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    Grin1 glutamate ionotropic receptor NMDA type subunit 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24408, updated on 27-Dec-2024

    Summary

    Official Symbol
    Grin1provided by RGD
    Official Full Name
    glutamate ionotropic receptor NMDA type subunit 1provided by RGD
    Primary source
    RGD:2736
    See related
    EnsemblRapid:ENSRNOG00000011726 AllianceGenome:RGD:2736
    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
    NR1; GluN1; NMDAR1
    Summary
    Enables several functions, including amyloid-beta binding activity; carboxylic acid binding activity; and monoatomic ion channel activity. Involved in several processes, including cellular response to glycine; modulation of chemical synaptic transmission; and positive regulation of dendritic spine maintenance. Located in several cellular components, including dendrite; postsynaptic membrane; and synaptic cleft. Part of NMDA selective glutamate receptor complex. Is active in several cellular components, including hippocampal mossy fiber to CA3 synapse; parallel fiber to Purkinje cell synapse; and synaptic membrane. Biomarker of cognitive disorder; middle cerebral artery infarction; placental insufficiency; sciatic neuropathy; and status epilepticus. Human ortholog(s) of this gene implicated in alcohol use disorder; autosomal dominant intellectual developmental disorder 8; cerebral infarction; and developmental and epileptic encephalopathy 101. Orthologous to human GRIN1 (glutamate ionotropic receptor NMDA type subunit 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 191.9) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Grin1 in Genome Data Viewer
    Location:
    3p13
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (28501836..28528754, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (8103680..8130603, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (2507745..2534664, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene anaphase promoting complex subunit 2 Neighboring gene transmembrane protein 210 Neighboring gene leucine rich repeat containing 26 Neighboring gene mannosidase, alpha, class 1B, member 1 Neighboring gene dipeptidylpeptidase 7

