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Scn1b sodium voltage-gated channel beta subunit 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29686, updated on 4-Jan-2025

Summary

Official Symbol
Scn1bprovided by RGD
Official Full Name
sodium voltage-gated channel beta subunit 1provided by RGD
Primary source
RGD:3631
See related
EnsemblRapid:ENSRNOG00000021102 AllianceGenome:RGD:3631
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
Summary
Enables sodium channel regulator activity. Involved in regulation of voltage-gated sodium channel activity and response to pyrethroid. Located in node of Ranvier and plasma membrane. Part of voltage-gated sodium channel complex. Biomarker of type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Brugada syndrome 5; developmental and epileptic encephalopathy 52; familial atrial fibrillation; and generalized epilepsy with febrile seizures plus 1. Orthologous to human SCN1B (sodium voltage-gated channel beta subunit 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Muscle (RPKM 1959.3), Brain (RPKM 716.3) and 2 other tissues See more
Orthologs
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Genomic context

See Scn1b in Genome Data Viewer
Location:
1q21
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (95481298..95491211, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (86353917..86363820, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (89550738..89560469, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483096 Neighboring gene hepsin Neighboring gene GRAM domain containing 1A Neighboring gene uncharacterized LOC108349560

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

General gene information

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein binding PubMed 
enables sodium channel inhibitor activity  
enables sodium channel inhibitor activity  
enables sodium channel inhibitor activity  
enables sodium channel regulator activity PubMed 
NOT enables sodium channel regulator activity  
enables sodium channel regulator activity  
enables transmembrane transporter binding  
Items 1 - 25 of 40
Process Evidence Code Pubs
acts_upstream_of_or_within axon guidance  
involved_in cardiac conduction  
involved_in cardiac muscle cell action potential involved in contraction  
involved_in cardiac muscle cell action potential involved in contraction  
involved_in cardiac muscle cell action potential involved in contraction  
involved_in cardiac muscle contraction  
involved_in corticospinal neuron axon guidance  
acts_upstream_of_or_within corticospinal neuron axon guidance  
involved_in locomotion  
acts_upstream_of_or_within locomotion  
involved_in membrane depolarization  
involved_in membrane depolarization during Purkinje myocyte cell action potential  
involved_in membrane depolarization during Purkinje myocyte cell action potential  
involved_in membrane depolarization during action potential  
involved_in membrane depolarization during cardiac muscle cell action potential  
involved_in membrane depolarization during cardiac muscle cell action potential  
acts_upstream_of neuron projection development  
involved_in neuronal action potential propagation  
acts_upstream_of_or_within neuronal action potential propagation  
involved_in positive regulation of neuron projection development  
acts_upstream_of_or_within positive regulation of neuron projection development  
involved_in positive regulation of sodium ion transport  
involved_in positive regulation of sodium ion transport  
involved_in positive regulation of voltage-gated sodium channel activity  
involved_in positive regulation of voltage-gated sodium channel activity  
involved_in regulation of atrial cardiac muscle cell membrane depolarization  
involved_in regulation of atrial cardiac muscle cell membrane depolarization  
involved_in regulation of heart rate by cardiac conduction  
involved_in regulation of heart rate by cardiac conduction  
involved_in regulation of heart rate by cardiac conduction  
involved_in regulation of sodium ion transmembrane transport  
involved_in regulation of sodium ion transport PubMed 
involved_in regulation of sodium ion transport  
involved_in regulation of ventricular cardiac muscle cell membrane repolarization  
involved_in regulation of ventricular cardiac muscle cell membrane repolarization  
involved_in regulation of voltage-gated sodium channel activity PubMed 
involved_in response to pyrethroid PubMed 
involved_in sodium ion transmembrane transport  
involved_in sodium ion transmembrane transport  
involved_in sodium ion transmembrane transport  
Items 1 - 25 of 40
Component Evidence Code Pubs
located_in T-tubule  
located_in T-tubule  
located_in intercalated disc  
located_in intercalated disc  
located_in node of Ranvier PubMed 
located_in node of Ranvier  
located_in node of Ranvier  
located_in perikaryon  
located_in plasma membrane PubMed 
is_active_in plasma membrane  
located_in plasma membrane  
located_in plasma membrane  
part_of sodium channel complex  
part_of voltage-gated sodium channel complex  
part_of voltage-gated sodium channel complex PubMed 
part_of voltage-gated sodium channel complex  
part_of voltage-gated sodium channel complex  

General protein information

Preferred Names
sodium channel regulatory subunit beta-1; sodium channel subunit beta-1
Names
sodium channel, voltage-gated, type 1, beta polypeptide
sodium channel, voltage-gated, type I, beta polypeptide
sodium channel, voltage-gated, type I, beta subunit

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_001271045.2 → NP_001257974.1  sodium channel regulatory subunit beta-1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001257974.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) and variant 2 encode the longer isoform (1).
    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    Q00954, Q505J0
    UniProtKB/TrEMBL
    A0A0G2JXY6, A6JA73
    Conserved Domains (2) summary
    pfam07686
    Location:23 → 147
    V-set; Immunoglobulin V-set domain
    cd00096
    Location:26 → 32
    Ig; Ig strand A' [structural motif]
  2. NM_001271046.2 → NP_001257975.1  sodium channel regulatory subunit beta-1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A0G2JXY6
    Related
    ENSRNOP00000070450.2, ENSRNOT00000092133.3
    Conserved Domains (2) summary
    cd00096
    Location:22 → 25
    Ig; Ig strand C [structural motif]
    pfam07686
    Location:8 → 114
    V-set; Immunoglobulin V-set domain
  3. NM_017288.3 → NP_058984.1  sodium channel regulatory subunit beta-1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_058984.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal segment in the 3' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    Q00954, Q505J0
    UniProtKB/TrEMBL
    A0A0G2JXY6, A6JA73
    Related
    ENSRNOP00000028653.2, ENSRNOT00000028653.7
    Conserved Domains (2) summary
    pfam07686
    Location:23 → 147
    V-set; Immunoglobulin V-set domain
    cd00096
    Location:26 → 32
    Ig; Ig strand A' [structural motif]

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_086019.1 Reference GRCr8

    Range
    95481298..95491211 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063287840.1 → XP_063143910.1  sodium channel subunit beta-1 isoform X1

    UniProtKB/TrEMBL
    Q9QXU3
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