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Aliases for CLIC6 Gene

Aliases for CLIC6 Gene

  • Chloride Intracellular Channel 6 2 3 5
  • Parchorin 3 4
  • CLIC1L 3 4
  • Chloride Intracellular Channel Protein 6 3
  • Chloride Channel Form A 3

External Ids for CLIC6 Gene

Previous HGNC Symbols for CLIC6 Gene

  • CLIC1L

Previous GeneCards Identifiers for CLIC6 Gene

  • GC21P032657
  • GC21P034962
  • GC21P034963
  • GC21P036041
  • GC21P021520

Summaries for CLIC6 Gene

Entrez Gene Summary for CLIC6 Gene

  • This gene encodes a member of the chloride intracellular channel family of proteins. The gene is part of a large triplicated region found on chromosomes 1, 6, and 21. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Nov 2015]

GeneCards Summary for CLIC6 Gene

CLIC6 (Chloride Intracellular Channel 6) is a Protein Coding gene. Among its related pathways are Hepatic ABC Transporters and Activation of cAMP-Dependent PKA. Gene Ontology (GO) annotations related to this gene include protein homodimerization activity and chloride channel activity. An important paralog of this gene is CLIC5.

UniProtKB/Swiss-Prot for CLIC6 Gene

  • May insert into membranes and form chloride ion channels. May play a critical role in water-secreting cells, possibly through the regulation of chloride ion transport (By similarity).

Gene Wiki entry for CLIC6 Gene

Additional gene information for CLIC6 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLIC6 Gene

Genomics for CLIC6 Gene

GeneHancer (GH) Regulatory Elements for CLIC6 Gene

Promoters and enhancers for CLIC6 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH21J034668 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 661.7 +1.7 1730 5.2 CTCF MEIS2 PKNOX1 FOXA2 MAX SIN3A EBF1 BATF GATA3 POLR2A CLIC6 RCAN1 LINC01426 GC21M034717
GH21J034640 Enhancer 1.1 Ensembl ENCODE 12.3 -28.6 -28626 1.3 HDAC1 ATF1 TAF9B RB1 STAT5A ZBTB40 BATF IRF4 ZNF766 GATA2 CLIC6 GC21P034627
GH21J034521 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 5.4 -144.7 -144743 8.5 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF766 KCNE1 RCAN1 CLIC6 ENSG00000272958 SMIM34A GC21M034521
GH21J034701 Enhancer 0.6 FANTOM5 ENCODE 19.6 +33.3 33343 1.9 FOXP2 FOS CLIC6 KCNE2 GC21M034717
GH21J034689 Enhancer 0.5 ENCODE 22.8 +21.4 21428 2.2 JUND SCRT2 FOSL2 MNT FOS ATF2 CLIC6 LINC01426 GC21M034717
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CLIC6 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLIC6 gene promoter:
  • Sp1
  • Egr-4
  • Pax-5
  • HOXA5
  • Nkx3-1
  • Nkx3-1 v1
  • Nkx3-1 v2
  • Nkx3-1 v3
  • Nkx3-1 v4
  • AREB6

Genomic Locations for CLIC6 Gene

Genomic Locations for CLIC6 Gene
chr21:34,669,292-34,718,227
(GRCh38/hg38)
Size:
48,936 bases
Orientation:
Plus strand
chr21:36,041,688-36,090,525
(GRCh37/hg19)
Size:
48,838 bases
Orientation:
Plus strand

Genomic View for CLIC6 Gene

Genes around CLIC6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLIC6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLIC6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLIC6 Gene

Proteins for CLIC6 Gene

  • Protein details for CLIC6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96NY7-CLIC6_HUMAN
    Recommended name:
    Chloride intracellular channel protein 6
    Protein Accession:
    Q96NY7
    Secondary Accessions:
    • A8K0U8
    • Q8IX31

