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CLIC1 chloride intracellular channel 1 [ Homo sapiens (human) ]

Gene ID: 1192, updated on 7-Apr-2024

Summary

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Official Symbol
CLIC1provided by HGNC
Official Full Name
chloride intracellular channel 1provided by HGNC
Primary source
HGNC:HGNC:2062
See related
Ensembl:ENSG00000213719 MIM:602872; AllianceGenome:HGNC:2062
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
G6; CL1C1; NCC27; CLCNL1
Summary
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 1 is a member of the p64 family; the protein localizes principally to the cell nucleus and exhibits both nuclear and plasma membrane chloride ion channel activity. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in placenta (RPKM 110.8), bone marrow (RPKM 106.5) and 25 other tissues See more
Orthologs
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Genomic context

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See CLIC1 in Genome Data Viewer
Location:
6p21.33
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (31730581..31737318, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (31583614..31590355, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31698358..31705095, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene lymphocyte antigen 6 family member G6C Neighboring gene megakaryocyte and platelet inhibitory receptor G6b Neighboring gene DDAH family member 2, ADMA-independent Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:31701615-31702814 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31704508-31705382 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31707224-31707854 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31707855-31708486 Neighboring gene MSH5-SAPCD1 readthrough (NMD candidate) Neighboring gene mutS homolog 5 Neighboring gene RNA, U6 small nuclear 850, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31731027-31731582 Neighboring gene SAPCD1 antisense RNA 1 Neighboring gene suppressor APC domain containing 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Comprehensive analysis of clinical prognosis and CLIC1 immune invasion in lung adenocarcinoma. Chen Z, et al. Medicine (Baltimore), 2022 Sep 30. PMID 36181109, Free PMC Article
  2. CLIC1 Drives Angiogenesis in Hepatocellular Carcinoma by Modulating VEGFA. Wei X, et al. Technol Cancer Res Treat, 2022 Jan-Dec. PMID 35722791, Free PMC Article
  3. Chloride Intracellular Channel 1 Expression Is Associated With Poor Prognosis of Lung Adenocarcinoma. Yasuda Y, et al. Anticancer Res, 2022 Jan. PMID 34969734
  4. Acetylation-stabilized chloride intracellular channel 1 exerts a tumor-promoting effect on cervical cancer cells by activating NF-κB. Wang W, et al. Cell Oncol (Dordr), 2021 Jun. PMID 33469837
  5. CLIC1 Inhibition Protects Against Cellular Senescence and Endothelial Dysfunction Via the Nrf2/HO-1 Pathway. Lu D, et al. Cell Biochem Biophys, 2021 Jun. PMID 33432550

