Grik1 glutamate ionotropic receptor kainate type subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Grik1provided by RGD
Official Full Name: glutamate ionotropic receptor kainate type subunit 1provided by RGD
Primary source: RGD:2732
See related: EnsemblRapid:ENSRNOG00000001575 AllianceGenome:RGD:2732
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: GluK1; GluR5
Summary: Glutamate receptors are the predominant excitatory neurotransmitter receptors in the mammalian brain and are activated in a variety of normal neurophysiologic processes. This gene product belongs to the kainate family of glutamate receptors, which are composed of four subunits and function as ligand-activated ion channels. The subunit encoded by this gene is subject to RNA editing (CAG->CGG; Q->R) within the second transmembrane domain, which is thought to alter the properties of ion flow. Alternative splicing, resulting in transcript variants encoding different isoforms, has been noted for this gene. [provided by RefSeq, Jul 2008]
Expression: Biased expression in Brain (RPKM 56.8) and Testes (RPKM 12.9) See more
Orthologs: human mouse all
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Genomic context

Location:: 11q11

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (40655974..41056966, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (27169739..27571131, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (27811954..28213940, complement)

Chromosome 11 - NC_086029.1 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
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?

Gluk1 and NETO1 specifically promote dendrite growth of interneurons in the visual cortex.
Title: Development of Cortical Pyramidal Cell and Interneuronal Dendrites: a Role for Kainate Receptor Subunits and NETO1.
Signal peptide represses GluK1 surface and synaptic trafficking through binding to amino-terminal domain.
Title: Signal peptide represses GluK1 surface and synaptic trafficking through binding to amino-terminal domain.
In the CA1 hippocampal pyramidal cell, GluK1 had no effect on synaptic transmission. GluK1 which requires the auxiliary subunits Neto1 and Neto2 for surface and synaptic trafficking. It is the amino-terminal domains of GluK1 and GluK2 that control their strikingly different trafficking properties.
Title: Amino-terminal domains of kainate receptors determine the differential dependence on Neto auxiliary subunits for trafficking.
Functional GluK1 (kainic acid)-containing receptors are present postsynaptically on vasopressin neurons but not on oxytocin cells.
Title: Kainate receptor-induced retrograde inhibition of glutamatergic transmission in vasopressin neurons.
ATPA up-regulated mRNA and protein levels of GluR5, but coriaria lactone down-regulated GluR5 and GluR6 in astrocytes.
Title: [Different expression of GluR5 and GluR6 in rat astrocyte induced with coriaria lactone and ATPA].
study demonstrates there is a tonic effect on inhibitory synaptic transmission in hippocampal CA1 pyramidal cells regulated by endogenous glutamate via GluR5 kainate receptor which is age dependent
Title: Age-dependent enhancement of inhibitory synaptic transmission in CA1 pyramidal neurons via GluR5 kainate receptors.
Kainate receptors containing the GLU(K5) subunit are critically important for generation and frequency oscillation in the entorhinal cortex.
Title: The role of GLU K5-containing kainate receptors in entorhinal cortex gamma frequency oscillations.
Therefore, GLU(K5) kainate receptor subunits are involved in kindling-induced plasticity changes in the amygdala.
Title: Activation of kainate GLU(K5) transmission rescues kindling-induced impairment of LTP in the rat lateral amygdala.
analysis of how GluR5-containing kainate receptor activation has a role in neuroprotection against ischemic brain injury through decreasing tyrosine phosphorylation of N-methyl-D-aspartate receptors mediated by Src kinase
Title: Neuroprotection of GluR5-containing kainate receptor activation against ischemic brain injury through decreasing tyrosine phosphorylation of N-methyl-D-aspartate receptors mediated by Src kinase.
GluR5 subunit-containing kainate-type glutamate receptors have a role in the formation and/or stabilization of functional glutamatergic synapses in area CA1.
Title: Activation of kainate receptors controls the number of functional glutamatergic synapses in the area CA1 of rat hippocampus.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Grik1 (e-PCR), detects polymorphism
- UniSTS:259083

