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    Clns1a chloride nucleotide-sensitive channel 1A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 65160, updated on 9-Dec-2024

    Summary

    Official Symbol
    Clns1aprovided by RGD
    Official Full Name
    chloride nucleotide-sensitive channel 1Aprovided by RGD
    Primary source
    RGD:61884
    See related
    EnsemblRapid:ENSRNOG00000012788 AllianceGenome:RGD:61884
    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
    Clci; Icln; Clcni; pICln
    Summary
    Predicted to enable several functions, including lipid binding activity; monoatomic ion channel activity; and splicing factor binding activity. Involved in cell volume homeostasis and chloride transport. Predicted to be located in membrane and nucleoplasm. Predicted to be part of methylosome; pICln-Sm protein complex; and spliceosomal complex. Predicted to be active in cytosol. Orthologous to human CLNS1A (chloride nucleotide-sensitive channel 1A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 280.5), Heart (RPKM 243.4) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Clns1a in Genome Data Viewer
    Location:
    1q32
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (161429437..161450904)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (152019369..152039670)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (162676246..162696549)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene adipogenesis associated, Mth938 domain containing Neighboring gene remodeling and spacing factor 1 Neighboring gene ribosomal protein L35, pseudogene 4 Neighboring gene aquaporin 11 Neighboring gene uncharacterized LOC102550562

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables intracellularly calcium-gated chloride channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipid binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables potassium channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables small molecule binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables splicing factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in cell volume homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell volume homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in chloride transmembrane transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chloride transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in chloride transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA cis splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of cell volume ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in potassium ion transmembrane transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spliceosomal snRNP assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in spliceosomal snRNP assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in spliceosomal snRNP assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spliceosomal snRNP assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of methylosome IEA
    Inferred from Electronic Annotation
    more info
     
    part_of methylosome ISO
    Inferred from Sequence Orthology
    more info
     
    part_of methylosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of pICln-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of pICln-Sm protein complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of pICln-Sm protein complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of pICln-Sm protein complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    methylosome subunit pICln
    Names
    Clns 1a
    chloride channel current inducer
    chloride channel, nucleotide-sensitive, 1A
    chloride conductance regulatory protein ICln
    i(Cln)

    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_031719.2NP_113907.1  methylosome subunit pICln

      See identical proteins and their annotated locations for NP_113907.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q04753
      UniProtKB/TrEMBL
      F7FFE2, Q6P9X1
      Conserved Domains (1) summary
      pfam03517
      Location:40141
      Voldacs; Regulator of volume decrease after cellular swelling

    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_086019.1 Reference GRCr8

      Range
      161429437..161450904
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006229792.3XP_006229854.1  methylosome subunit pICln isoform X1

      See identical proteins and their annotated locations for XP_006229854.1

      UniProtKB/Swiss-Prot
      Q04753
      UniProtKB/TrEMBL
      F7FFE2, Q6P9X1
      Related
      ENSRNOP00000017702.4, ENSRNOT00000017702.8
      Conserved Domains (1) summary
      pfam03517
      Location:40141
      Voldacs; Regulator of volume decrease after cellular swelling