See all (193) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Chloride Intracellular Channel Protein 1 (CLIC1) Is a Critical Host Cellular Factor for Influenza A Virus Replication.
    Title: Chloride Intracellular Channel Protein 1 (CLIC1) Is a Critical Host Cellular Factor for Influenza A Virus Replication.
  2. CLIC1-mediated autophagy confers resistance to DDP in gastric cancer.
    Title: CLIC1-mediated autophagy confers resistance to DDP in gastric cancer.
  3. Comprehensive analysis of clinical prognosis and CLIC1 immune invasion in lung adenocarcinoma.
    Title: Comprehensive analysis of clinical prognosis and CLIC1 immune invasion in lung adenocarcinoma.
  4. CLIC1 promotes the progression of cervical cancer through the PTEN/PI3K/AKT pathway.
    Title: CLIC1 promotes the progression of cervical cancer through the PTEN/PI3K/AKT pathway.
  5. CLIC1 Drives Angiogenesis in Hepatocellular Carcinoma by Modulating VEGFA.
    Title: CLIC1 Drives Angiogenesis in Hepatocellular Carcinoma by Modulating VEGFA.
  6. Chloride Intracellular Channel 1 Expression Is Associated With Poor Prognosis of Lung Adenocarcinoma.
    Title: Chloride Intracellular Channel 1 Expression Is Associated With Poor Prognosis of Lung Adenocarcinoma.
  7. Identification of chloride intracellular channels as prognostic factors correlated with immune infiltration in hepatocellular carcinoma using bioinformatics analysis.
    Title: Identification of chloride intracellular channels as prognostic factors correlated with immune infiltration in hepatocellular carcinoma using bioinformatics analysis.
  8. Acetylation-stabilized chloride intracellular channel 1 exerts a tumor-promoting effect on cervical cancer cells by activating NF-kappaB.
    Title: Acetylation-stabilized chloride intracellular channel 1 exerts a tumor-promoting effect on cervical cancer cells by activating NF-κB.
  9. PD_BiBIM: Biclustering-based biomarker identification in ESCC microarray data.
    Title: PD_BiBIM: Biclustering-based biomarker identification in ESCC microarray data.
  10. Exosomal CLIC1 released by CLL promotes HUVECs angiogenesis by regulating ITGbeta1-MAPK/ERK axis.
    Title: Exosomal CLIC1 released by CLL promotes HUVECs angiogenesis by regulating ITGβ1-MAPK/ERK axis.
Submit: New GeneRIF Correction See all GeneRIFs (85)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat Expression of HIV-1 Tat upregulates the abundance of chloride intracellular channel 1 (CLIC1) in the nucleoli of Jurkat T-cells PubMed
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of chloride intracellular channel 1 (CLIC1) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cadherin binding HDA PubMed 
enables chloride channel activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chloride channel activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in chloride transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in chloride transport IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within chloride transport IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in platelet aggregation HMP PubMed 
involved_in positive regulation of osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of mitochondrial membrane potential IEA
Inferred from Electronic Annotation
more info
  
involved_in signal transduction TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in blood microparticle HDA PubMed 
located_in brush border TAS
Traceable Author Statement
more info
 PubMed 
part_of chloride channel complex IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm HDA PubMed 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular exosome HDA PubMed 
located_in extracellular exosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular space HDA PubMed 
located_in membrane HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrion IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear envelope IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus HDA PubMed 
located_in nucleus TAS
Traceable Author Statement
more info
 PubMed 
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in vesicle HDA PubMed 

General protein information

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Preferred Names
chloride intracellular channel protein 1
Names
RNCC protein
chloride channel ABP
hRNCC
nuclear chloride ion channel 27
nuclear chloride ion channel protein
p64CLCP
regulatory nuclear chloride ion channel protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001287593.1 → NP_001274522.1  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001274522.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    BC064527
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299, Q15089, Q502X1
    UniProtKB/TrEMBL
    Q53FB0, Q5SRT3
    Related
    ENSP00000364935.2, ENST00000375780.6
    Conserved Domains (1) summary
    TIGR00862
    Location:6 → 241
    O-ClC; intracellular chloride channel protein

  2. NM_001287594.3 → NP_001274523.1  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001274523.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has an alternate exon in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AL662899
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299, Q15089, Q502X1
    UniProtKB/TrEMBL
    Q53FB0, Q5SRT3
    Related
    ENSP00000479808.1, ENST00000616760.1
    Conserved Domains (1) summary
    TIGR00862
    Location:6 → 241
    O-ClC; intracellular chloride channel protein

  3. NM_001288.6 → NP_001279.2  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001279.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate exon in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AL662899
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299, Q15089, Q502X1
    UniProtKB/TrEMBL
    Q53FB0, Q5SRT3
    Related
    ENSP00000364940.3, ENST00000375784.8
    Conserved Domains (1) summary
    TIGR00862
    Location:6 → 241
    O-ClC; intracellular chloride channel protein

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    31730581..31737318 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

    Range
    3207869..3214610 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3

    Range
    2978342..2985081 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_4

Genomic

  1. NT_167246.2 Reference GRCh38.p14 ALT_REF_LOCI_4

    Range
    3035628..3042369 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

    Range
    3072456..3079197 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6

    Range
    2986392..2993137 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

    Range
    3029877..3036620 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    31583614..31590355 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O00299.4 GenPept UniProtKB/Swiss-Prot:O00299

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