U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Clca5 chloride channel accessory 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362052, updated on 11-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Clca5provided by RGD
    Official Full Name
    chloride channel accessory 5provided by RGD
    Primary source
    RGD:621100
    See related
    Ensembl:ENSRNOG00000013334 AllianceGenome:RGD:621100
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    CLCA; Clca2; Clca4; rbCLCA
    Summary
    Predicted to enable intracellular calcium activated chloride channel activity. Predicted to be involved in chloride transport and proteolysis. Predicted to be integral component of plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 27.0), Thymus (RPKM 12.9) and 4 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    2q44
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (236456923..236479220, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (233796569..233818867, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (250755976..250778269, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120100963 Neighboring gene SH3 domain -containing GRB2-like endophilin B1 Neighboring gene uncharacterized LOC134478851 Neighboring gene chloride channel calcium activated 4-like Neighboring gene uncharacterized LOC102549543

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Characterization of CLCA protein expressed in ductal cells of rat salivary glands. Yamazaki J, et al. Biochim Biophys Acta, 2005 Sep 15. PMID 16137643
    2. Cloning and expression of Ca2+-activated chloride channel from rat brain. Jeong SM, et al. Biochem Biophys Res Commun, 2005 Aug 26. PMID 16023076
    3. CLCA splicing isoform associated with adhesion through β1-integrin and its scaffolding protein: specific expression in undifferentiated epithelial cells. Yamazaki J, et al. J Biol Chem, 2013 Feb 15. PMID 23297403, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CLCA splicing isoform is associated with adhesion through beta1-integrin and its scaffolding protein
      Title: CLCA splicing isoform associated with adhesion through β1-integrin and its scaffolding protein: specific expression in undifferentiated epithelial cells.
    2. We successfully cloned a rat brain CLCA (rbCLCA).
      Title: Cloning and expression of Ca2+-activated chloride channel from rat brain.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables intracellularly calcium-gated chloride channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metallopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chloride transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    chloride channel accessory 5
    Names
    Ca(2+)-activated chloride channel splicing
    calcium activated chloride channel
    chloride channel calcium activated 2
    chloride channel calcium activated 4

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001013202.2 → NP_001013220.1  chloride channel accessory 5 precursor

      See identical proteins and their annotated locations for NP_001013220.1

      Status: PROVISIONAL

      Source sequence(s)
      AB119249
      UniProtKB/TrEMBL
      Q4H2C5, Q75ZI5
      Related
      ENSRNOP00000017824.5, ENSRNOT00000017824.6
      Conserved Domains (3) summary
      TIGR00868
      Location:1 → 866
      hCaCC; calcium-activated chloride channel protein 1
      cd00198
      Location:307 → 461
      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 ...
      cl19929
      Location:529 → 569
      A2M_N; MG2 domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086020.1 Reference GRCr8

      Range
      236456923..236479220 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282229.1 → XP_063138299.1  chloride channel accessory 5 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous