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    plxnd1 plexin D1 [ Danio rerio (zebrafish) ]

    Gene ID: 402998, updated on 27-Dec-2024

    Summary

    Official Symbol
    plxnd1provided by ZNC
    Official Full Name
    plexin D1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1828
    See related
    AllianceGenome:ZFIN:ZDB-GENE-040426-1828
    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
    zgc:77379
    Summary
    Predicted to enable semaphorin receptor activity. Acts upstream of or within with a negative effect on sprouting angiogenesis. Acts upstream of or within embryonic eye morphogenesis and vasculature development. Predicted to be located in membrane. Predicted to be part of semaphorin receptor complex. Predicted to be active in plasma membrane. Is expressed in lateral mesoderm; pharyngeal arch 3-7; vascular cord; and vasculature. Orthologous to human PLXND1 (plexin D1). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
    NEW
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    Genomic context

    See plxnd1 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (54284860..54302634)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (54172020..54189794)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene thyrotropin-releasing hormone Neighboring gene transmembrane and coiled-coil domain family 1a Neighboring gene extra-ocular rhodopsin

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC77379

    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
    acts_upstream_of_or_within angioblast cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within branching involved in blood vessel morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within branching involved in lymph vessel morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic eye morphogenesis IMP
    Inferred from Mutant Phenotype
    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
     
    acts_upstream_of_or_within sprouting angiogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within sprouting angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within_negative_effect sprouting angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 NAS
    Non-traceable Author Statement
    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

    Preferred Names
    plexin-D1
    Names
    obd
    out of bounds

    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_205697.2NP_991260.2  plexin-D1 precursor

      See identical proteins and their annotated locations for NP_991260.2

      Status: PROVISIONAL

      Source sequence(s)
      AY648302
      UniProtKB/TrEMBL
      Q6DSU3
      Conserved Domains (4) summary
      cd11247
      Location:33507
      Sema_plexin_D1; The Sema domain, a protein interacting module, of Plexin D1
      pfam01437
      Location:508561
      PSI; Plexin repeat
      pfam08337
      Location:13001843
      Plexin_cytopl; Plexin cytoplasmic RasGAP domain
      cl15674
      Location:848937
      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 ...

    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_007119.7 Reference GRCz11 Primary Assembly

      Range
      54284860..54302634
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)