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

Gene ID: 338370, updated on 28-Oct-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, Oct 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 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

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