    Protein attributes for CLIC6 Gene

    Size:
    704 amino acids
    Molecular mass:
    73012 Da
    Quaternary structure:
    • Interacts with dopamine receptors DRD2, DRD3 and DRD4.
    SequenceCaution:
    • Sequence=BAC03959.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for CLIC6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLIC6 Gene

Post-translational modifications for CLIC6 Gene

Other Protein References for CLIC6 Gene

No data available for DME Specific Peptides for CLIC6 Gene

Domains & Families for CLIC6 Gene

Gene Families for CLIC6 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transporters

Suggested Antigen Peptide Sequences for CLIC6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96NY7

UniProtKB/Swiss-Prot:

CLIC6_HUMAN :
  • 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).
  • Belongs to the chloride channel CLIC family.
Domain:
  • 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).
Family:
  • Belongs to the chloride channel CLIC family.
genes like me logo Genes that share domains with CLIC6: view

Function for CLIC6 Gene

Molecular function for CLIC6 Gene

UniProtKB/Swiss-Prot Function:
May insert into membranes and form chloride ion channels. May play a critical role in water-secreting cells, possibly through the regulation of chloride ion transport (By similarity).

Phenotypes From GWAS Catalog for CLIC6 Gene

Gene Ontology (GO) - Molecular Function for CLIC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004364 NOT glutathione transferase activity IBA --
GO:0005244 voltage-gated ion channel activity IEA --
GO:0005254 chloride channel activity IBA --
genes like me logo Genes that share ontologies with CLIC6: view
genes like me logo Genes that share phenotypes with CLIC6: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CLIC6

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CLIC6 Gene

Localization for CLIC6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLIC6 Gene

Cytoplasm. Cell membrane; Single-pass membrane protein. Note=Predominantly cytoplasmic. Upon chloride ion efflux from the cell, it is translocated to the plasma membrane (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLIC6 gene
Compartment Confidence
extracellular 5
nucleus 4
plasma membrane 3
cytosol 3
cytoskeleton 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for CLIC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
GO:0005737 cytoplasm IBA --
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLIC6: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLIC6 Gene

Pathways & Interactions for CLIC6 Gene

genes like me logo Genes that share pathways with CLIC6: view

Pathways by source for CLIC6 Gene

Gene Ontology (GO) - Biological Process for CLIC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006749 NOT glutathione metabolic process IBA --
GO:0006811 ion transport IEA --
GO:0006821 chloride transport IEA --
GO:0034765 regulation of ion transmembrane transport IEA --
GO:1902476 chloride transmembrane transport IBA --
genes like me logo Genes that share ontologies with CLIC6: view

No data available for SIGNOR curated interactions for CLIC6 Gene

Drugs & Compounds for CLIC6 Gene

(1) Additional Compounds for CLIC6 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Chloride ion
  • Chloride(1-)
  • Chlorine anion
  • CL(-)
  • Bertholite
  • Chloor
16887-00-6
genes like me logo Genes that share compounds with CLIC6: view

Transcripts for CLIC6 Gene

mRNA/cDNA for CLIC6 Gene

Unigene Clusters for CLIC6 Gene

Chloride intracellular channel 6:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLIC6 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7
SP1: -
SP2: - -
SP3:

Relevant External Links for CLIC6 Gene

GeneLoc Exon Structure for
CLIC6
ECgene alternative splicing isoforms for
CLIC6

Expression for CLIC6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLIC6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLIC6 Gene

This gene is overexpressed in Stomach (x18.4) and Minor Salivary Gland (x4.5).

Protein differential expression in normal tissues from HIPED for CLIC6 Gene

This gene is overexpressed in Lavage (28.8) and Nasal epithelium (22.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CLIC6 Gene



NURSA nuclear receptor signaling pathways regulating expression of CLIC6 Gene:

CLIC6

SOURCE GeneReport for Unigene cluster for CLIC6 Gene:

Hs.473695

mRNA Expression by UniProt/SwissProt for CLIC6 Gene:

Q96NY7-CLIC6_HUMAN
Tissue specificity: Expressed in brain, placenta, pancreas and liver.