    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?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Items 1 - 25 of 43
    Function Evidence Code Pubs
    contributes_to NMDA glutamate receptor activity  
    enables NMDA glutamate receptor activity PubMed 
    enables NMDA glutamate receptor activity PubMed 
    enables NMDA glutamate receptor activity PubMed 
    contributes_to NMDA glutamate receptor activity  
    enables NMDA glutamate receptor activity  
    enables NMDA glutamate receptor activity PubMed 
    enables amyloid-beta binding PubMed 
    contributes_to calcium channel activity  
    enables calcium channel activity  
    enables calcium ion binding  
    enables calmodulin binding  
    enables enzyme binding PubMed 
    enables glutamate binding PubMed 
    enables glutamate binding  
    enables glutamate receptor binding PubMed 
    enables glutamate-gated calcium ion channel activity  
    enables glutamate-gated calcium ion channel activity  
    enables glutamate-gated receptor activity PubMed 
    enables glutamate-gated receptor activity PubMed 
    enables glycine binding PubMed 
    enables glycine binding  
    enables ionotropic glutamate receptor binding PubMed 
    enables ligand-gated monoatomic ion channel activity  
    enables ligand-gated monoatomic ion channel activity  
    enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential PubMed 
    enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential PubMed 
    enables ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential PubMed 
    enables ligand-gated sodium channel activity  
    enables ligand-gated sodium channel activity  
    enables monoatomic cation channel activity  
    enables phosphatase binding PubMed 
    enables protein binding PubMed 
    enables protein-containing complex binding PubMed 
    enables protein-containing complex binding PubMed 
    enables signaling receptor activity  
    enables signaling receptor activity  
    enables signaling receptor binding PubMed 
    enables signaling receptor binding  
    enables transmitter-gated monoatomic ion channel activity PubMed 
    enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential PubMed 
    enables transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential PubMed 
    enables voltage-gated monoatomic cation channel activity PubMed 
    Items 1 - 25 of 43
    Items 1 - 25 of 91
    Process Evidence Code Pubs
    acts_upstream_of_or_within adult locomotory behavior  
    acts_upstream_of_or_within associative learning  
    acts_upstream_of_or_within calcium ion homeostasis  
    involved_in calcium ion transmembrane import into cytosol  
    involved_in calcium ion transmembrane transport PubMed 
    involved_in calcium ion transmembrane transport  
    involved_in calcium ion transmembrane transport  
    acts_upstream_of_or_within calcium ion transport  
    involved_in calcium-mediated signaling  
    NOT involved_in cellular response to amyloid-beta  
    involved_in cellular response to glycine PubMed 
    involved_in cellular response to manganese ion PubMed 
    acts_upstream_of_or_within cerebral cortex development  
    involved_in chemical synaptic transmission  
    acts_upstream_of_or_within conditioned taste aversion  
    acts_upstream_of_or_within excitatory postsynaptic potential  
    acts_upstream_of_or_within intracellular calcium ion homeostasis  
    involved_in ionotropic glutamate receptor signaling pathway  
    involved_in ionotropic glutamate receptor signaling pathway PubMed 
    involved_in ionotropic glutamate receptor signaling pathway  
    acts_upstream_of_or_within ionotropic glutamate receptor signaling pathway  
    involved_in ionotropic glutamate receptor signaling pathway  
    involved_in ionotropic glutamate receptor signaling pathway  
    acts_upstream_of_or_within learning  
    acts_upstream_of_or_within learning or memory  
    involved_in learning or memory PubMed 
    acts_upstream_of_or_within long-term memory  
    acts_upstream_of_or_within male mating behavior  
    acts_upstream_of_or_within memory  
    involved_in monoatomic cation transmembrane transport PubMed 
    involved_in monoatomic cation transmembrane transport  
    involved_in monoatomic cation transmembrane transport  
    acts_upstream_of_or_within monoatomic cation transport  
    involved_in monoatomic cation transport  
    involved_in monoatomic ion transmembrane transport  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process  
    acts_upstream_of_or_within neuromuscular process  
    acts_upstream_of_or_within neuron cellular homeostasis  
    acts_upstream_of_or_within olfactory learning  
    acts_upstream_of_or_within pons maturation  
    involved_in positive regulation of Schwann cell migration PubMed 
    acts_upstream_of_or_within positive regulation of apoptotic process  
    involved_in positive regulation of calcium ion transport into cytosol PubMed 
    involved_in positive regulation of dendritic spine maintenance PubMed 
    involved_in positive regulation of excitatory postsynaptic potential PubMed 
