Gene Gene information from NCBI Gene database.
Entrez ID 1181
Gene name Chloride voltage-gated channel 2
Gene symbol CLCN2
Synonyms (NCBI Gene)
CIC-2CLC2ECA2ECA3EGI11EGI3EGMAEJM6EJM8FHA2FHIIHALD2LKPATclC-2
Chromosome 3
Chromosome location 3q27.1
Summary This gene encodes a voltage-gated chloride channel. The encoded protein is a transmembrane protein that maintains chloride ion homeostasis in various cells. Defects in this gene may be a cause of certain epilepsies. Four transcript variants encoding diffe
SNPs SNP information provided by dbSNP.
27
SNP ID Visualize variation Clinical significance Consequence
rs71318369 C>T Risk-factor, uncertain-significance Intron variant, coding sequence variant, missense variant, non coding transcript variant
rs137852682 C>G,T Risk-factor, uncertain-significance Non coding transcript variant, missense variant, coding sequence variant
rs141242566 C>A,T Pathogenic, uncertain-significance Missense variant, non coding transcript variant, coding sequence variant
rs201330912 C>T Pathogenic Coding sequence variant, non coding transcript variant, stop gained
rs376823689 G>A Likely-pathogenic, pathogenic Non coding transcript variant, coding sequence variant, stop gained, intron variant
miRNA miRNA information provided by mirtarbase database.
2
miRTarBase ID miRNA Experiments Reference
MIRT017077 hsa-miR-335-5p Microarray 18185580
MIRT052784 hsa-miR-1260b CLASH 23622248
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
50
GO ID Ontology Definition Evidence Reference
GO:0005247 Function Voltage-gated chloride channel activity IBA
GO:0005247 Function Voltage-gated chloride channel activity IDA 16155254, 29403011, 36964785
GO:0005247 Function Voltage-gated chloride channel activity IEA
GO:0005247 Function Voltage-gated chloride channel activity TAS 7795595
GO:0005254 Function Chloride channel activity IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
600570 2020 ENSG00000114859
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P51788
Protein name Chloride channel protein 2 (ClC-2)
Protein function Voltage-gated and osmosensitive chloride channel. Forms a homodimeric channel where each subunit has its own ion conduction pathway. Conducts double-barreled currents controlled by two types of gates, two fast glutamate gates that control each s
PDB 7XF5 , 7XJA , 8GQU , 8TA2 , 8TA3 , 8TA4 , 8TA5 , 8TA6
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00654 Voltage_CLC 143 547 Voltage gated chloride channel Family
Tissue specificity TISSUE SPECIFICITY: Ubiquitously expressed. Moderately expressed in aortic and coronary vascular smooth muscle cells and expressed at a low level in aortic endothelial cells. Expressed in the adrenal gland, predominantly in the zona glomerulosa (PubMed:29
Sequence
MAAAAAEEGMEPRALQYEQTLMYGRYTQDLGAFAKEEAARIRLGGPEPWKGPPSSRAAPE
LLEYGRSRCARCRVCSVRCHKFLVSRVGEDWIFLVLLGLLMALVSWVMDYAIAACLQAQQ
WMSRGLNTSILLQYLAWVTYPVVLITFSAGFTQILAPQAVGSGIPEMKTILRGVVLKEYL
TLKTFIAKVIGLTCALGSGMPLGKEGPFVHIASMCAALLSKFLSLFGGIYENESRNTEML
AAACAVGVGCCFAAPIGGVLFSIEVTSTFFAVRNYWRGFFAATFSAFIFRVLAVWNRDEE
TITALFKTRFRLDFPFDLQELPAFAVIGIASGFGGALFVYLNRKIVQVMRKQKTINRFLM
RKRLLFPALVTLLISTLTFPPGFGQFMAGQLSQKETLVTLFDNRTWVRQGLVEELEPPST
SQAWNPPRANVFLTLVIFILMKFWMSALATTIPVPCGAFMPVFVIGAAFGRLVGESMAAW
