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    CLCA4 chloride channel accessory 4 [ Homo sapiens (human) ]

    Gene ID: 22802, updated on 8-Jul-2021

    Summary

    Official Symbol
    CLCA4provided by HGNC
    Official Full Name
    chloride channel accessory 4provided by HGNC
    Primary source
    HGNC:HGNC:2018
    See related
    Ensembl:ENSG00000016602 MIM:616857
    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
    CaCC; CaCC2
    Summary
    The protein encoded by this gene belongs to the calcium sensitive chloride conductance protein family. To date, all members of this gene family map to the same site on chromosome 1p31-p22 and share high degrees of homology in size, sequence and predicted structure, but differ significantly in their tissue distributions. Alternative splicing results in multiple transcript variants, only one of which is thought to be protein coding. [provided by RefSeq, Dec 2008]
    Expression
    Biased expression in colon (RPKM 204.3), esophagus (RPKM 195.4) and 1 other tissue See more
    Orthologs
    NEW
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    Genomic context

    See CLCA4 in Genome Data Viewer
    Location:
    1p22.3
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (86547078..86580758)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (87012761..87046437)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378827 Neighboring gene uncharacterized LOC105378826 Neighboring gene cell division cycle associated 4 pseudogene 2 Neighboring gene CLCA4 antisense RNA 1 Neighboring gene chloride channel accessory 3, pseudogene Neighboring gene SH3 domain containing GRB2 like, endophilin B1

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of chloride channel accessory 4 (CLCA4) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120 from both CCR5- and CXCR4-tropic HIV-1 strains opens calcium-activated potassium (K(Ca)), chloride, and calcium-permeant nonselective cation channels in macrophages; these signals are mediated by CCR5 and CXCR4 PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Homology

    Clone Names

    • MGC142247, MGC142249

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables chloride channel activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables intracellular calcium activated chloride channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metalloendopeptidase activity TAS
    Traceable Author Statement
    more info
     
    Process Evidence Code Pubs
    involved_in chloride transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ion transmembrane transport TAS
    Traceable Author Statement
    more info
     
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in apical plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in integral component of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    calcium-activated chloride channel regulator 4
    Names
    caCC-2
    calcium-activated chloride channel family member 4
    calcium-activated chloride channel protein 2
    chloride channel regulator 4
    chloride channel, calcium activated, family member 4
    hCLCA4
    hCaCC-2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_012128.4NP_036260.2  calcium-activated chloride channel regulator 4 precursor

      See identical proteins and their annotated locations for NP_036260.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AY358470, DA761219
      Consensus CDS
      CCDS41355.1
      UniProtKB/Swiss-Prot
      Q14CN2
      Related
      ENSP00000359594.3, ENST00000370563.3
      Conserved Domains (2) summary
      cd00198
      Location:305459
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      pfam08434
      Location:24909
      CLCA; Calcium-activated chloride channel

    RNA

    1. NR_024602.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 5' coding region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK307785, CB851641, DA668017

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

      Range
      86547078..86580758
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011541015.2XP_011539317.1  calcium-activated chloride channel regulator 4 isoform X1

      Conserved Domains (2) summary
      cd00198
      Location:254408
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      pfam08434
      Location:2858
      CLCA; Calcium-activated chloride channel
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