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Aliases for CLIC3 Gene

Aliases for CLIC3 Gene

  • Chloride Intracellular Channel 3 2 3

External Ids for CLIC3 Gene

Previous GeneCards Identifiers for CLIC3 Gene

  • GC09P131140
  • GC09M131578
  • GC09M133330
  • GC09M135246
  • GC09M137164
  • GC09M139008
  • GC09M139889
  • GC09M109348

Summaries for CLIC3 Gene

Entrez Gene Summary for CLIC3 Gene

  • Chloride channels are a diverse group of proteins that regulate fundamental cellular processes including stabilization of cell membrane potential, transepithelial transport, maintenance of intracellular pH, and regulation of cell volume. Chloride intracellular channel 3 is a member of the p64 family and is predominantly localized in the nucleus and stimulates chloride ion channel activity. In addition, this protein may participate in cellular growth control, based on its association with ERK7, a member of the MAP kinase family. [provided by RefSeq, Jul 2008]

GeneCards Summary for CLIC3 Gene

CLIC3 (Chloride Intracellular Channel 3) is a Protein Coding gene. 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 and voltage-gated chloride channel activity. An important paralog of this gene is CLIC1.

UniProtKB/Swiss-Prot for CLIC3 Gene

  • Can insert into membranes and form chloride ion channels. May participate in cellular growth control.

Gene Wiki entry for CLIC3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLIC3 Gene

Genomics for CLIC3 Gene

Regulatory Elements for CLIC3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CLIC3 Gene

136,994,608 bp from pter
136,997,741 bp from pter
3,134 bases
Minus strand

Genomic View for CLIC3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CLIC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLIC3 Gene

Proteins for CLIC3 Gene

  • Protein details for CLIC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Chloride intracellular channel protein 3
    Protein Accession:
    Secondary Accessions:
    • Q5SPZ7

    Protein attributes for CLIC3 Gene

    236 amino acids
    Molecular mass:
    26648 Da
    Quaternary structure:
    • Associated with the C-terminal of ERK7
    • Sequence=AAD16450.1; Type=Frameshift; Positions=28; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CLIC3 Gene

neXtProt entry for CLIC3 Gene

Proteomics data for CLIC3 Gene at MOPED

Post-translational modifications for CLIC3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CLIC3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CLIC3 Gene

Domains for CLIC3 Gene

Gene Families for CLIC3 Gene

  • CLIC :Ion channels / Chloride channels : Intracellular

Suggested Antigen Peptide Sequences for CLIC3 Gene

Graphical View of Domain Structure for InterPro Entry



  • O95833
  • Members of this family may change from a globular, soluble state to a state where the N-terminal domain is inserted into the membrane and functions as chloride channel. A conformation change of the N-terminal domain is thought to expose hydrophobic surfaces that trigger membrane insertion (By similarity).
  • Contains 1 GST C-terminal domain.
  • Contains 1 GST N-terminal domain.
  • Belongs to the chloride channel CLIC family.
genes like me logo Genes that share domains with CLIC3: view

Function for CLIC3 Gene

Molecular function for CLIC3 Gene

GENATLAS Biochemistry:
membrane chloride intracellular channel 3
UniProtKB/Swiss-Prot Function:
Can insert into membranes and form chloride ion channels. May participate in cellular growth control.

Gene Ontology (GO) - Molecular Function for CLIC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005244 voltage-gated ion channel activity IEA --
GO:0005247 voltage-gated chloride channel activity --
GO:0005254 chloride channel activity IMP 9880541
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with CLIC3: view

Phenotypes for CLIC3 Gene

GenomeRNAi human phenotypes for CLIC3:
genes like me logo Genes that share phenotypes with CLIC3: view

Animal Model Products

miRNA for CLIC3 Gene

miRTarBase miRNAs that target CLIC3

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLIC3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for CLIC3 Gene

Localization for CLIC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLIC3 Gene

Nucleus. Membrane; Single-pass membrane protein. Cytoplasm. Note=Predominantly nuclear. Some protein was found in the cytoplasm. Exists both as soluble cytoplasmic protein and as membrane protein with probably a single transmembrane domain (By similarity). {ECO:0000250}.

Subcellular locations from

Jensen Localization Image for CLIC3 Gene COMPARTMENTS Subcellular localization image for CLIC3 gene
Compartment Confidence
nucleus 5
cytosol 3
plasma membrane 2
extracellular 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for CLIC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005737 cytoplasm IDA --
GO:0016020 membrane --
GO:0034707 chloride channel complex IEA --
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with CLIC3: view

Pathways for CLIC3 Gene

genes like me logo Genes that share pathways with CLIC3: view

Pathways by source for CLIC3 Gene

Gene Ontology (GO) - Biological Process for CLIC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006821 chloride transport IMP 9880541
GO:0007165 signal transduction TAS 9880541
GO:0034765 regulation of ion transmembrane transport IEA --
GO:0044070 regulation of anion transport --
GO:1902476 chloride transmembrane transport IMP 9880541
genes like me logo Genes that share ontologies with CLIC3: view

Compounds for CLIC3 Gene

(1) HMDB Compounds for CLIC3 Gene

Compound Synonyms Cas Number PubMed IDs
  • Cl2

(1) Novoseek inferred chemical compound relationships for CLIC3 Gene

Compound -log(P) Hits PubMed IDs
chloride 66.9 9
genes like me logo Genes that share compounds with CLIC3: view

Transcripts for CLIC3 Gene

mRNA/cDNA for CLIC3 Gene

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

Unigene Clusters for CLIC3 Gene

Chloride intracellular channel 3:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLIC3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLIC3 Gene

No ASD Table

Relevant External Links for CLIC3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLIC3 Gene

mRNA expression in normal human tissues for CLIC3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLIC3 Gene

This gene is overexpressed in Esophagus - Mucosa (16.3), Vagina (6.5), Skin - Not Sun Exposed (Suprapubic) (5.5), Skin - Sun Exposed (Lower leg) (5.1), Thyroid (4.8), and Cervix - Ectocervix (4.2).

