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    glra4a glycine receptor, alpha 4a [ Danio rerio (zebrafish) ]

    Gene ID: 83413, updated on 9-Dec-2024

    Summary

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    Official Symbol
    glra4aprovided by ZNC
    Official Full Name
    glycine receptor, alpha 4aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-010410-3
    See related
    Ensembl:ENSDARG00000006865 AllianceGenome:ZFIN:ZDB-GENE-010410-3
    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
    [a]Z2; glra2; zgc:113093
    Summary
    Enables extracellularly glycine-gated chloride channel activity. Acts upstream of or within several processes, including excitatory postsynaptic potential; startle response; and thigmotaxis. Predicted to be located in cell projection and postsynaptic membrane. Predicted to be part of transmembrane transporter complex. Predicted to be active in neuron projection; plasma membrane; and synapse. Is expressed in eye; hindbrain; myotome; spinal cord; and telencephalon. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability Pilorge type. Orthologous to several human genes including GLRA2 (glycine receptor alpha 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See glra4a in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (39002115..39074573, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (38661801..38734414, complement)

    Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene Bruton agammaglobulinemia tyrosine kinase Neighboring gene galactosidase, alpha Neighboring gene diaphanous-related formin 2 Neighboring gene uncharacterized LOC101885015 Neighboring gene uncharacterized LOC103908633

    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. Regulation of spinal interneuron differentiation by the paracrine action of glycine. Côté S, et al. Dev Neurobiol, 2012 Feb. PMID 22234938, Free PMC Article
    2. Defective glycinergic synaptic transmission in zebrafish motility mutants. Hirata H, et al. Front Mol Neurosci, 2009. PMID 20161699, Free PMC Article
    3. Glycine receptors regulate interneuron differentiation during spinal network development. McDearmid JR, et al. Proc Natl Acad Sci U S A, 2006 Jun 20. PMID 16763051, Free PMC Article
    4. A simplified method for identifying early CRISPR-induced indels in zebrafish embryos using High Resolution Melting analysis. Samarut É, et al. BMC Genomics, 2016 Aug 4. PMID 27491876, Free PMC Article
    5. Glycine Promotes the Survival of a Subpopulation of Neural Stem Cells. Bekri A, et al. Front Cell Dev Biol, 2018. PMID 30050902, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC113093

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    contributes_to chloride channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chloride channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables excitatory extracellular ligand-gated monoatomic ion channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables extracellular ligand-gated monoatomic ion channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables extracellularly glycine-gated chloride channel activity IDA
    Inferred from Direct Assay
    more info
    		  
    enables extracellularly glycine-gated chloride channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables extracellularly glycine-gated ion channel activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables glycine binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables monoatomic ion channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transmembrane signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transmitter-gated monoatomic ion channel activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within central nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in chloride transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within chloride transport IDA
    Inferred from Direct Assay
    more info
    		  
    acts_upstream_of_or_within chloride transport IEA
    Inferred from Electronic Annotation
    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
    		  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of neuron apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to amino acid IDA
    Inferred from Direct Assay
    more info
    		  
    acts_upstream_of_or_within startle response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within thigmotaxis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of chloride channel complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    glycine receptor, alpha 4a
    Names
    GlyR [a]Z2
    glyR alpha
    glycine receptor, alpha 2

    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_131782.2 → NP_571857.1  glycine receptor, alpha 4a

      See identical proteins and their annotated locations for NP_571857.1

      Status: PROVISIONAL

      Source sequence(s)
      AJ404970
      UniProtKB/TrEMBL
      Q9DES9
      Related
      ENSDARP00000027157.7, ENSDART00000026194.9
      Conserved Domains (3) summary
      TIGR00860
      Location:39 → 444
      LIC; Cation transporter family protein
      pfam02931
      Location:47 → 253
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:260 → 441
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007125.7 Reference GRCz11 Primary Assembly

      Range
      39002115..39074573 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005169598.5 → XP_005169655.1  glycine receptor, alpha 4a isoform X1

      UniProtKB/TrEMBL
      A0A8M2BGV4, F1RDZ6
      Related
      ENSDARP00000030826.7, ENSDART00000030509.10
      Conserved Domains (3) summary
      TIGR00860
      Location:27 → 445
      LIC; Cation transporter family protein
      pfam02931
      Location:48 → 254
      Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain
      pfam02932
      Location:261 → 442
      Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394925.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      264760..301627 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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