    involved_in positive regulation of excitatory postsynaptic potential  
    involved_in positive regulation of reactive oxygen species biosynthetic process PubMed 
    involved_in positive regulation of synaptic transmission, glutamatergic PubMed 
    involved_in positive regulation of synaptic transmission, glutamatergic  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within prepulse inhibition  
    involved_in propylene metabolic process  
    involved_in protein heterotetramerization PubMed 
    acts_upstream_of_or_within protein localization to postsynaptic membrane  
    involved_in protein-containing complex assembly PubMed 
    acts_upstream_of_or_within regulation of axonogenesis  
    acts_upstream_of_or_within regulation of cell communication  
    acts_upstream_of_or_within regulation of dendrite morphogenesis  
    acts_upstream_of_or_within regulation of long-term neuronal synaptic plasticity  
    involved_in regulation of membrane potential  
    acts_upstream_of_or_within regulation of membrane potential  
    involved_in regulation of membrane potential  
    involved_in regulation of monoatomic cation transmembrane transport PubMed 
    involved_in regulation of monoatomic cation transmembrane transport  
    acts_upstream_of_or_within regulation of neuron apoptotic process  
    acts_upstream_of_or_within regulation of neuronal synaptic plasticity  
    involved_in regulation of neuronal synaptic plasticity PubMed 
    involved_in regulation of presynaptic membrane potential  
    acts_upstream_of_or_within regulation of respiratory gaseous exchange  
    acts_upstream_of_or_within regulation of synapse assembly  
    acts_upstream_of_or_within regulation of synaptic plasticity  
    involved_in regulation of synaptic plasticity  
    involved_in response to amine PubMed 
    acts_upstream_of_or_within response to amphetamine  
    involved_in response to calcium ion PubMed 
    involved_in response to ethanol  
    involved_in response to fungicide PubMed 
    involved_in response to glycine  
    involved_in response to hypoxia PubMed 
    acts_upstream_of_or_within response to morphine  
    involved_in response to organic cyclic compound PubMed 
    involved_in rhythmic process PubMed 
    acts_upstream_of_or_within sensory perception of pain  
    acts_upstream_of_or_within social behavior  
    involved_in sodium ion transmembrane transport  
    involved_in sodium ion transmembrane transport  
    acts_upstream_of_or_within startle response  
    acts_upstream_of_or_within suckling behavior  
    acts_upstream_of_or_within synaptic transmission, glutamatergic  
    acts_upstream_of transcription by RNA polymerase II  
    acts_upstream_of_or_within visual learning  
    Items 1 - 25 of 91
    Items 1 - 20 of 56
    Component Evidence Code Pubs
    part_of NMDA selective glutamate receptor complex  
    part_of NMDA selective glutamate receptor complex PubMed 
    part_of NMDA selective glutamate receptor complex  
    part_of NMDA selective glutamate receptor complex  
    part_of NMDA selective glutamate receptor complex  
    part_of NMDA selective glutamate receptor complex PubMed 
    located_in basolateral plasma membrane  
    located_in cell surface PubMed 
    located_in cell surface  
    located_in cytoplasm PubMed 
    located_in cytoplasm  
    located_in dendrite  
    located_in dendrite membrane PubMed 
    located_in dendritic branch PubMed 
    located_in dendritic spine PubMed 
    located_in dendritic spine  
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum membrane  
    located_in excitatory synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse  
    is_active_in hippocampal mossy fiber to CA3 synapse PubMed 
    located_in membrane  
    part_of monoatomic ion channel complex  
    is_active_in neuron projection  
    located_in neuronal cell body PubMed 
    located_in neuronal cell body  
    part_of neurotransmitter receptor complex  
    is_active_in parallel fiber to Purkinje cell synapse PubMed 
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 
    located_in plasma membrane  
    located_in plasma membrane  
    located_in plasma membrane  
    located_in postsynaptic density  
    is_active_in postsynaptic density membrane PubMed 
    located_in postsynaptic density membrane PubMed 
    is_active_in postsynaptic density membrane  
    located_in postsynaptic membrane PubMed 
    located_in postsynaptic membrane  
    located_in postsynaptic membrane  
    located_in postsynaptic membrane PubMed 
    is_active_in presynaptic active zone membrane PubMed 
    is_active_in presynaptic membrane PubMed 
    located_in presynaptic membrane PubMed 
    is_active_in synapse  
    located_in synapse PubMed 
    located_in synapse  
    located_in synaptic cleft PubMed 
    located_in synaptic membrane PubMed 
    located_in synaptic membrane PubMed 
    located_in synaptic membrane  
    located_in synaptic vesicle  
    located_in synaptic vesicle membrane  
    located_in terminal bouton PubMed 
    Items 1 - 20 of 56

