Grin3a glutamate receptor ionotropic, NMDA3A [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Grin3aprovided by MGI
Official Full Name: glutamate receptor ionotropic, NMDA3Aprovided by MGI
Primary source: MGI:MGI:1933206
See related: Ensembl:ENSMUSG00000039579 AllianceGenome:MGI:1933206
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: NR3A; GluN3A; NMDAR-L; NMDAR3A; mKIAA1973; 6430537F04; A830097C19Rik
Summary: Enables NMDA glutamate receptor activity; calcium channel activity; and transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential. Involved in presynaptic modulation of chemical synaptic transmission. Acts upstream of or within calcium ion transport; dendrite development; and prepulse inhibition. Located in neuronal cell body and postsynaptic membrane. Is active in glutamatergic synapse and postsynaptic density membrane. Is expressed in several structures, including adrenal gland; alimentary system; central nervous system; foot bone; and hand mesenchyme. Orthologous to human GRIN3A (glutamate ionotropic receptor NMDA type subunit 3A). [provided by Alliance of Genome Resources, Jan 2025]
Expression: Biased expression in CNS E18 (RPKM 8.2), whole brain E14.5 (RPKM 3.6) and 6 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 B1; 4 26.72 cM

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (49661611..49846023, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (49661611..49846023, complement)

Chromosome 4 - NC_000070.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

GluN3A and Excitatory Glycine Receptors in the Adult Hippocampus.
Title: GluN3A and Excitatory Glycine Receptors in the Adult Hippocampus.
Dysfunction of GluN3A subunit is involved in depression-like behaviors through synaptic deficits.
Title: Dysfunction of GluN3A subunit is involved in depression-like behaviors through synaptic deficits.
GluN3A excitatory glycine receptors control adult cortical and amygdalar circuits.
Title: GluN3A excitatory glycine receptors control adult cortical and amygdalar circuits.
Pathogenesis of sporadic Alzheimer's disease by deficiency of NMDA receptor subunit GluN3A.
Title: Pathogenesis of sporadic Alzheimer's disease by deficiency of NMDA receptor subunit GluN3A.
A new insight into mechanisms of interferon alpha neurotoxicity: Expression of GRIN3A subunit of NMDA receptors and NMDA-evoked exocytosis.
Title: A new insight into mechanisms of interferon alpha neurotoxicity: Expression of GRIN3A subunit of NMDA receptors and NMDA-evoked exocytosis.
Temporal Dynamics and Neuronal Specificity of Grin3a Expression in the Mouse Forebrain.
Title: Temporal Dynamics and Neuronal Specificity of Grin3a Expression in the Mouse Forebrain.
study found GluN1/GluN3A receptors are operational in neurons of the medial habenula (MHb), an epithalamic area controlling aversive physiological states; in the absence of glycinergic neuronal specializations in the MHb, glial cells tuned neuronal activity via GluN1/GluN3A receptors; reducing GluN1/GluN3A receptor levels in the MHb prevented place-aversion conditioning
Title: Control of aversion by glycine-gated GluN1/GluN3A NMDA receptors in the adult medial habenula.
Thsese findings confirm the existence of presynaptic GluN3A-containing release-regulating NMDARs in mouse hippocampal glutamatergic nerve endings.
Title: Immuno-Pharmacological Characterization of Presynaptic GluN3A-Containing NMDA Autoreceptors: Relevance to Anti-NMDA Receptor Autoimmune Diseases.
In the prefrontal cortex of GluN3A knock-out mice, the expression of the oxytocin receptor was significantly lower.
Title: Impaired social behaviors and minimized oxytocin signaling of the adult mice deficient in the N-methyl-d-aspartate receptor GluN3A subunit.
This study for the first time provides insights into transcriptome changes upon the specific knockdown of an NMDAR subunit in NSCs, which may help to identify additional functions and downstream pathways of GluN3A and GluN3A-containing NMDARs
Title: The siRNA-mediated knockdown of GluN3A in 46C-derived neural stem cells affects mRNA expression levels of neural genes, including known iGluR interactors.