Evidence on tissue expression from TISSUES for CLIC6 Gene

  • Nervous system(4.2)
  • Intestine(4.1)
  • Stomach(2.1)
genes like me logo Genes that share expression patterns with CLIC6: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLIC6 Gene

Orthologs for CLIC6 Gene

This gene was present in the common ancestor of animals.

Orthologs for CLIC6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLIC6 34 33
  • 97.97 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CLIC6 34 33
  • 90.6 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CLIC6 34
  • 84 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CLIC6 34 33
  • 77.98 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Clic6 33
  • 74.6 (n)
mouse
(Mus musculus)
Mammalia Clic6 16 34 33
  • 74.14 (n)
oppossum
(Monodelphis domestica)
Mammalia CLIC6 34
  • 48 (a)
OneToOne
chicken
(Gallus gallus)
Aves CLIC6 34
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CLIC6 34
  • 49 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii CLIC6 34
  • 74 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Clic 34
  • 27 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea exl-1 34
  • 26 (a)
ManyToMany
exc-4 34
  • 23 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6991 34
  • 46 (a)
OneToMany
Species where no ortholog for CLIC6 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CLIC6 Gene

ENSEMBL:
Gene Tree for CLIC6 (if available)
TreeFam:
Gene Tree for CLIC6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CLIC6: view image

Paralogs for CLIC6 Gene

Paralogs for CLIC6 Gene

(5) SIMAP similar genes for CLIC6 Gene using alignment to 1 proteins:

  • CLIC6_HUMAN
genes like me logo Genes that share paralogs with CLIC6: view

Variants for CLIC6 Gene

Sequence variations from dbSNP and Humsavar for CLIC6 Gene

SNP ID Clin Chr 21 pos Variation AA Info Type
rs1000039199 -- 34,711,610(+) C/T genic_downstream_transcript_variant, intron_variant
rs1000068307 -- 34,674,952(+) G/A intron_variant
rs1000096680 -- 34,717,734(+) G/A 3_prime_UTR_variant, genic_downstream_transcript_variant
rs1000176145 -- 34,694,353(+) C/T intron_variant
rs1000276601 -- 34,700,912(+) C/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CLIC6 Gene

Variant ID Type Subtype PubMed ID
dgv718n67 CNV loss 20364138
esv2670909 CNV deletion 23128226
esv2723369 CNV deletion 23290073
esv3050456 CNV deletion 24192839
esv3557661 CNV deletion 23714750
esv3646926 CNV loss 21293372
esv993312 CNV loss 20482838
nsv1055971 CNV gain 25217958
nsv1133524 CNV deletion 24896259
nsv3501 CNV insertion 18451855
nsv828868 CNV loss 20364138

Variation tolerance for CLIC6 Gene

Gene Damage Index Score: 11.28; 92.54% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLIC6 Gene

Human Gene Mutation Database (HGMD)
CLIC6
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLIC6

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLIC6 Gene

Disorders for CLIC6 Gene

Additional Disease Information for CLIC6

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

No disorders were found for CLIC6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLIC6 Gene

Publications for CLIC6 Gene

  1. Identification of a novel member of the CLIC family, CLIC6, mapping to 21q22.12. (PMID: 14597386) Friedli M … Reymond A (Gene 2003) 3 4 22 58
  2. The DNA sequence of human chromosome 21. (PMID: 10830953) Hattori M … Chromosome 21 mapping and sequencing consortium (Nature 2000) 2 3 4 58
  3. Sequential use of transcriptional profiling, expression quantitative trait mapping, and gene association implicates MMP20 in human kidney aging. (PMID: 19834535) Wheeler HE … Kim SK (PLoS genetics 2009) 3 44 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for CLIC6 Gene

Sources for CLIC6 Gene

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