    General protein information

    Preferred Names
    glutamate receptor ionotropic, NMDA 1
    Names
    N-methyl-D-aspartate glutamate receptor
    N-methyl-D-aspartate receptor subunit NR1
    NMD-R1
    NMDA R1 receptor C1 cassette
    glutamate [NMDA] receptor subunit zeta-1
    glutamate receptor, ionotropic, N-methyl D-aspartate 1
    neurotransmitter receptor

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001270602.1NP_001257531.1  glutamate receptor ionotropic, NMDA 1 isoform 1b precursor

      See identical proteins and their annotated locations for NP_001257531.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1b).
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08263
      UniProtKB/TrEMBL
      A6JT40, Q62683
      Related
      ENSRNOP00000029227.5, ENSRNOT00000037725.7
      Conserved Domains (3) summary
      cd13719
      Location:416820
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25404
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:856884
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    2. NM_001270603.1NP_001257532.1  glutamate receptor ionotropic, NMDA 1 isoform 2b precursor

      See identical proteins and their annotated locations for NP_001257532.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2b) has the same N- and C-termini but is shorter compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08264
      UniProtKB/TrEMBL
      A6JT39, Q62683
      Related
      ENSRNOP00000043301.3, ENSRNOT00000044246.6
      Conserved Domains (3) summary
      cd13719
      Location:416820
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25404
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:856884
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    3. NM_001270605.1NP_001257534.1  glutamate receptor ionotropic, NMDA 1 isoform 2a precursor

      See identical proteins and their annotated locations for NP_001257534.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (2a) has the same N- and C-termini but is shorter compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08262
      UniProtKB/TrEMBL
      A6JT37, Q62683
      Conserved Domains (3) summary
      cd13719
      Location:395799
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25383
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:835863
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    4. NM_001270606.1NP_001257535.1  glutamate receptor ionotropic, NMDA 1 isoform 3b precursor

      See identical proteins and their annotated locations for NP_001257535.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate splice junction at the 5' end of the last exon compared to variant 1. The resulting isoform (3b) has a shorter and distinct C-terminus compared to variant 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08266
      UniProtKB/TrEMBL
      A0A0H2UHT2, A6JT36, Q62648, Q62683
      Conserved Domains (3) summary
      cd13719
      Location:416820
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25404
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:856884
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    5. NM_001270608.1NP_001257537.1  glutamate receptor ionotropic, NMDA 1 isoform 4b precursor

      See identical proteins and their annotated locations for NP_001257537.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) lacks an alternate in-frame exon and uses an alternate splice junction at the 5' end of the last exon compared to variant 1. The resulting isoform (4b) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08268
      UniProtKB/TrEMBL
      A6JT35, Q62683
      Conserved Domains (3) summary
      cd13719
      Location:416820
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25404
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:856884
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    6. NM_001270610.1NP_001257539.1  glutamate receptor ionotropic, NMDA 1 isoform 4a precursor

      See identical proteins and their annotated locations for NP_001257539.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) lacks two alternate in-frame exons and uses an alternate splice junction at the 5' end of the last exon compared to variant 1. The resulting isoform (4a) lacks two alternate internal segments and has a shorter and distinct C-terminus compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08267
      UniProtKB/TrEMBL
      A6JT33, Q62683
      Conserved Domains (3) summary
      cd13719
      Location:395799
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25383
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:835863
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    7. NM_001287423.1NP_001274352.1  glutamate receptor ionotropic, NMDA 1 isoform 3a precursor

      See identical proteins and their annotated locations for NP_001274352.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) lacks an alternate in-frame exon and uses an alternate splice junction at the 5' end of the last exon compared to variant 1. The resulting isoform (3a) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08265
      UniProtKB/TrEMBL
      A6JT34, Q62683
      Conserved Domains (3) summary
      cd13719
      Location:395799
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25383
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:835863
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit
    8. NM_017010.2NP_058706.1  glutamate receptor ionotropic, NMDA 1 isoform 1a precursor

      See identical proteins and their annotated locations for NP_058706.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (1a) has the same N- and C-termini but is shorter compared to isoform 1b.
      Source sequence(s)
      FM039130, JAXUCZ010000003, U08261
      UniProtKB/Swiss-Prot
      P35439, Q62646
      UniProtKB/TrEMBL
      A6JT38, Q62683
      Related
      ENSRNOP00000049198.1, ENSRNOT00000049297.5
      Conserved Domains (3) summary
      cd13719
      Location:395799
      PBP2_iGluR_NMDA_Nr1; The ligand-binding domain of the NR1 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      cd06379
      Location:25383
      PBP1_iGluR_NMDA_NR1; N-terminal leucine-isoleucine-valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor
      pfam10562
      Location:835863
      CaM_bdg_C0; Calmodulin-binding domain C0 of NMDA receptor NR1 subunit

    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_086021.1 Reference GRCr8

      Range
      28501836..28528754 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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