scn8aa sodium channel, voltage gated, type VIII, alpha subunit a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: scn8aaprovided by ZNC
Official Full Name: sodium channel, voltage gated, type VIII, alpha subunit aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-000828-1
See related: Ensembl:ENSDARG00000005775 AllianceGenome:ZFIN:ZDB-GENE-000828-1
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: scn8a; Nav1.6
Summary: Enables voltage-gated sodium channel activity. Acts upstream of or within several processes, including mechanosensory behavior; motor neuron axon guidance; and sodium ion transmembrane transport. Predicted to be located in plasma membrane. Predicted to be part of voltage-gated sodium channel complex. Predicted to be active in axon. Is expressed in heart; nervous system; otic vesicle; and trigeminal placode. Human ortholog(s) of this gene implicated in benign familial infantile seizures 5 and developmental and epileptic encephalopathy 13. Orthologous to human SCN8A (sodium voltage-gated channel alpha subunit 8). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 23

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (27248688..27345425, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (27322152..27418917, complement)

Chromosome 23 - NC_007134.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Voltage-gated sodium channel scn8a is required for innervation and regeneration of amputated adult zebrafish fins.
Title: Voltage-gated sodium channel scn8a is required for innervation and regeneration of amputated adult zebrafish fins.
Genetic mapping identifies the gene encoding NaV1.6a (scn8aa) as a potential candidate for nav. NaV1.6a is required for touch-induced activation of the swim locomotor network.
Title: Na(v)1.6a is required for normal activation of motor circuits normally excited by tactile stimulation.
transdifferentiating neurons are increased in number in larvae that have a mutant voltage-gated sodium channel gene, scn8aa.
Title: In vivo evidence for transdifferentiation of peripheral neurons.
Results demonstrate that these four regulatory elements function cooperatively to enhance scn8aa expression in the zebrafish nervous system
Title: Multiple regulatory elements mediating neuronal-specific expression of zebrafish sodium channel gene, scn8aa.
The correctly spliced Na(v)1.6 mRNA of MO3 morphants is 6% relative to that of the wild-type embryos. Na(v)1.6-targeted MO attenuate the spontaneous contraction, tactile sensitivity, and swimming in comparison with a scrambled or mutated morpholino.
Title: Knockdown of zebrafish Nav1.6 sodium channel impairs embryonic locomotor activities.
Nav1.6a knockdown altered axonal morphologies of some but not all motoneurons.
Title: Knockdown of Nav1.6a Na+ channels affects zebrafish motoneuron development.

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General gene information

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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	IDA Inferred from Direct Assay more info	PubMed
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
enables voltage-gated sodium channel activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within larval locomotory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mechanosensory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
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
acts_upstream_of_or_within motor neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within sodium ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
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
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	IC Inferred by Curator more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation 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 VIII, alpha subunit a

Names: sodium channel, voltage-gated, type VIII, alpha a; sodium channel, voltage-gated, type VIII, alpha polypeptide a; zscn4

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)

NM_131628.1 → NP_571703.1 sodium channel, voltage gated, type VIII, alpha subunit a

See identical proteins and their annotated locations for NP_571703.1

Status: PROVISIONAL

Source sequence(s)

AF297658

UniProtKB/TrEMBL

A0A8M1PBS4, Q9DF53

Related

ENSDARP00000024690.9, ENSDART00000022042.10

Conserved Domains (5) summary

cd13433
Location:1434 → 1486

Na_channel_gate; Inactivation gate of the voltage-gated sodium channel alpha subunits

pfam00520
Location:1184 → 1442

Ion_trans; Ion transport protein

pfam06512
Location:960 → 1161

Na_trans_assoc; Sodium ion transport-associated

pfam11933
Location:498 → 604

Na_trans_cytopl; Cytoplasmic domain of voltage-gated Na+ ion channel

cl21478
Location:363 → 456

ATP-synt_B; ATP synthase B/B' CF(0)

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

NC_007134.7 Reference GRCz11 Primary Assembly

Range

27248688..27345425 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068216796.1 → XP_068072897.1 sodium channel, voltage gated, type VIII, alpha subunit a isoform X3

UniProtKB/TrEMBL

A0A8M1PBS4, Q9DF53
XM_068216793.1 → XP_068072894.1 sodium channel, voltage gated, type VIII, alpha subunit a isoform X1

UniProtKB/TrEMBL

A0A8M2B935
XM_068216797.1 → XP_068072898.1 sodium channel, voltage gated, type VIII, alpha subunit a isoform X4

UniProtKB/TrEMBL

A0A8M3AYF6
XM_068216794.1 → XP_068072895.1 sodium channel, voltage gated, type VIII, alpha subunit a isoform X2

UniProtKB/TrEMBL

A0A8M9PT64
XM_068216795.1 → XP_068072896.1 sodium channel, voltage gated, type VIII, alpha subunit a isoform X1

UniProtKB/TrEMBL

A0A8M2B935