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    plxna4 plexin A4 [ Danio rerio (zebrafish) ]

    Gene ID: 325938, updated on 2-Nov-2024

    Summary

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    Official Symbol
    plxna4provided by ZNC
    Official Full Name
    plexin A4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-4663
    See related
    Ensembl:ENSDARG00000019328 AllianceGenome:ZFIN:ZDB-GENE-030131-4663
    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
    D204; wu:fd49b01; wu:fe15f03
    Summary
    Predicted to enable semaphorin receptor activity. Acts upstream of or within axon guidance; axonal defasciculation; and morphogenesis of a branching structure. Predicted to be located in membrane. Predicted to be part of semaphorin receptor complex. Predicted to be active in plasma membrane. Is expressed in several structures, including basal plate midbrain region; nervous system; optic vesicle; presumptive neural retina; and trigeminal placode. Orthologous to human PLXNA4 (plexin A4). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See plxna4 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 4 NC_007115.7 (15217927..15441652, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 4 NC_007115.6 (15219172..15442975, complement)

    Chromosome 4 - NC_007115.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137491395 Neighboring gene uncharacterized LOC137491533 Neighboring gene uncharacterized LOC103910431 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 3a Neighboring gene uncharacterized LOC137491534

    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 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. Zebrafish collapsin response mediator protein (CRMP)-2 is expressed in developing neurons. Christie TL, et al. Gene Expr Patterns, 2006 Jan. PMID 16168718
    2. Interplay of Specific Trans- and Juxtamembrane Interfaces in Plexin A3 Dimerization and Signal Transduction. Barton R, et al. Biochemistry, 2016 Sep 6. PMID 27508400
    3. Neuronal expression patterns of the PlexinA family during zebrafish development. Emerson SE, et al. Gene Expr Patterns, 2018 Jan. PMID 29107805
    4. Identification and characterization of a novel zebrafish semaphorin. Taniguchi M, et al. Neurosci Lett, 2011 Jan 20. PMID 21094219
    5. Islet1 selectively promotes peripheral axon outgrowth in Rohon-Beard primary sensory neurons. Tanaka H, et al. Dev Dyn, 2011 Jan. PMID 21108318

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Plexina4 and cell survival in the developing zebrafish hindbrain.
      Title: Plexina4 and cell survival in the developing zebrafish hindbrain.
    2. Results show that PlexinA4, a transmembrane protein known to be a co-receptor for class III semaphorins, acts downstream of Islet2 to promote branching of the peripheral axons of the primary sensory neurons.
      Title: PlexinA4 is necessary as a downstream target of Islet2 to mediate Slit signaling for promotion of sensory axon branching.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables semaphorin receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables semaphorin receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in axon guidance IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within axon guidance IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within axonal defasciculation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within morphogenesis of a branching structure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of axonogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cell shape IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in semaphorin-plexin signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within semaphorin-plexin signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    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
    		  
    part_of semaphorin receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    plexin-A4

    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_001004495.1 → NP_001004495.1  plexin-A4 precursor

      See identical proteins and their annotated locations for NP_001004495.1

      Status: PROVISIONAL

      Source sequence(s)
      AB103158
      UniProtKB/Swiss-Prot
      Q5RHC7, Q6BEA0
      UniProtKB/TrEMBL
      B3DK42
      Related
      ENSDARP00000021195.9, ENSDART00000016230.11
      Conserved Domains (8) summary
      smart00423
      Location:663 → 710
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd01180
      Location:866 → 960
      IPT_plexin_repeat1; First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...
      cd01181
      Location:1049 → 1149
      IPT_plexin_repeat3; Third repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...
      pfam01437
      Location:518 → 567
      PSI; Plexin repeat
      pfam01833
      Location:1167 → 1238
      TIG; IPT/TIG domain
      pfam08337
      Location:1320 → 1873
      Plexin_cytopl; Plexin cytoplasmic RasGAP domain
      cl15674
      Location:962 → 1047
      IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...
      cl15693
      Location:41 → 519
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

    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_007115.7 Reference GRCz11 Primary Assembly

      Range
      15217927..15441652 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005164690.5 → XP_005164747.1  plexin-A4 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BBU4, T1ECS6
      Conserved Domains (8) summary
      smart00423
      Location:663 → 710
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd01180
      Location:866 → 960
      IPT_plexin_repeat1; First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...
      cd01181
      Location:1049 → 1149
      IPT_plexin_repeat3; Third repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...
      pfam01437
      Location:518 → 567
      PSI; Plexin repeat
      pfam01833
      Location:1167 → 1238
      TIG; IPT/TIG domain
      pfam08337
      Location:1320 → 1873
      Plexin_cytopl; Plexin cytoplasmic RasGAP domain
      cl15674
      Location:962 → 1047
      IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...
      cl15693
      Location:41 → 519
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6BEA0.1 GenPept UniProtKB/Swiss-Prot:Q6BEA0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.