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CLIC4 chloride intracellular channel 4 [ Homo sapiens (human) ]

Gene ID: 25932, updated on 3-Apr-2024

Summary

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Official Symbol
CLIC4provided by HGNC
Official Full Name
chloride intracellular channel 4provided by HGNC
Primary source
HGNC:HGNC:13518
See related
Ensembl:ENSG00000169504 MIM:606536; AllianceGenome:HGNC:13518
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
H1; huH1; p64H1; CLIC4L; MTCLIC
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 4 (CLIC4) protein, encoded by the CLIC4 gene, is a member of the p64 family; the gene is expressed in many tissues and exhibits a intracellular vesicular pattern in Panc-1 cells (pancreatic cancer cells). [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in endometrium (RPKM 129.1), kidney (RPKM 121.8) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
1p36.11
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (24745447..24844321)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (24582409..24679995)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (25071938..25170812)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:24894097-24894598 Neighboring gene NANOG hESC enhancer GRCh37_chr1:24895749-24896251 Neighboring gene ribosomal protein L26 pseudogene 8 Neighboring gene non-compact myelin associated protein Neighboring gene ATAC-STARR-seq lymphoblastoid active region 405 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 434 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 435 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:24981406-24981591 Neighboring gene small nucleolar RNA U13 Neighboring gene serine and arginine repetitive matrix 1 Neighboring gene Sharpr-MPRA regulatory region 11281 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 436 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:25041190-25042389 Neighboring gene Sharpr-MPRA regulatory region 6401 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:25050611-25051418 Neighboring gene Sharpr-MPRA regulatory region 445 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25056667-25057257 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25069429-25070034 Neighboring gene hESC enhancers GRCh37_chr1:25071247-25071852 and GRCh37_chr1:25071853-25072458 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 439 Neighboring gene RNA, U6 small nuclear 1208, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:25173940-25174664 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 440 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 441 Neighboring gene uncharacterized LOC105376876 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:25192786-25193985 Neighboring gene MPRA-validated peak122 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 406 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 407 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 408 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 409 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 410 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 411 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25240971-25241486 Neighboring gene RUNX family transcription factor 3 Neighboring gene microRNA 6731

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. Requirement of CLIC4 Expression in Human Colorectal Cancer Cells for Sensitivity to Growth Inhibition by Fucoxanthinol. Yokoyama R, et al. Cancer Genomics Proteomics, 2022 Jul-Aug. PMID 35732323, Free PMC Article
  2. Host CLIC4 expression in the tumor microenvironment is essential for breast cancer metastatic competence. Sanchez VC, et al. PLoS Genet, 2022 Jun. PMID 35727842, Free PMC Article
  3. Induction of Pro-Fibrotic CLIC4 in Dermal Fibroblasts by TGF-β/Wnt3a Is Mediated by GLI2 Upregulation. Wasson CW, et al. Cells, 2022 Feb 3. PMID 35159339, Free PMC Article
  4. Characterization of chloride intracellular channel 4 in the regulation of human trophoblast function. Zhou W, et al. Placenta, 2022 Mar 4. PMID 35078024
  5. Detection of Cells Displaying High Expression of CLIC4 in Tumor Tissue of Patients With Colorectal Cancer. Yokoyama R, et al. In Vivo, 2021 Nov-Dec. PMID 34697147, Free PMC Article

See all (102) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CLIC4 Regulates Endothelial Barrier Control by Mediating PAR1 Signaling via RhoA.
    Title: CLIC4 Regulates Endothelial Barrier Control by Mediating PAR1 Signaling via RhoA.
  2. The stromal immunoexpression of CLIC4 may be related to the difference in the biological behavior between oral squamous cell carcinoma and oral verrucous carcinoma.
    Title: The stromal immunoexpression of CLIC4 may be related to the difference in the biological behavior between oral squamous cell carcinoma and oral verrucous carcinoma.
  3. Host CLIC4 expression in the tumor microenvironment is essential for breast cancer metastatic competence.
    Title: Host CLIC4 expression in the tumor microenvironment is essential for breast cancer metastatic competence.
  4. Requirement of CLIC4 Expression in Human Colorectal Cancer Cells for Sensitivity to Growth Inhibition by Fucoxanthinol.
    Title: Requirement of CLIC4 Expression in Human Colorectal Cancer Cells for Sensitivity to Growth Inhibition by Fucoxanthinol.
  5. Induction of Pro-Fibrotic CLIC4 in Dermal Fibroblasts by TGF-beta/Wnt3a Is Mediated by GLI2 Upregulation.
    Title: Induction of Pro-Fibrotic CLIC4 in Dermal Fibroblasts by TGF-β/Wnt3a Is Mediated by GLI2 Upregulation.
  6. Characterization of chloride intracellular channel 4 in the regulation of human trophoblast function.
    Title: Characterization of chloride intracellular channel 4 in the regulation of human trophoblast function.
  7. Circular RNA_0033596 aggravates endothelial cell injury induced by oxidized low-density lipoprotein via microRNA-217-5p /chloride intracellular channel 4 axis.
    Title: Circular RNA_0033596 aggravates endothelial cell injury induced by oxidized low-density lipoprotein via microRNA-217-5p /chloride intracellular channel 4 axis.
  8. Detection of Cells Displaying High Expression of CLIC4 in Tumor Tissue of Patients With Colorectal Cancer.
    Title: Detection of Cells Displaying High Expression of CLIC4 in Tumor Tissue of Patients With Colorectal Cancer.
  9. The intracellular chloride channel 4 (CLIC4) activates systemic sclerosis fibroblasts.
    Title: The intracellular chloride channel 4 (CLIC4) activates systemic sclerosis fibroblasts.
  10. Astragaloside IV alleviates atherosclerosis through targeting circ_0000231/miR-135a-5p/CLIC4 axis in AS cell model in vitro.
    Title: Astragaloside IV alleviates atherosclerosis through targeting circ_0000231/miR-135a-5p/CLIC4 axis in AS cell model in vitro.
Submit: New GeneRIF Correction See all GeneRIFs (46)

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

EBI GWAS Catalog

Description
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
EBI GWAS Catalog

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ38640, DKFZp566G223

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables chloride channel activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in angiogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in branching morphogenesis of an epithelial tube IEA
Inferred from Electronic Annotation
more info
  
involved_in cell differentiation TAS
Traceable Author Statement
more info
 PubMed 
involved_in cellular response to calcium ion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
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
  
involved_in chloride transport NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in endothelial cell morphogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in establishment or maintenance of apical/basal cell polarity NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in fertilization IEA
Inferred from Electronic Annotation
more info
  
involved_in keratinocyte differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in multicellular organism growth IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of cell migration IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of cytoskeleton organization NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in retina vasculature morphogenesis in camera-type eye IEA
Inferred from Electronic Annotation
more info
  
involved_in vacuolar acidification IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in actin cytoskeleton TAS
Traceable Author Statement
more info
 PubMed 
located_in apical part of cell IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell-cell junction IDA
Inferred from Direct Assay
more info
 PubMed 
located_in centrosome IDA
Inferred from Direct Assay
more info
 PubMed 
part_of chloride channel complex IEA
Inferred from Electronic Annotation
more info
  
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 cytoplasmic vesicle membrane IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular exosome HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
colocalizes_with microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
 PubMed 
located_in microvillus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in midbody IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrion IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear matrix IDA
Inferred from Direct Assay
more info
 PubMed 
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
chloride intracellular channel protein 4
Names
chloride intracellular channel 4 like
epididymis secretory sperm binding protein
intracellular chloride ion channel protein p64H1

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_013943.3 → NP_039234.1  chloride intracellular channel protein 4

    See identical proteins and their annotated locations for NP_039234.1

    Status: REVIEWED

    Source sequence(s)
    AL662924, BC012444, BQ574968, BQ929781
    Consensus CDS
    CCDS256.1
    UniProtKB/Swiss-Prot
    Q9UFW9, Q9UQJ6, Q9Y696
    UniProtKB/TrEMBL
    A0A024RAH9, B4DWC4, Q6FIC5
    Related
    ENSP00000363500.4, ENST00000374379.9
    Conserved Domains (1) summary
    TIGR00862
    Location:17 → 252
    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    24745447..24844321
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    24582409..24679995
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054335865.1 → XP_054191840.1  chloride intracellular channel protein 4 isoform X1

    UniProtKB/Swiss-Prot
    Q9UFW9, Q9UQJ6, Q9Y696
    UniProtKB/TrEMBL
    A0A024RAH9, Q6FIC5

  2. XM_054335866.1 → XP_054191841.1  chloride intracellular channel protein 4 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Y696.4 GenPept UniProtKB/Swiss-Prot:Q9Y696

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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