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    Clns1a chloride channel, nucleotide-sensitive, 1A [ Mus musculus (house mouse) ]

    Gene ID: 12729, updated on 9-Dec-2024

    Summary

    Official Symbol
    Clns1aprovided by MGI
    Official Full Name
    chloride channel, nucleotide-sensitive, 1Aprovided by MGI
    Primary source
    MGI:MGI:109638
    See related
    Ensembl:ENSMUSG00000025439 AllianceGenome:MGI:109638
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Clci; ICLN; Clcni; 2610036D06Rik; 2610100O04Rik
    Summary
    Involved in negative regulation of cell volume. Predicted to be located in nucleoplasm. Predicted to be part of methylosome; pICln-Sm protein complex; and spliceosomal complex. Predicted to be active in cytosol. Is expressed in several structures, including brain; genitourinary system; liver; lung; and spleen. Orthologous to human CLNS1A (chloride nucleotide-sensitive channel 1A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 20.0), CNS E14 (RPKM 15.6) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Clns1a in Genome Data Viewer
    Location:
    7 E1; 7 53.57 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (97345864..97370000)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (97696657..97720793)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_19602 Neighboring gene remodeling and spacing factor 1 Neighboring gene remodeling and spacing factor 1, opposite strand 1 Neighboring gene STARR-positive B cell enhancer mm9_chr7:104787388-104787688 Neighboring gene STARR-seq mESC enhancer starr_19603 Neighboring gene remodeling and spacing factor 1, opposite strand 2 Neighboring gene STARR-positive B cell enhancer ABC_E11361 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104870902-104871089 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104872316-104872580 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104879154-104879355 Neighboring gene STARR-seq mESC enhancer starr_19606 Neighboring gene aquaporin 11 Neighboring gene STARR-seq mESC enhancer starr_19609 Neighboring gene p21 (RAC1) activated kinase 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (1)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in cell volume homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chloride transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chloride transport ISO
    Inferred from Sequence Orthology
    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 IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of mRNA splicing, via spliceosome NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in spliceosomal snRNP assembly IBA
    Inferred from Biological aspect of Ancestor
    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
     
    involved_in spliceosomal snRNP assembly NAS
    Non-traceable Author Statement
    more info
    PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of pICln-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    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 spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    methylosome subunit pICln
    Names
    chloride channel current inducer
    chloride channel regulator
    chloride conductance regulatory protein ICln
    chloride ion current inducer protein
    i(Cln)

    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_023671.2NP_076160.1  methylosome subunit pICln

      See identical proteins and their annotated locations for NP_076160.1

      Status: VALIDATED

      Source sequence(s)
      AC151477, AK169259, CX236388
      Consensus CDS
      CCDS21462.1
      UniProtKB/Swiss-Prot
      Q61189
      UniProtKB/TrEMBL
      Q923F1
      Related
      ENSMUSP00000026506.5, ENSMUST00000026506.5
      Conserved Domains (1) summary
      pfam03517
      Location:40141
      Voldacs; Regulator of volume decrease after cellular swelling

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      97345864..97370000
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)