 10437792
GO:0016324 apical plasma membrane IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with CLCA4: view

Pathways for CLCA4 Gene

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

Pathways by source for CLCA4 Gene

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:0006508 proteolysis IEA --
GO:0006810 transport TAS 10437792
GO:0006821 chloride transport TAS 10437792
GO:0034220 ion transmembrane transport TAS --
GO:0055085 transmembrane transport TAS --
genes like me logo Genes that share ontologies with CLCA4: view

Compounds for CLCA4 Gene

(2) HMDB Compounds for CLCA4 Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca
  • Cl2
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:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLCA4

Primer Products

Flow Cytometry Products

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 (22.8), Colon - Transverse (13.3), and Minor Salivary Gland (6.0).

Protein differential expression in normal tissues for CLCA4 Gene

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

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, 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 expressions with CLCA4: view

Expression partners for CLCA4 Gene

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)
Clca6 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

Selected 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 MAF
rs709802 -- 86,564,299(-) GGTGA(C/T)AGCAC intron-variant
rs709803 -- 86,573,647(+) ATATA(A/C)CCTGC intron-variant
rs772597 -- 86,576,826(+) CCATT(A/C)TCTGT intron-variant
rs772598 -- 86,574,262(-) ATTCA(C/T)GGATG intron-variant, downstream-variant-500B
rs772599 -- 86,571,063(-) ATAAT(G/T)CAGAG 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

Relevant External Links for CLCA4 Gene

HapMap Linkage Disequilibrium report

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

Disorders for CLCA4 Gene

MalaCards: The human disease database

MalaCards: The human disease database.

Search for CLCA4 Gene in MalaCards »

(2) Diseases for CLCA4 Gene including...

(2) University of Copenhagen DISEASES for CLCA4 Gene

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

No data available for OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships , Genatlas and External Links 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
  2. 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
  3. The CLCA gene locus as a modulator of the gastrointestinal basic defect in cystic fibrosis. (PMID: 15490240) Ritzka M. … Tummler B. (Hum. Genet. 2004) 3 4
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 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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