Grik4 glutamate ionotropic receptor kainate type subunit 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Grik4provided by RGD
Official Full Name: glutamate ionotropic receptor kainate type subunit 4provided by RGD
Primary source: RGD:2734
See related: EnsemblRapid:ENSRNOG00000030910 AllianceGenome:RGD:2734
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
Also known as: KA1; GluK4
Summary: Contributes to glutamate-gated receptor activity. Predicted to be involved in glutamatergic synaptic transmission and modulation of chemical synaptic transmission. Located in dendrite; perikaryon; and terminal bouton. Is active in glutamatergic synapse and presynaptic membrane. Orthologous to human GRIK4 (glutamate ionotropic receptor kainate type subunit 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 48.9), Adrenal (RPKM 5.4) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q22

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (51802045..52228751, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (42903043..43331990, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (46804134..47237546, complement)

Chromosome 8 - NC_086026.1 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?

The structure of a high-affinity kainate receptor gluk4 ligand-binding domain crystallized with kainite has been presented.
Title: The Structure of a High-Affinity Kainate Receptor: GluK4 Ligand-Binding Domain Crystallized with Kainate.
Presynaptic kainate receptors on GABAergic nerve terminals appear to modulate GABAergic transmission, and in doing so may play an important role in the regulation of PAG neuron excitability.
Title: Presynaptic kainate receptors increase GABAergic neurotransmission in rat periaqueductal gray neurons.
adrenalectomy results in increased expression of hippocampal KA1 mRNA, an effect which is reversed by treatment with corticosterone...
Title: Regulation of kainate receptor subunit mRNA by stress and corticosteroids in the rat hippocampus.

Submit: New GeneRIF Correction

General gene information

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Markers

Grik4 (e-PCR), detects polymorphism
- UniSTS:545944

D8Rat232 (e-PCR), detects polymorphism
- UniSTS:228296

RH143968 (e-PCR)
- UniSTS:233214

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to glutamate-gated receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables glutamate-gated receptor activity	TAS Traceable Author Statement more info	PubMed
enables kainate selective glutamate receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables kainate selective glutamate receptor activity	TAS Traceable Author Statement more info	PubMed
enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential	IEA Inferred from Electronic Annotation more info
enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential	ISO Inferred from Sequence Orthology more info
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 chemical synaptic transmission	TAS Traceable Author Statement more info	PubMed
involved_in ionotropic glutamate receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in modulation of chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in monoatomic ion transport	TAS Traceable Author Statement more info	PubMed
involved_in regulation of postsynaptic membrane potential	IEA Inferred from Electronic Annotation more info
involved_in regulation of presynaptic membrane potential	IEA Inferred from Electronic Annotation more info
involved_in synaptic transmission, glutamatergic	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in hippocampal mossy fiber to CA3 synapse	IEA Inferred from Electronic Annotation more info
is_active_in hippocampal mossy fiber to CA3 synapse	ISO Inferred from Sequence Orthology more info
part_of ionotropic glutamate receptor complex	TAS Traceable Author Statement 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	IEA Inferred from Electronic Annotation 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 perikaryon	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor 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
is_active_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
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	IEA Inferred from Electronic Annotation more info
is_active_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
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 4

Names: glutamate receptor KA-1; kainate receceptor

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_012572.3 → NP_036704.1 glutamate receptor ionotropic, kainate 4 precursor

See identical proteins and their annotated locations for NP_036704.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/Swiss-Prot

Q01812, Q62642

UniProtKB/TrEMBL

A0A140TAG0

Related

ENSRNOP00000047794.3, ENSRNOT00000048347.5

Conserved Domains (2) summary

cd13724
Location:415 → 785

PBP2_iGluR_kainate_KA1; The ligand-binding domain of the kainate subtype KA1 of ionotropic glutamate receptors, a member of the type 2 periplasmic-binding fold protein superfamily

cl10011
Location:24 → 402

Periplasmic_Binding_Protein_type1; Type 1 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_086026.1 Reference GRCr8

Range

51802045..52228751 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063264893.1 → XP_063120963.1 glutamate receptor ionotropic, kainate 4 isoform X5
XM_017595455.3 → XP_017450944.1 glutamate receptor ionotropic, kainate 4 isoform X1

UniProtKB/Swiss-Prot

Q01812, Q62642

UniProtKB/TrEMBL

A0A140TAG0

Conserved Domains (2) summary

cd13724
Location:415 → 785

PBP2_iGluR_kainate_KA1; The ligand-binding domain of the kainate subtype KA1 of ionotropic glutamate receptors, a member of the type 2 periplasmic-binding fold protein superfamily

cl10011
Location:24 → 402

Periplasmic_Binding_Protein_type1; Type 1 periplasmic binding fold superfamily
XM_039080793.2 → XP_038936721.1 glutamate receptor ionotropic, kainate 4 isoform X4

UniProtKB/Swiss-Prot

Q01812, Q62642

Conserved Domains (2) summary

cd13724
Location:329 → 699

PBP2_iGluR_kainate_KA1; The ligand-binding domain of the kainate subtype KA1 of ionotropic glutamate receptors, a member of the type 2 periplasmic-binding fold protein superfamily

cl10011
Location:24 → 303

Periplasmic_Binding_Protein_type1; Type 1 periplasmic binding fold superfamily
XM_063264892.1 → XP_063120962.1 glutamate receptor ionotropic, kainate 4 isoform X3
XM_017595454.3 → XP_017450943.1 glutamate receptor ionotropic, kainate 4 isoform X1

Conserved Domains (2) summary

cd13724
Location:415 → 785

PBP2_iGluR_kainate_KA1; The ligand-binding domain of the kainate subtype KA1 of ionotropic glutamate receptors, a member of the type 2 periplasmic-binding fold protein superfamily

cl10011
Location:24 → 402

Periplasmic_Binding_Protein_type1; Type 1 periplasmic binding fold superfamily
XM_039080792.2 → XP_038936720.1 glutamate receptor ionotropic, kainate 4 isoform X2

UniProtKB/Swiss-Prot

Q01812, Q62642

Conserved Domains (2) summary

cd13724
Location:381 → 751

PBP2_iGluR_kainate_KA1; The ligand-binding domain of the kainate subtype KA1 of ionotropic glutamate receptors, a member of the type 2 periplasmic-binding fold protein superfamily

cl10011
Location:1 → 368

Periplasmic_Binding_Protein_type1; Type 1 periplasmic binding fold superfamily
XM_039080795.2 → XP_038936723.1 glutamate receptor ionotropic, kainate 4 isoform X6

Conserved Domains (1) summary

cl21456
Location:1 → 356

Periplasmic_Binding_Protein_Type_2; Type 2 periplasmic binding fold superfamily