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CLIC6 chloride intracellular channel 6 [ Homo sapiens (human) ]

Gene ID: 54102, updated on 1-Jun-2020

Summary

Official Symbol
CLIC6provided by HGNC
Official Full Name
chloride intracellular channel 6provided by HGNC
Primary source
HGNC:HGNC:2065
See related
Ensembl:ENSG00000159212 MIM:615321
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
CLIC1L
Summary
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]
Expression
Biased expression in stomach (RPKM 24.4), thyroid (RPKM 6.8) and 10 other tissues See more
Orthologs

Genomic context

See CLIC6 in Genome Data Viewer
Location:
21q22.12
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 21 NC_000021.9 (34668953..34718223)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (36041612..36090525)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene potassium voltage-gated channel subfamily E regulatory subunit 1 Neighboring gene VISTA enhancer hs2084 Neighboring gene regulator of calcineurin 1 Neighboring gene uncharacterized LOC107985515 Neighboring gene long intergenic non-protein coding RNA 160 Neighboring gene long intergenic non-protein coding RNA 1426

Genomic regions, transcripts, and products

Expression

  • 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
D2 dopamine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
D3 dopamine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
D4 dopamine receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chloride channel activity IEA
Inferred from Electronic Annotation
more info
 
voltage-gated ion channel activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
chloride transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
regulation of ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
chloride channel complex IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
chloride intracellular channel protein 6
Names
chloride channel form A
parchorin

NCBI Reference Sequences (RefSeq)

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_001317009.2NP_001303938.1  chloride intracellular channel protein 6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AF448439, AK289663, AP000330, BC040196, CA442589
    Consensus CDS
    CCDS82669.1
    UniProtKB/Swiss-Prot
    Q96NY7
    Related
    ENSP00000353959.3, ENST00000360731.7
    Conserved Domains (3) summary
    TIGR00862
    Location:471704
    O-ClC; intracellular chloride channel protein
    cd10301
    Location:563702
    GST_C_CLIC6; C-terminal, alpha helical domain of Chloride Intracellular Channel 6
    cd03061
    Location:471556
    GST_N_CLIC; GST_N family, Chloride Intracellular Channel (CLIC) subfamily; composed of CLIC1-5, p64, parchorin and similar proteins. They are auto-inserting, self-assembling intracellular anion channels involved in a wide variety of functions including regulated ...
  2. NM_053277.3NP_444507.1  chloride intracellular channel protein 6 isoform 2

    See identical proteins and their annotated locations for NP_444507.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AF448438, AK289663, AP000330, BC040196, CA442589
    Consensus CDS
    CCDS13638.1
    UniProtKB/Swiss-Prot
    Q96NY7
    Related
    ENSP00000290332.4, ENST00000349499.2
    Conserved Domains (4) summary
    TIGR00862
    Location:453686
    O-ClC; intracellular chloride channel protein
    cd10301
    Location:545684
    GST_C_CLIC6; C-terminal, alpha helical domain of Chloride Intracellular Channel 6
    PRK07764
    Location:2420
    PRK07764; DNA polymerase III subunits gamma and tau; Validated
    cd03061
    Location:450538
    GST_N_CLIC; GST_N family, Chloride Intracellular Channel (CLIC) subfamily; composed of CLIC1-5, p64, parchorin and similar proteins. They are auto-inserting, self-assembling intracellular anion channels involved in a wide variety of functions including regulated ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000021.9 Reference GRCh38.p13 Primary Assembly

    Range
    34668953..34718223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017028406.1XP_016883895.1  chloride intracellular channel protein 6 isoform X1

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