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Nalcn sodium leak channel, non-selective [ Rattus norvegicus (Norway rat) ]

Gene ID: 266760, updated on 18-Sep-2024

Summary

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Official Symbol
Nalcnprovided by RGD
Official Full Name
sodium leak channel, non-selectiveprovided by RGD
Primary source
RGD:628710
See related
EnsemblRapid:ENSRNOG00000004752 AllianceGenome:RGD:628710
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Vgcnl1
Summary
Predicted to enable cation channel activity and leak channel activity. Predicted to be involved in inorganic cation transmembrane transport and regulation of resting membrane potential. Predicted to be integral component of membrane. Orthologous to human NALCN (sodium leak channel, non-selective). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 240.7) and Adrenal (RPKM 46.2) See more
Orthologs
human mouse all
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Genomic context

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See Nalcn in Genome Data Viewer
Location:
15q25
Exon count:
47
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (106805209..107148837, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (100398583..100741243, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (109734092..110046729, complement)

Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA44 Neighboring gene transmembrane O-mannosyltransferase targeting cadherins 4 Neighboring gene U6atac minor spliceosomal RNA Neighboring gene integrin subunit beta like 1 Neighboring gene small nucleolar RNA SNORA17

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Bibliography

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Related articles in PubMed

  1. Cloning of a novel four repeat protein related to voltage-gated sodium and calcium channels. Lee JH, et al. FEBS Lett, 1999 Feb 26. PMID 10094463
  2. Structure of voltage-modulated sodium-selective NALCN-FAM155A channel complex. Kang Y, et al. Nat Commun, 2020 Dec 3. PMID 33273469, Free PMC Article
  3. Mutations in NALCN cause an autosomal-recessive syndrome with severe hypotonia, speech impairment, and cognitive delay. Al-Sayed MD, et al. Am J Hum Genet, 2013 Oct 3. PMID 24075186, Free PMC Article
  4. Recessive truncating NALCN mutation in infantile neuroaxonal dystrophy with facial dysmorphism. Köroğlu Ç, et al. J Med Genet, 2013 Aug. PMID 23749988
  5. The neuronal channel NALCN contributes resting sodium permeability and is required for normal respiratory rhythm. Lu B, et al. Cell, 2007 Apr 20. PMID 17448995

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Structure of voltage-modulated sodium-selective NALCN-FAM155A channel complex.
    Title: Structure of voltage-modulated sodium-selective NALCN-FAM155A channel complex.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables leak channel activity ISO
Inferred from Sequence Orthology
more info
  
enables leak channel activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables monoatomic cation channel activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables monoatomic cation channel activity IEA
Inferred from Electronic Annotation
more info
  
enables monoatomic cation channel activity ISO
Inferred from Sequence Orthology
more info
  
enables monoatomic cation channel activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables voltage-gated sodium channel activity IEA
Inferred from Electronic Annotation
more info
  
enables voltage-gated sodium channel activity ISO
Inferred from Sequence Orthology
more info
  
enables voltage-gated sodium channel activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in calcium ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in calcium ion transmembrane transport ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in metal ion transport IEA
Inferred from Electronic Annotation
more info
  
involved_in monoatomic cation transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
involved_in potassium ion transmembrane transport ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of resting membrane potential ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of resting membrane potential ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in sodium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in sodium ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in sodium ion transmembrane transport ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
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
brain voltage-gated cation channel
four domain-type voltage-gated ion channel alpha-1 subunit
rb21-channel
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_001393693.1 → NP_001380622.1  sodium leak channel NALCN isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015
    UniProtKB/TrEMBL
    B1N8Y4, F1LMW5
    Related
    ENSRNOP00000006624.7, ENSRNOT00000006624.9
    Conserved Domains (1) summary
    PLN03223
    Location:1336 → 1451
    PLN03223; Polycystin cation channel protein; Provisional

  2. NM_001393694.1 → NP_001380623.1  sodium leak channel NALCN isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015
    UniProtKB/Swiss-Prot
    Q6Q760, Q9Z165
    UniProtKB/TrEMBL
    A6HUN0
    Related
    ENSRNOP00000069957.2, ENSRNOT00000089695.3
    Conserved Domains (1) summary
    pfam00520
    Location:887 → 1161
    Ion_trans; Ion transport protein

  3. NM_001393695.1 → NP_001380624.1  sodium leak channel NALCN isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015
    UniProtKB/TrEMBL
    B2BF51
    Conserved Domains (1) summary
    PLN03223
    Location:1311 → 1426
    PLN03223; Polycystin cation channel protein; Provisional

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_086033.1 Reference GRCr8

    Range
    106805209..107148837 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063274044.1 → XP_063130114.1  sodium leak channel NALCN isoform X6

    UniProtKB/TrEMBL
    B2BF51

  2. XM_063274043.1 → XP_063130113.1  sodium leak channel NALCN isoform X5

    UniProtKB/Swiss-Prot
    Q6Q760, Q9Z165
    Related
    ENSRNOP00000097879.2, ENSRNOT00000096914.2

  3. XM_063274040.1 → XP_063130110.1  sodium leak channel NALCN isoform X2

    UniProtKB/TrEMBL
    B1N8Y4

  4. XM_063274041.1 → XP_063130111.1  sodium leak channel NALCN isoform X3

    UniProtKB/TrEMBL
    F1LS19

  5. XM_063274038.1 → XP_063130108.1  sodium leak channel NALCN isoform X1

    UniProtKB/TrEMBL
    B1N8Y4, F1LMW5

  6. XM_063274039.1 → XP_063130109.1  sodium leak channel NALCN isoform X1

    UniProtKB/TrEMBL
    B1N8Y4, F1LMW5

  7. XM_063274042.1 → XP_063130112.1  sodium leak channel NALCN isoform X4

    UniProtKB/TrEMBL
    B1N8Y4

  8. XM_063274045.1 → XP_063130115.1  sodium leak channel NALCN isoform X7

    UniProtKB/TrEMBL
    B1N8Y4

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_153630.1: Suppressed sequence

    Description
    NM_153630.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6Q760.1 GenPept UniProtKB/Swiss-Prot:Q6Q760

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