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    Clcc1 chloride channel CLIC-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 170927, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Clcc1provided by RGD
    Official Full Name
    chloride channel CLIC-like 1provided by RGD
    Primary source
    RGD:708359
    See related
    Ensembl:ENSRNOG00000020360 AllianceGenome:RGD:708359
    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
    Mclc
    Summary
    Enables chloride channel activity. Involved in chloride transport. Located in cytoplasm and nucleus. Colocalizes with Golgi apparatus and endoplasmic reticulum. Human ortholog(s) of this gene implicated in retinitis pigmentosa 32. Orthologous to human CLCC1 (chloride channel CLIC like 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 83.1), Adrenal (RPKM 79.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clcc1 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (198984455..199015015)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (196296350..196326914)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (211450426..211479885)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene TATA-box binding protein associated factor 13 Neighboring gene WD repeat domain 47 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene G-protein signaling modulator 2 Neighboring gene AKNA domain containing 1 Neighboring gene uncharacterized LOC102547393

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Identification of a novel chloride channel expressed in the endoplasmic reticulum, golgi apparatus, and nucleus. Nagasawa M, et al. J Biol Chem, 2001 Jun 8. PMID 11279057
    2. Regulation of the ER stress response by a mitochondrial microprotein. Chu Q, et al. Nat Commun, 2019 Oct 25. PMID 31653868, Free PMC Article
    3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    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 chloride channel activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chloride transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chloride transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of chloride channel complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondria-associated endoplasmic reticulum membrane contact site IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondria-associated endoplasmic reticulum membrane contact site ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondria-associated endoplasmic reticulum membrane contact site ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    NOT located_in mitochondrion NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in nuclear membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chloride channel CLIC-like protein 1
    Names
    Mid-1-related chloride channel 1
    mid-1-related chloride channel protein 1

    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_133414.2 → NP_596905.2  chloride channel CLIC-like protein 1 precursor

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/Swiss-Prot
      Q66HQ5, Q8VIE8, Q8VIE9, Q8VIF0, Q8VIF1, Q9WU61
      UniProtKB/TrEMBL
      A0A140TAF5, A6HV18
      Conserved Domains (1) summary
      pfam05934
      Location:14 → 541
      MCLC; Mid-1-related chloride channel (MCLC)

    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
      198984455..199015015
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281217.1 → XP_063137287.1  chloride channel CLIC-like protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A140TAF5, A6HV18

    2. XM_006233128.5 → XP_006233190.1  chloride channel CLIC-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006233190.1

      UniProtKB/Swiss-Prot
      Q66HQ5, Q8VIE8, Q8VIE9, Q8VIF0, Q8VIF1, Q9WU61
      UniProtKB/TrEMBL
      A0A140TAF5, A6HV18
      Related
      ENSRNOP00000042185.3
      Conserved Domains (1) summary
      pfam05934
      Location:14 → 541
      MCLC; Mid-1-related chloride channel (MCLC)

    3. XM_017590597.3 → XP_017446086.1  chloride channel CLIC-like protein 1 isoform X2

      UniProtKB/TrEMBL
      A6HV21, A6HV24
      Conserved Domains (1) summary
      pfam05934
      Location:14 → 393
      MCLC; Mid-1-related chloride channel (MCLC)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9WU61.1 GenPept UniProtKB/Swiss-Prot:Q9WU61

    Gene LinkOut

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

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