Grik1 (e-PCR), detects polymorphism
- UniSTS:259612

RH132302 (e-PCR)
- UniSTS:215585

D10S224 (e-PCR), detects polymorphism
- UniSTS:58335

UniSTS:478959 (e-PCR)
- UniSTS:478959

Snx1 (e-PCR), detects polymorphism
- UniSTS:478959

Grik1 (e-PCR), detects polymorphism
- UniSTS:546807

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables L-glutamate transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables SNARE binding	IPI Inferred from Physical Interaction more info	PubMed
enables extracellularly glutamate-gated ion channel activity	IDA Inferred from Direct Assay more info	PubMed
enables glutamate binding	IDA Inferred from Direct Assay more info	PubMed
enables glutamate-gated calcium ion channel activity	IDA Inferred from Direct Assay more info	PubMed
enables glutamate-gated receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables glutamate-gated receptor activity	ISO Inferred from Sequence Orthology more info
contributes_to heterocyclic compound binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables kainate selective glutamate receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables kainate selective glutamate receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables kainate selective glutamate receptor activity	ISO Inferred from Sequence Orthology more info
enables ligand-gated monoatomic ion channel activity	IEA Inferred from Electronic Annotation more info
enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential	IDA Inferred from Direct Assay more info	PubMed
enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential	IMP Inferred from Mutant Phenotype more info	PubMed
enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential	NAS Non-traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables scaffold protein binding	IDA Inferred from Direct Assay more info	PubMed
enables signaling receptor activity	IEA Inferred from Electronic Annotation more info
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in L-glutamate transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within adult behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within behavioral response to pain	ISO Inferred from Sequence Orthology more info
involved_in calcium-mediated signaling	IEA Inferred from Electronic Annotation more info
involved_in chemical synaptic transmission	TAS Traceable Author Statement more info	PubMed
acts_upstream_of establishment of localization in cell	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within excitatory postsynaptic potential	ISO Inferred from Sequence Orthology more info
acts_upstream_of gamma-aminobutyric acid secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inhibitory postsynaptic potential	ISO Inferred from Sequence Orthology more info
involved_in ionotropic glutamate receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within membrane depolarization	ISO Inferred from Sequence Orthology more info
involved_in modulation of chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in modulation of excitatory postsynaptic potential	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of synaptic transmission, GABAergic	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of synaptic transmission, glutamatergic	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of synaptic transmission, glutamatergic	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of gamma-aminobutyric acid secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synaptic transmission, GABAergic	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of synaptic transmission, GABAergic	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within presynaptic modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of membrane potential	ISO Inferred from Sequence Orthology more info
involved_in regulation of presynaptic membrane potential	IEA Inferred from Electronic Annotation more info
involved_in regulation of short-term neuronal synaptic plasticity	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of synaptic plasticity	TAS Traceable Author Statement more info	PubMed
acts_upstream_of synaptic transmission, GABAergic	ISO Inferred from Sequence Orthology more info
involved_in synaptic transmission, glutamatergic	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within synaptic transmission, glutamatergic	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
part_of ionotropic glutamate receptor complex	IDA Inferred from Direct Assay more info	PubMed
part_of kainate selective glutamate receptor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of kainate selective glutamate receptor complex	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	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	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
located_in postsynaptic membrane	TAS Traceable Author Statement more info	PubMed
is_active_in presynaptic membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
part_of receptor complex	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	ISO Inferred from Sequence Orthology more info
located_in terminal bouton	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: glutamate receptor ionotropic, kainate 1

Names: glutamate receptor 5

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_001111114.1 → NP_001104584.1 glutamate receptor ionotropic, kainate 1 isoform 3

See identical proteins and their annotated locations for NP_001104584.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) is missing two in-frame coding exons compared to transcript variant 1, resulting in a shorter isoform (3) lacking two protein segments of 15 aa and 29 aa, compared to isoform 1. RNA editing (CAG->CGG) changes Gln621Arg.

Source sequence(s)

AI145540, JAXUCZ010000011, M83561

UniProtKB/Swiss-Prot

P22756

UniProtKB/TrEMBL

A6JL83

Related

ENSRNOP00000078137.2, ENSRNOT00000100916.2

Conserved Domains (4) summary

pfam00060
Location:562 → 831

Lig_chan; Ligand-gated ion channel

pfam01094
Location:53 → 396

ANF_receptor; Receptor family ligand binding region

cl10011
Location:35 → 415

Periplasmic_Binding_Protein_Type_1; Type 1 periplasmic binding fold superfamily

cl21456
Location:431 → 800

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily
NM_001111117.1 → NP_001104587.1 glutamate receptor ionotropic, kainate 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_001104587.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1). RNA editing (CAG->CGG) changes Gln636Arg.

