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    gria3a glutamate receptor, ionotropic, AMPA 3a [ Danio rerio (zebrafish) ]

    Gene ID: 170452, updated on 11-Apr-2024

    Summary

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    Official Symbol
    gria3aprovided by ZNC
    Official Full Name
    glutamate receptor, ionotropic, AMPA 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-020125-5
    See related
    Ensembl:ENSDARG00000032737 AllianceGenome:ZFIN:ZDB-GENE-020125-5
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    gria3.1; zfGRIA3[a]
    Summary
    Predicted to enable AMPA glutamate receptor activity. Predicted to act upstream of or within ion transport. Predicted to be located in postsynaptic membrane. Predicted to be integral component of membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in dendritic spine and plasma membrane. Is expressed in nervous system. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability 94. Orthologous to human GRIA3 (glutamate ionotropic receptor AMPA type subunit 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (23352348..23429545, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (22848743..22925828, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene proteolipid protein 1b Neighboring gene neuroligin 3b Neighboring gene si:dkeyp-20g2.3 Neighboring gene STAG2 cohesin complex component a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Targeted gene disruption in somatic zebrafish cells using engineered TALENs. Sander JD, et al. Nat Biotechnol, 2011 Aug 5. PMID 21822241, Free PMC Article
    2. Efficient mutagenesis by Cas9 protein-mediated oligonucleotide insertion and large-scale assessment of single-guide RNAs. Gagnon JA, et al. PLoS One, 2014. PMID 24873830, Free PMC Article
    3. Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs. Cade L, et al. Nucleic Acids Res, 2012 Sep. PMID 22684503, Free PMC Article
    4. Expression of the eight AMPA receptor subunit genes in the developing central nervous system and sensory organs of zebrafish. Hoppmann V, et al. Dev Dyn, 2008 Mar. PMID 18224707
    5. Embryonic expression of zebrafish AMPA receptor genes: zygotic gria2alpha expression initiates at the midblastula transition. Lin WH, et al. Brain Res, 2006 Sep 19. PMID 16887104

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables AMPA glutamate receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ligand-gated monoatomic ion channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables monoatomic ion channel activity IEA
    Inferred from Electronic Annotation
    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 modulation of chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within monoatomic ion transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within monoatomic ion transport 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
    part_of AMPA glutamate receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in dendritic spine IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    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 synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    glutamate receptor 3a; glutamate receptor, ionotropic, AMPA 3a
    Names
    glur3a
    glutamate receptor, ionotropic, AMPA 3.1

    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)

    1. NM_198339.1 → NP_938153.1  glutamate receptor 3a precursor

      See identical proteins and their annotated locations for NP_938153.1

      Status: PROVISIONAL

      Source sequence(s)
      AF525745
      UniProtKB/TrEMBL
      Q71E61
      Related
      ENSDARP00000049290.4, ENSDART00000049291.5
      Conserved Domains (4) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 797
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      pfam00060
      Location:547 → 827
      Lig_chan; Ligand-gated ion channel
      pfam01094
      Location:39 → 382
      ANF_receptor; Receptor family ligand binding region

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      23352348..23429545 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005165097.4 → XP_005165154.1  glutamate receptor, ionotropic, AMPA 3a isoform X3

      UniProtKB/TrEMBL
      A0A8M2BC92
      Conserved Domains (4) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 797
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      pfam00060
      Location:547 → 827
      Lig_chan; Ligand-gated ion channel
      pfam01094
      Location:39 → 382
      ANF_receptor; Receptor family ligand binding region

    2. XM_005165096.4 → XP_005165153.1  glutamate receptor, ionotropic, AMPA 3a isoform X2

      UniProtKB/TrEMBL
      A0A8M2BCD2, A2CG69
      Conserved Domains (4) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 797
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      pfam00060
      Location:547 → 827
      Lig_chan; Ligand-gated ion channel
      pfam01094
      Location:39 → 382
      ANF_receptor; Receptor family ligand binding region

    3. XM_005165098.4 → XP_005165155.1  glutamate receptor, ionotropic, AMPA 3a isoform X4

      UniProtKB/TrEMBL
      A0A8M2BCE2
      Conserved Domains (4) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 767
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      pfam00060
      Location:547 → 767
      Lig_chan; Ligand-gated ion channel
      pfam01094
      Location:39 → 382
      ANF_receptor; Receptor family ligand binding region

    4. XM_005165095.4 → XP_005165152.1  glutamate receptor, ionotropic, AMPA 3a isoform X1

      UniProtKB/TrEMBL
      A0A8M2BC95
      Conserved Domains (4) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 797
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
      pfam00060
      Location:547 → 810
      Lig_chan; Ligand-gated ion channel
      pfam01094
      Location:39 → 382
      ANF_receptor; Receptor family ligand binding region

    5. XM_021475991.1 → XP_021331666.1  glutamate receptor, ionotropic, AMPA 3a isoform X5

      UniProtKB/TrEMBL
      A0A8M9Q861
      Conserved Domains (2) summary
      cd06387
      Location:28 → 399
      PBP1_iGluR_AMPA_GluR3; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor
      cd13715
      Location:415 → 767
      PBP2_iGluR_AMPA; The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
    Nucleotide Protein
    Heading Accession and Version

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