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

    Gene ID: 338370, updated on 9-Dec-2024

    Summary

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    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, Dec 2024]
    Expression
    Biased expression in frontal lobe adult (RPKM 7.8), cerebellum adult (RPKM 7.7) and 8 other tissues See more
    Orthologs
    human all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. The Na(+) leak channel NALCN controls spontaneous activity and mediates synaptic modulation by α2-adrenergic receptors in auditory neurons. Ngodup T, et al. Elife, 2024 Jan 10. PMID 38197879, Free PMC Article
    2. The NALCN ion channel is a new actor in pancreatic β-cell physiology. Swayne LA, et al. Islets, 2010 Jan-Feb. PMID 21099296
    3. Genetic analysis of mouse strains with variable serum sodium concentrations identifies the Nalcn sodium channel as a novel player in osmoregulation. Sinke AP, et al. Physiol Genomics, 2011 Mar 16. PMID 21177381, Free PMC Article
    4. Involvement of Na(+)-leak channel in substance P-induced depolarization of pacemaking activity in interstitial cells of Cajal. Kim BJ, et al. Cell Physiol Biochem, 2012. PMID 22508057, Free PMC Article
    5. Sodium leak channel contributes to neuronal sensitization in neuropathic pain. Zhang D, et al. Prog Neurobiol, 2021 Jul. PMID 33766679

    See all (36) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Na[+] leak channel NALCN controls spontaneous activity and mediates synaptic modulation by alpha2-adrenergic receptors in auditory neurons.
      Title: The Na(+) leak channel NALCN controls spontaneous activity and mediates synaptic modulation by α2-adrenergic receptors in auditory neurons.
    2. Contributions of the Sodium Leak Channel NALCN to Pacemaking of Medial Ventral Tegmental Area and Substantia Nigra Dopaminergic Neurons.
      Title: Contributions of the Sodium Leak Channel NALCN to Pacemaking of Medial Ventral Tegmental Area and Substantia Nigra Dopaminergic Neurons.
    3. Loss of sodium leak channel (NALCN) in the ventral dentate gyrus impairs neuronal activity of the glutamatergic neurons for inflammation-induced depression in male mice.
      Title: Loss of sodium leak channel (NALCN) in the ventral dentate gyrus impairs neuronal activity of the glutamatergic neurons for inflammation-induced depression in male mice.
    4. The NALCN channel regulates metastasis and nonmalignant cell dissemination.
      Title: The NALCN channel regulates metastasis and nonmalignant cell dissemination.
    5. TRPC3 and NALCN channels drive pacemaking in substantia nigra dopaminergic neurons.
      Title: TRPC3 and NALCN channels drive pacemaking in substantia nigra dopaminergic neurons.
    6. Intellectual disability-associated UNC80 mutations reveal inter-subunit interaction and dendritic function of the NALCN channel complex.
      Title: Intellectual disability-associated UNC80 mutations reveal inter-subunit interaction and dendritic function of the NALCN channel complex.
    7. PRMT7-mediated NALCN inhibition provides a potential target for the development of therapeutic tools for neurological diseases
      Title: Methylation determines the extracellular calcium sensitivity of the leak channel NALCN in hippocampal dentate granule cells.
    8. NALCN has been identified as a core effector of inhibitory G protein-coupled receptors.
      Title: G(i/o) protein-coupled receptors in dopamine neurons inhibit the sodium leak channel NALCN.
    9. The authors discovered that substantia nigra pars reticulata neurons express the sodium leak channel, NALCN, and that neurons lacking NALCN have impaired spontaneous firing. In addition, NALCN is involved in the modulation of excitability by changes in glycolysis and by activation of muscarinic acetylcholine receptors.
      Title: The leak channel NALCN controls tonic firing and glycolytic sensitivity of substantia nigra pars reticulata neurons.
    10. We show here that Nalcn, a unique channel that generates "leak" sodium currents, regulates excitability and neuromodulation of RTN neurons and CO2-stimulated breathing. Thus, this work defines a specific function for this enigmatic channel in an important physiological context.
      Title: Nalcn Is a "Leak" Sodium Channel That Regulates Excitability of Brainstem Chemosensory Neurons and Breathing.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    Variation

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    Alleles

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

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    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
    		  
    Process Evidence Code Pubs
    involved_in calcium ion transmembrane transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of synaptic transmission, GABAergic IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of synaptic transmission, cholinergic IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in potassium ion transmembrane transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of resting membrane potential IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in sodium ion transmembrane transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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

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    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)

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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_177393.4 → NP_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:1336 → 1451
      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_030247866.2 → XP_030103726.1  sodium leak channel NALCN isoform X5

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:862 → 1136
      Ion_trans; Ion transport protein

    2. XM_011245094.4 → XP_011243396.1  sodium leak channel NALCN isoform X2

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:887 → 1161
      Ion_trans; Ion transport protein

    3. XM_036158686.1 → XP_036014579.1  sodium leak channel NALCN isoform X8

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:602 → 876
      Ion_trans; Ion transport protein

    4. XM_036158685.1 → XP_036014578.1  sodium leak channel NALCN isoform X7

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:833 → 1107
      Ion_trans; Ion transport protein

    5. XM_036158684.1 → XP_036014577.1  sodium leak channel NALCN isoform X6

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:878 → 1152
      Ion_trans; Ion transport protein

    6. XM_036158682.1 → XP_036014575.1  sodium leak channel NALCN isoform X3

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:878 → 1152
      Ion_trans; Ion transport protein

    7. XM_036158683.1 → XP_036014576.1  sodium leak channel NALCN isoform X4

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:903 → 1177
      Ion_trans; Ion transport protein

    8. XM_036158681.1 → XP_036014574.1  sodium leak channel NALCN isoform X1

      UniProtKB/Swiss-Prot
      Q8BXR5, Q8BYM2
      Conserved Domains (1) summary
      pfam00520
      Location:903 → 1177
      Ion_trans; Ion transport protein

    9. XM_017316066.3 → XP_017171555.1  sodium leak channel NALCN isoform X9

      Related
      ENSMUST00000228860.2
      Conserved Domains (1) summary
      pfam00520
      Location:903 → 1177
      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.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BXR5.2 GenPept UniProtKB/Swiss-Prot:Q8BXR5

    Gene LinkOut

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

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