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    Nalcn sodium leak channel, non-selective [ Mus musculus (house mouse) ]

    Gene ID: 338370, updated on 2-Nov-2024

    Summary

    Official Symbol
    Nalcnprovided by MGI
    Official Full Name
    sodium leak channel, non-selectiveprovided by MGI
    Primary source
    MGI:MGI:2444306
    See related
    Ensembl:ENSMUSG00000000197 AllianceGenome:MGI:2444306
    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
    Vgcnl1; A530023G15Rik
    Summary
    Enables leak channel activity and monoatomic cation channel activity. Involved in monoatomic cation transmembrane transport and regulation of resting membrane potential. Predicted to be part of monoatomic ion channel complex. Predicted to be active in plasma membrane. Is expressed in brain and spinal cord gray matter. Human ortholog(s) of this gene implicated in congenital limbs-face contractures-hypotonia-developmental delay syndrome. Orthologous to human NALCN (sodium leak channel, non-selective). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in frontal lobe adult (RPKM 7.8), cerebellum adult (RPKM 7.7) and 8 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Nalcn in Genome Data Viewer
    Location:
    14 E5; 14 66.04 cM
    Exon count:
    47
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (123514046..123864846, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (123275678..123627330, complement)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_37785 Neighboring gene predicted gene, 57613 Neighboring gene STARR-seq mESC enhancer starr_37786 Neighboring gene STARR-seq mESC enhancer starr_37787 Neighboring gene expressed sequence AA536875 Neighboring gene pericentriolar material 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_37789 Neighboring gene STARR-seq mESC enhancer starr_37790 Neighboring gene STARR-seq mESC enhancer starr_37793 Neighboring gene STARR-seq mESC enhancer starr_37794 Neighboring gene predicted gene, 46490 Neighboring gene integrin, beta-like 1 Neighboring gene basic transcription factor 3, pseudogene 4

    Genomic regions, transcripts, and products

    Expression

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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables leak channel activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables monoatomic cation channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables monoatomic cation channel activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables sodium channel activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables voltage-gated sodium channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of monoatomic ion channel complex IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    sodium leak channel NALCN
    Names
    sodium leak channel non-selective protein
    voltage gated channel like 1
    voltage gated channel-like protein 1

    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_177393.4NP_796367.3  sodium leak channel NALCN

      Status: VALIDATED

      Source sequence(s)
      AC124818, AK043071, AK044431, AK143219, CD802755
      Consensus CDS
      CCDS37023.1
      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      UniProtKB/TrEMBL
      E9QLE4
      Related
      ENSMUSP00000000201.6, ENSMUST00000000201.7
      Conserved Domains (1) summary
      PLN03223
      Location:13361451
      PLN03223; Polycystin cation channel protein; Provisional

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      123514046..123864846 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030247866.2XP_030103726.1  sodium leak channel NALCN isoform X5

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:8621136
      Ion_trans; Ion transport protein
    2. XM_011245094.4XP_011243396.1  sodium leak channel NALCN isoform X2

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:8871161
      Ion_trans; Ion transport protein
    3. XM_036158686.1XP_036014579.1  sodium leak channel NALCN isoform X8

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:602876
      Ion_trans; Ion transport protein
    4. XM_036158685.1XP_036014578.1  sodium leak channel NALCN isoform X7

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:8331107
      Ion_trans; Ion transport protein
    5. XM_036158684.1XP_036014577.1  sodium leak channel NALCN isoform X6

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:8781152
      Ion_trans; Ion transport protein
    6. XM_036158682.1XP_036014575.1  sodium leak channel NALCN isoform X3

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:8781152
      Ion_trans; Ion transport protein
    7. XM_036158683.1XP_036014576.1  sodium leak channel NALCN isoform X4

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:9031177
      Ion_trans; Ion transport protein
    8. XM_036158681.1XP_036014574.1  sodium leak channel NALCN isoform X1

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:9031177
      Ion_trans; Ion transport protein
    9. XM_017316066.3XP_017171555.1  sodium leak channel NALCN isoform X9

      Related
      ENSMUST00000228860.2
      Conserved Domains (1) summary
      pfam00520
      Location:9031177
      Ion_trans; Ion transport protein

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_177754.2: Suppressed sequence

      Description
      NM_177754.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.