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

    Gene ID: 266760, updated on 27-Nov-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 leak channel activity and voltage-gated sodium channel activity. Predicted to be involved in monoatomic cation transmembrane transport; positive regulation of synaptic transmission; and regulation of resting membrane potential. Predicted to be located in membrane. Predicted to be part of monoatomic ion channel complex. Predicted to be active in plasma membrane. 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 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
    • 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 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

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

      Related
      ENSRNOP00000097879.2, ENSRNOT00000096914.2

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

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

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

      UniProtKB/TrEMBL
      F1LMW5

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

      UniProtKB/TrEMBL
      F1LMW5

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

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

    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 [email protected] 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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