FPDGIHTDSSTYRIVPGGYAVVGAAALAGAVTHTVSTAVIVFELTGQIAHILPVMIAVIL
ANAVAQS
LQPSLYDSIIRIKKLPYLPELGWGRHQQYRVRVEDIMVRDVPHVALSCTFRDL
RLALHRTKGRMLALVESPESMILLGSIERSQVVALLGAQLSPARRRQHMQERRATQTSPL
SDQEGPPTPEASVCFQVNTEDSAFPAARGETHKPLKPALKRGPSVTRNLGESPTGSAESA
GIALRSLFCGSPPPEAASEKLESCEKRKLKRVRISLASDADLEGEMSPEEILEWEEQQLD
EPVNFSDCKIDPAPFQLVERTSLHKTHTIFSLLGVDHAYVTSIGRLIGIVTLKELRKAIE
GSVTAQGVKVRPPLASFRDSATSSSDTETTEVHALWGPHSRHGLPREGSPSDSDDKCQ
Sequence length 898
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Mineral absorption   Stimuli-sensing channels
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
46
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
CLCN2-related disorder Likely pathogenic; Pathogenic rs201330912, rs756385625, rs201976983, rs771507094, rs863225251, rs1055985062, rs2474235576, rs2474240689, rs762516598, rs2474277095 RCV004689607
RCV004738360
RCV002510261
RCV004553102
RCV003235126
View all (5 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Epilepsy, idiopathic generalized, susceptibility to, 11 Likely pathogenic; Pathogenic rs201330912, rs141074059, rs756385625, rs1458831101, rs863225252, rs863225250, rs762516598, rs1293789661 RCV002490754
RCV002501901
RCV002496011
RCV001731114
RCV005031771
View all (3 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Familial hyperaldosteronism type II Likely pathogenic; Pathogenic rs201330912, rs141074059, rs756385625, rs771507094, rs863225252, rs863225250, rs762516598, rs1085307938, rs1553853557, rs1553856214, rs1293789661, rs1553857113, rs758379595 RCV002490754
RCV002501901
RCV002496011
RCV003992233
RCV005031771
View all (8 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Leukoencephalopathy with mild cerebellar ataxia and white matter edema Pathogenic; Likely pathogenic rs1245141384, rs201330912, rs587777110, rs587777111, rs587777112, rs141074059, rs756385625, rs376823689, rs771507094, rs863225252, rs863225251, rs863225250, rs2474246529, rs762887805, rs762516598
View all (3 more)
RCV001335132
RCV000087029
RCV000087030
RCV000087031
RCV000087032
View all (13 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Adrenocortical carcinoma, hereditary Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Bipolar affective disorder Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BIPOLAR DISORDER Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Arteriosclerosis Arteriosclerosis BEFREE 31206525
★☆☆☆☆
Found in Text Mining only
Atherosclerosis Atherosclerosis BEFREE 31206525
★☆☆☆☆
Found in Text Mining only
Atrial Fibrillation Atrial fibrillation Pubtator 31996765 Associate
★☆☆☆☆
Found in Text Mining only
Carcinoma Hepatocellular Hepatocellular carcinoma Pubtator 33340691 Associate
★☆☆☆☆
Found in Text Mining only
Cerebellar Ataxia Cerebellar ataxia Pubtator 23707145 Associate
★★★☆☆
Reported in Unknown/Other Associations (≥2 sources)
Cognition Disorders Cognition disorder Pubtator 23707145 Associate
★☆☆☆☆
Found in Text Mining only
Colitis Colitis BEFREE 24030525, 30285466
★☆☆☆☆
Found in Text Mining only
Conn Adenoma Conn Adenoma BEFREE 31491746, 31585437
★☆☆☆☆
Found in Text Mining only
Conn Syndrome Conn Syndrome BEFREE 29403011, 29403012, 30949771, 31615979
★☆☆☆☆
Found in Text Mining only
Conn Syndrome Conn Syndrome CTD_human_DG 29403012
★☆☆☆☆
Found in Text Mining only