Protein differential expression in normal tissues for CLIC3 Gene

This gene is overexpressed in Cervix (39.1) and Hair follicle (6.2).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CLIC3 Gene

SOURCE GeneReport for Unigene cluster for CLIC3 Gene Hs.64746

mRNA Expression by UniProt/SwissProt for CLIC3 Gene

Tissue specificity: Detected in placenta (at protein level). Widely expressed. High expression is found in placenta followed by lung and heart. Low expression in skeletal muscle, kidney and pancreas.
genes like me logo Genes that share expressions with CLIC3: view

In Situ Assay Products

No data available for Expression partners for CLIC3 Gene

Orthologs for CLIC3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CLIC3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CLIC3 35
  • 89.55 (n)
  • 90.68 (a)
CLIC3 36
  • 90 (a)
(Canis familiaris)
Mammalia CLIC3 35
  • 86.16 (n)
  • 88.98 (a)
CLIC3 36
  • 83 (a)
(Mus musculus)
Mammalia Clic3 35
  • 83.76 (n)
  • 91.1 (a)
Clic3 16
Clic3 36
  • 91 (a)
(Pan troglodytes)
Mammalia CLIC3 35
  • 99.44 (n)
  • 99.58 (a)
CLIC3 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Clic3 35
  • 83.76 (n)
  • 90.25 (a)
(Monodelphis domestica)
Mammalia CLIC3 36
  • 72 (a)
(Ornithorhynchus anatinus)
Mammalia CLIC3 36
  • 65 (a)
(Gallus gallus)
Aves LOC417293 35
  • 74.67 (n)
  • 72.49 (a)
CLIC3 36
  • 66 (a)
(Anolis carolinensis)
Reptilia CLIC3 36
  • 67 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia clic3 35
  • 64.78 (n)
  • 60.43 (a)
(Danio rerio)
Actinopterygii clica 35
  • 59.53 (n)
  • 60.7 (a)
clica 36
  • 58 (a)
fruit fly
(Drosophila melanogaster)
Insecta Clic 36
  • 21 (a)
(Caenorhabditis elegans)
Secernentea exc-4 36
  • 17 (a)
exl-1 36
  • 23 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6991 36
  • 32 (a)
Species with no ortholog for CLIC3:
  • 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for CLIC3 Gene

Gene Tree for CLIC3 (if available)
Gene Tree for CLIC3 (if available)

Paralogs for CLIC3 Gene

Paralogs for CLIC3 Gene

Selected SIMAP similar genes for CLIC3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CLIC3: view

Variants for CLIC3 Gene

Sequence variations from dbSNP and Humsavar for CLIC3 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs13795 -- 136,995,677(-) GTACC(C/T)TTCAC synonymous-codon, reference
rs908834 -- 136,996,466(-) GAAGC(A/G)CTTTT intron-variant
rs908835 -- 136,996,205(-) CGGTC(A/G)GTGTT intron-variant
rs908836 -- 136,996,001(-) TCTGA(C/T)AAGAT intron-variant
rs1104990 -- 136,995,886(+) TGGTC(A/G)GCGCG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CLIC3 Gene

Variant ID Type Subtype PubMed ID
nsv469918 CNV Loss 18288195
nsv894387 CNV Gain 21882294
esv2422220 CNV Deletion 17116639
dgv8412n71 CNV Loss 21882294
dgv8415n71 CNV Loss 21882294
dgv8416n71 CNV Loss 21882294
nsv818738 CNV Gain 17921354
nsv524322 CNV Loss 19592680
nsv894469 CNV Loss 21882294
nsv894483 CNV Loss 21882294
dgv8423n71 CNV Loss 21882294
nsv894500 CNV Loss 21882294
nsv894502 CNV Loss 21882294
nsv894503 CNV Loss 21882294
nsv894506 CNV Gain 21882294
dgv8425n71 CNV Loss 21882294
dgv8427n71 CNV Gain 21882294
nsv894513 CNV Loss 21882294
nsv894514 CNV Loss 21882294
dgv8428n71 CNV Loss 21882294
nsv894521 CNV Loss 21882294
dgv8433n71 CNV Gain 21882294
nsv894546 CNV Loss 21882294
nsv894550 CNV Gain 21882294
dgv8437n71 CNV Gain 21882294

Relevant External Links for CLIC3 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLIC3 Gene

Disorders for CLIC3 Gene

No disorders were found for CLIC3 Gene.

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , University of Copenhagen DISEASES , Novoseek inferred disease relationships , Genatlas and External Links for CLIC3 Gene

Publications for CLIC3 Gene

  1. Molecular cloning and characterization of a mitogen-activated protein kinase-associated intracellular chloride channel. (PMID: 9880541) Qian Z. … Rosner M.R. (J. Biol. Chem. 1999) 2 3 4 23
  2. Expression and cellular localisation of chloride intracellular channel 3 in human placenta and fetal membranes. (PMID: 17027078) Money T.T. … Gude N.M. (Placenta 2007) 3 4 23
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Structure of human CLIC3 at 2 A resolution. (PMID: 20146363) Littler D.R. … Curmi P.M. (Proteins 2010) 3 4
  5. Genome-wide YFP fluorescence complementation screen identifies new regulators for telomere signaling in human cells. (PMID: 21044950) Lee O.H. … Songyang Z. (Mol. Cell Proteomics 2011) 3

Products for CLIC3 Gene

Sources for CLIC3 Gene

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