Submit: New GeneRIF Correction See all GeneRIFs (25)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (5)
Targeted (5) 1 citation

General gene information

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Markers

Ppp3r2 (e-PCR), detects polymorphism
- UniSTS:532285

NoName (e-PCR)
- UniSTS:224407

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
contributes_to NMDA glutamate receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables NMDA glutamate receptor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables NMDA glutamate receptor activity	IPI Inferred from Physical Interaction more info	PubMed
contributes_to NMDA glutamate receptor activity	ISO Inferred from Sequence Orthology more info
enables NMDA glutamate receptor activity	ISO Inferred from Sequence Orthology more info
enables calcium channel activity	IDA Inferred from Direct Assay more info	PubMed
enables calcium channel activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables glutamate receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables glutamate-gated receptor activity	ISO Inferred from Sequence Orthology more info
enables glycine binding	ISO Inferred from Sequence Orthology more info
enables glycine binding	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase 2A binding	IEA Inferred from Electronic Annotation more info
enables protein phosphatase 2A binding	ISO Inferred from Sequence Orthology more info
enables serine binding	ISS Inferred from Sequence or Structural Similarity 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
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	IDA Inferred from Direct Assay more info	PubMed
enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in calcium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within calcium ion transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in calcium ion transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dendrite development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ionotropic glutamate receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in ionotropic glutamate receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in ionotropic glutamate receptor signaling pathway	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 negative regulation of dendritic spine development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic spine development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within prepulse inhibition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in presynaptic modulation of chemical synaptic transmission	IDA Inferred from Direct Assay more info	PubMed
involved_in presynaptic modulation of chemical synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of postsynaptic membrane potential	IEA Inferred from Electronic Annotation more info
involved_in response to ethanol	IEA Inferred from Electronic Annotation more info
involved_in response to ethanol	ISO Inferred from Sequence Orthology more info
involved_in rhythmic process	IEA Inferred from Electronic Annotation more info
involved_in rhythmic process	ISO Inferred from Sequence Orthology more info
involved_in synaptic transmission, glutamatergic	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of NMDA selective glutamate receptor complex	IEA Inferred from Electronic Annotation more info
part_of NMDA selective glutamate receptor complex	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
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
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: glutamate receptor ionotropic, NMDA 3A

Names: N-methyl-D-aspartate receptor; N-methyl-D-aspartate receptor subtype 3A

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_001033351.2 → NP_001028523.1 glutamate receptor ionotropic, NMDA 3A isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.

Source sequence(s)

AK044171, AK138366, AL732521, AW494659

Consensus CDS

CCDS51175.1

UniProtKB/TrEMBL

A2AIR4

Related

ENSMUSP00000075970.4, ENSMUST00000076674.4

Conserved Domains (3) summary

cd06377
Location:30 → 497

PBP1_iGluR_NMDA_NR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family

cd13720
Location:512 → 908

PBP2_iGluR_NMDA_Nr3; The ligand-binding domain of the NR3 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily

pfam00060
Location:676 → 942

Lig_chan; Ligand-gated ion channel
NM_001276355.1 → NP_001263284.1 glutamate receptor ionotropic, NMDA 3A isoform 1 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AK044171, AK138366, AL732521, AW494659, BQ180214

Consensus CDS

CCDS71385.1

UniProtKB/Swiss-Prot

A2AIR4, A2AIR5, Q69Z52

Related

ENSMUSP00000091381.5, ENSMUST00000093859.11

Conserved Domains (3) summary

cd13720
Location:512 → 908

PBP2_iGluR_NMDA_Nr3; The ligand-binding domain of the NR3 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily

cd06377
Location:40 → 496

PBP1_iGluR_NMDA_NR3; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family

pfam00060
Location:676 → 942

Lig_chan; Ligand-gated ion channel

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

49661611..49846023 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006537913.4 → XP_006537976.1 glutamate receptor ionotropic, NMDA 3A isoform X1

Conserved Domains (3) summary

cd13720
Location:512 → 908

PBP2_iGluR_NMDA_Nr3; The ligand-binding domain of the NR3 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily

pfam00060
Location:676 → 942

Lig_chan; Ligand-gated ion channel

cd06377
Location:40 → 496

PBP1_iGluR_NMDA_NR3; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family
XM_006537914.4 → XP_006537977.1 glutamate receptor ionotropic, NMDA 3A isoform X2

Conserved Domains (2) summary

cd13720
Location:512 → 908

PBP2_iGluR_NMDA_Nr3; The ligand-binding domain of the NR3 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily

cd06377
Location:40 → 496

PBP1_iGluR_NMDA_NR3; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family