Source sequence(s)

AI145540, JAXUCZ010000011, M83560, Z11714

UniProtKB/Swiss-Prot

P22756

UniProtKB/TrEMBL

A6JL86, F1M7M9

Related

ENSRNOP00000045594.5, ENSRNOT00000050073.7

Conserved Domains (4) summary

pfam00060
Location:577 → 846

Lig_chan; Ligand-gated ion channel

pfam01094
Location:53 → 396

ANF_receptor; Receptor family ligand binding region

cl10011
Location:35 → 430

Periplasmic_Binding_Protein_Type_1; Type 1 periplasmic binding fold superfamily

cl21456
Location:446 → 815

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily
NM_017241.2 → NP_058937.1 glutamate receptor ionotropic, kainate 1 isoform 2

See identical proteins and their annotated locations for NP_058937.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) is missing an in-frame coding exon at the 3' end compared to transcript variant 1, resulting in a shorter isoform (2) lacking a 29 aa segment, compared to isoform 1. RNA editing (CAG->CGG) changes Gln636Arg.

Source sequence(s)

AI145540, JAXUCZ010000011, M83560

UniProtKB/Swiss-Prot

P22756

UniProtKB/TrEMBL

A0A140TAF9, A6JL85

Related

ENSRNOP00000046164.5, ENSRNOT00000051060.7

Conserved Domains (4) summary

pfam00060
Location:577 → 846

Lig_chan; Ligand-gated ion channel

pfam01094
Location:53 → 396

ANF_receptor; Receptor family ligand binding region

cl10011
Location:35 → 430

Periplasmic_Binding_Protein_Type_1; Type 1 periplasmic binding fold superfamily

cl21456
Location:446 → 815

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily

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_086029.1 Reference GRCr8

Range

40655974..41056966 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006248053.5 → XP_006248115.1 glutamate receptor ionotropic, kainate 1 isoform X1

See identical proteins and their annotated locations for XP_006248115.1

UniProtKB/Swiss-Prot

P22756

UniProtKB/TrEMBL

A0A140TAG6, A6JL84

Conserved Domains (4) summary

pfam00060
Location:562 → 831

Lig_chan; Ligand-gated ion channel

pfam01094
Location:53 → 396

ANF_receptor; Receptor family ligand binding region

cl10011
Location:35 → 415

Periplasmic_Binding_Protein_Type_1; Type 1 periplasmic binding fold superfamily

cl21456
Location:431 → 800

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily
XM_063270448.1 → XP_063126518.1 glutamate receptor ionotropic, kainate 1 isoform X5
XM_017597947.3 → XP_017453436.1 glutamate receptor ionotropic, kainate 1 isoform X4

UniProtKB/TrEMBL

A0A0G2JVC0

Related

ENSRNOP00000069424.2, ENSRNOT00000085629.3
XM_063270451.1 → XP_063126521.1 glutamate receptor ionotropic, kainate 1 isoform X8
XM_039088252.2 → XP_038944180.1 glutamate receptor ionotropic, kainate 1 isoform X3

UniProtKB/TrEMBL

A0A0G2K830, A0A8I5Y1Z7, A6JL87, A6JL88

Related

ENSRNOP00000105903.1, ENSRNOT00000147508.1

Conserved Domains (2) summary

cd06382
Location:38 → 416

PBP1_iGluR_Kainate; N-terminal leucine-isoleucine-valine binding protein (LIVBP)-like domain of the kainate receptors

cl21456
Location:431 → 800

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily
XM_006248054.5 → XP_006248116.1 glutamate receptor ionotropic, kainate 1 isoform X2

UniProtKB/TrEMBL

A0A0G2K830, A6JL87

Conserved Domains (4) summary

pfam00060
Location:577 → 846

Lig_chan; Ligand-gated ion channel

pfam01094
Location:53 → 396

ANF_receptor; Receptor family ligand binding region

cl10011
Location:35 → 430

Periplasmic_Binding_Protein_Type_1; Type 1 periplasmic binding fold superfamily

cl21456
Location:446 → 815

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily
XM_063270449.1 → XP_063126519.1 glutamate receptor ionotropic, kainate 1 isoform X6

Related

ENSRNOP00000050263.7, ENSRNOT00000042581.7
XM_039088253.2 → XP_038944181.1 glutamate receptor ionotropic, kainate 1 isoform X7

UniProtKB/TrEMBL

A6JL92

Conserved Domains (2) summary

cd06382
Location:38 → 431

PBP1_iGluR_Kainate; N-terminal leucine-isoleucine-valine binding protein (LIVBP)-like domain of the kainate receptors

cl21456
Location:446 → 598

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily