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scn1laa sodium channel, voltage-gated, type I-like, alpha [ Danio rerio (zebrafish) ]

Gene ID: 393101, updated on 12-Sep-2024

Summary

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Official Symbol
scn1laaprovided by ZNC
Official Full Name
sodium channel, voltage-gated, type I-like, alphaprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-751
See related
Ensembl:ENSDARG00000086819 AllianceGenome:ZFIN:ZDB-GENE-040426-751
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
scn1a; zscn8; Nav1.1; zgc:55600; unm_sa1674; zgc:158596
Summary
Contributes to voltage-gated sodium channel activity. Predicted to be involved in membrane depolarization during action potential; neuronal action potential; and sodium ion transmembrane transport. Predicted to act upstream of or within regulation of ion transmembrane transport; sodium ion transport; and transmembrane transport. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be part of voltage-gated sodium channel complex. Predicted to be active in axon. Is expressed in heart; nervous system; and neural tube. Used to study Dravet syndrome. Human ortholog(s) of this gene implicated in epilepsy (multiple); episodic ataxia; erythromelalgia; familial hemiplegic migraine 3; and paroxysmal extreme pain disorder. Orthologous to several human genes including SCN1A (sodium voltage-gated channel alpha subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See scn1laa in Genome Data Viewer
Location:
chromosome: 9
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (49905467..50001472, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (50208642..50304215, complement)

Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene tetratricopeptide repeat domain 21B Neighboring gene uncharacterized LOC137496435 Neighboring gene solute carrier family 38 member 11 Neighboring gene cordon-bleu WH2 repeat protein-like 1b Neighboring gene growth factor receptor-bound protein 14

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. SCN1A overexpression, associated with a genomic region marked by a risk variant for a common epilepsy, raises seizure susceptibility. Silvennoinen K, et al. Acta Neuropathol, 2022 Jul. PMID 35551471, Free PMC Article
  2. Genetic and Functional Differences between Duplicated Zebrafish Genes for Human SCN1A. Weuring WJ, et al. Cells, 2022 Jan 28. PMID 35159264, Free PMC Article
  3. Developmental, molecular, and genetic dissection of INa in vivo in embryonic zebrafish sensory neurons. Pineda RH, et al. J Neurophysiol, 2005 Jun. PMID 15673553
  4. Molecular components underlying nongenomic thyroid hormone signaling in embryonic zebrafish neurons. Yonkers MA, et al. Neural Dev, 2009 Jun 8. PMID 19505305, Free PMC Article
  5. Clemizole and modulators of serotonin signalling suppress seizures in Dravet syndrome. Griffin A, et al. Brain, 2017 Mar 1. PMID 28073790, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SCN1A overexpression, associated with a genomic region marked by a risk variant for a common epilepsy, raises seizure susceptibility.
    Title: SCN1A overexpression, associated with a genomic region marked by a risk variant for a common epilepsy, raises seizure susceptibility.
  2. Genetic and Functional Differences between Duplicated Zebrafish Genes for Human SCN1A.
    Title: Genetic and Functional Differences between Duplicated Zebrafish Genes for Human SCN1A.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Clone Names

  • MGC55600

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables monoatomic cation channel activity IEA
Inferred from Electronic Annotation
more info
  
enables monoatomic ion channel activity IEA
Inferred from Electronic Annotation
more info
  
enables sodium channel activity IEA
Inferred from Electronic Annotation
more info
  
enables voltage-gated sodium channel activity IEA
Inferred from Electronic Annotation
more info
  
contributes_to voltage-gated sodium channel activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Process Evidence Code Pubs
involved_in membrane depolarization during action potential IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within monoatomic ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within monoatomic ion transport IEA
Inferred from Electronic Annotation
more info
  
involved_in neuronal action potential IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within sodium ion transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
part_of monoatomic ion channel complex IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
part_of voltage-gated sodium channel complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of voltage-gated sodium channel complex IC
Inferred by Curator
more info
 PubMed 
part_of voltage-gated sodium channel complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sodium channel, voltage-gated, type I-like, alpha
Names
sodium channel, voltage-gated, type I, alpha subunit
voltage-gated sodium channel type I alpha subunit Nav1.1La

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_200132.2 → NP_956426.2  sodium channel, voltage-gated, type I-like, alpha

    See identical proteins and their annotated locations for NP_956426.2

    Status: PROVISIONAL

    Source sequence(s)
    DQ149503
    UniProtKB/TrEMBL
    Q20JQ9
    Related
    ENSDARP00000138437.2, ENSDART00000170814.2
    Conserved Domains (5) summary
    cd13433
    Location:1430 → 1482
    Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits
    pfam00520
    Location:1184 → 1438
    Ion_trans; Ion transport protein
    pfam06512
    Location:972 → 1161
    Na_trans_assoc; Sodium ion transport-associated
    pfam11933
    Location:483 → 594
    Na_trans_cytopl; Cytoplasmic domain of voltage-gated Na+ ion channel
    pfam16905
    Location:1752 → 1801
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007120.7 Reference GRCz11 Primary Assembly

    Range
    49905467..50001472 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068223345.1 → XP_068079446.1  sodium channel, voltage-gated, type I-like, alpha isoform X2

  2. XM_017357661.3 → XP_017213150.1  sodium channel, voltage-gated, type I-like, alpha isoform X1

    UniProtKB/TrEMBL
    A0A0R4IQT2, A0A0R4IUM7, A0A8M6Z2I4
    Related
    ENSDARP00000137025.2, ENSDART00000161648.3
    Conserved Domains (5) summary
    cd13433
    Location:1430 → 1482
    Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits
    pfam00520
    Location:1184 → 1438
    Ion_trans; Ion transport protein
    pfam06512
    Location:972 → 1161
    Na_trans_assoc; Sodium ion transport-associated
    pfam11933
    Location:483 → 594
    Na_trans_cytopl; Cytoplasmic domain of voltage-gated Na+ ion channel
    pfam16905
    Location:1752 → 1801
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
Nucleotide Protein Strain
Heading Accession and Version

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