Gabra6 gamma-aminobutyric acid type A receptor subunit alpha6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Gabra6provided by RGD
Official Full Name: gamma-aminobutyric acid type A receptor subunit alpha6provided by RGD
Primary source: RGD:61861
See related: EnsemblRapid:ENSRNOG00000003569 AllianceGenome:RGD:61861
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 diazepam binding activity; heterocyclic compound binding activity; and inhibitory extracellular ligand-gated monoatomic ion channel activity. Contributes to GABA-A receptor activity; GABA-gated chloride ion channel activity; and benzodiazepine receptor activity. Involved in GABAergic synaptic transmission and response to ethanol. Located in dendrite; neuronal cell body membrane; and synaptic membrane. Part of receptor complex. Is active in several cellular components, including cerebellar Golgi cell to granule cell synapse; hippocampal mossy fiber to CA3 synapse; and postsynaptic specialization membrane. Used to study obesity. Orthologous to human GABRA6 (gamma-aminobutyric acid type A receptor subunit alpha6). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 466.5) See more
Orthologs: human mouse all
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Genomic context

Location:: 10q21

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (27311965..27327337, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (26810411..26825768, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (27847447..27862896, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Gabra6100Q allele Sprague-Dawley rats have a higher sensitivity to hypnosis induced by isoflurane and ethanol than the wild type rats.
Title: Gabra6100Q allele Sprague-Dawley rats have a higher sensitivity to hypnosis induced by isoflurane and ethanol than the wild type rats.
Results indicate that the Gabra6-containing GABAA receptor is a key modulator of hippocampal synaptic transmission and likely plays a crucial role in the pathophysiology of maternal separation-induced depression.
Title: The essential role of hippocampal alpha6 subunit-containing GABAA receptors in maternal separation stress-induced adolescent depressive behaviors.
Results suggest estradiol decreased the orofacial nociceptive response, in part, by causing an increase in Gabralpha6 expression.
Title: Infusion of Gabrα6 siRNA into the trigeminal ganglia increased the myogenic orofacial nociceptive response of ovariectomized rats treated with 17β-estradiol.
The Gabralpha6 subunit inhibits trigeminal ganglion nociceptive sensory afferents and regulates myofascial nociception.
Title: Reduced GABAA receptor α6 expression in the trigeminal ganglion enhanced myofascial nociceptive response.
These results suggest that maintaining Gabralpha6 expression was necessary to inhibit primary sensory afferents in the trigeminal pathway and reduce inflammatory orofacial nociception
Title: Reduced GABA(A) receptor α6 expression in the trigeminal ganglion alters inflammatory TMJ hypersensitivity.
expression of delta and alpha6, a subunit normally found exclusively in the cerebellum, is observed after 14 days in pons in chronic hypobaric hypoxia
Title: Adaptation to hypobaric hypoxia involves GABA A receptors in the pons.
The Gabra6 Arg100Gln mutation is identified only in high-alcohol-drinking and alcohol non-preferring (AA/ANA) rat line, with a significantly higher frequency in the ANA line.
Title: AA and ANA rats exhibit the R100Q mutation in the GABAA receptor alpha 6 subunit.
These results suggest that one or more of the mutated binding sites that were found in the 5' flanking alpha6 region may be a consensus sequence for regulatory factors which are responsible for both basal and ethanol-induced alpha6 gene expression.
Title: Five mutations in the GABA A alpha6 gene 5' flanking region are associated with a reduced basal and ethanol-induced alpha6 upregulation in mutated Sardinian alcohol non-preferring rats.
alpha6-beta2-delta GABA A receptors exist in high/low affinity states and expression of subunits alters equilibrium between the two states.
Title: Rat alpha6beta2delta GABAA receptors exhibit two distinct and separable agonist affinities.
These results (1) demonstrate contributions of alpha6 subunits to both synaptic and extrasynaptic GABA responses, (2) establish that delta subunit-containing GABARs are benzodiazepine sensitive at subsaturating [GABA].
Title: Contributions of the GABAA receptor alpha6 subunit to phasic and tonic inhibition revealed by a naturally occurring polymorphism in the alpha6 gene.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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Markers

RH138854 (e-PCR)
- UniSTS:220941

X51986 (e-PCR)
- UniSTS:163497

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to GABA-A receptor activity	IBA Inferred from Biological aspect of Ancestor more info
contributes_to GABA-A receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables GABA-A receptor activity	IEA Inferred from Electronic Annotation more info
contributes_to GABA-gated chloride ion channel activity	IMP Inferred from Mutant Phenotype more info	PubMed
contributes_to benzodiazepine receptor activity	IBA Inferred from Biological aspect of Ancestor more info
contributes_to benzodiazepine receptor activity	IMP Inferred from Mutant Phenotype more info	PubMed
contributes_to chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables chloride channel activity	IEA Inferred from Electronic Annotation more info
enables diazepam binding	IDA Inferred from Direct Assay more info	PubMed
enables heterocyclic compound binding	IDA Inferred from Direct Assay more info	PubMed
enables inhibitory extracellular ligand-gated monoatomic ion channel activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables neurotransmitter receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	IEA Inferred from Electronic Annotation more info
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chloride transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in gamma-aminobutyric acid signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in gamma-aminobutyric acid signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in gamma-aminobutyric acid signaling pathway	NAS Non-traceable Author Statement more info	PubMed
involved_in inhibitory synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of postsynaptic membrane potential	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of postsynaptic membrane potential	IEA Inferred from Electronic Annotation more info
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
involved_in synaptic transmission, GABAergic	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic transmission, GABAergic	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of GABA-A receptor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of GABA-A receptor complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in GABA-ergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in cerebellar Golgi cell to granule cell synapse	IDA Inferred from Direct Assay more info	PubMed
located_in cerebellar Golgi cell to granule cell synapse	IEA Inferred from Electronic Annotation more info
is_active_in cerebellar Golgi cell to granule cell synapse	ISO Inferred from Sequence Orthology more info
part_of chloride channel complex	IEA Inferred from Electronic Annotation more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
is_active_in dendrite membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in hippocampal mossy fiber to CA3 synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynapse	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic specialization membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic specialization membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic specialization membrane	IEA Inferred from Electronic Annotation more info
located_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
part_of receptor complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
part_of transmembrane transporter complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: gamma-aminobutyric acid receptor subunit alpha-6

Names: GABA(A) receptor subunit alpha-6; GABA-A receptor alpha-6 subunit; GABAAR subunit alpha-6; gamma-aminobutyric acid (GABA) A receptor, alpha 6; gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6; gamma-aminobutyric acid A receptor, alpha 6; gamma-aminobutyric acid type A receptor alpha 6 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)

NM_021841.2 → NP_068613.2 gamma-aminobutyric acid receptor subunit alpha-6 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A6HDL8, G3V6G3

Related

ENSRNOP00000004877.2, ENSRNOT00000004877.6

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

NC_086028.1 Reference GRCr8

Range

27311965..27327337 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006246128.5 → XP_006246190.1 gamma-aminobutyric acid receptor subunit alpha-6 isoform X1

See identical proteins and their annotated locations for XP_006246190.1

UniProtKB/Swiss-Prot

P30191

UniProtKB/TrEMBL

A6HDL7

Conserved Domains (3) summary

TIGR00860
Location:34 → 430

LIC; Cation transporter family protein

pfam02931
Location:33 → 230

Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain

pfam02932
Location:237 → 427

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region