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    si:dkey-202e22.2 si:dkey-202e22.2 [ Danio rerio (zebrafish) ]

    Gene ID: 560497, updated on 9-Dec-2024

    Summary

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    Official Symbol
    si:dkey-202e22.2provided by ZNC
    Official Full Name
    si:dkey-202e22.2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-141215-27
    See related
    Ensembl:ENSDARG00000061260 AllianceGenome:ZFIN:ZDB-GENE-141215-27
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to be located in extracellular region and membrane. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See si:dkey-202e22.2 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (34760872..34777711)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (34498639..34515734)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene dynein, axonemal, heavy chain 1 Neighboring gene uncharacterized LOC137496718 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 4a Neighboring gene uncharacterized LOC560659

    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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in animal organ morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in basement membrane assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in substrate adhesion-dependent cell spreading IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tissue development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of laminin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    netrin-4

    NCBI Reference Sequences (RefSeq)

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    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_007122.7 Reference GRCz11 Primary Assembly

      Range
      34760872..34777711
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021479875.2 → XP_021335550.1  netrin-4

      UniProtKB/TrEMBL
      A0A8N7UQX3, E7EXX6
      Related
      ENSDARP00000081650.4, ENSDART00000087216.6
      Conserved Domains (5) summary
      smart00180
      Location:404 → 456
      EGF_Lam; Laminin-type epidermal growth factor-like domai
      cd00055
      Location:273 → 327
      EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
      cd03578
      Location:530 → 640
      NTR_netrin-4_like; NTR domain, Netrin-4-like subfamily; composed of the C-terminal NTR domains of netrin-4 (beta netrin) and similar proteins. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration during neural ...
      pfam00053
      Location:341 → 394
      Laminin_EGF; Laminin EGF domain
      cl02806
      Location:75 → 217
      Laminin_N; Laminin N-terminal (Domain VI)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394823.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      1599..18438
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_683903.10 → XP_688995.3  netrin-4

      UniProtKB/TrEMBL
      A0A8N7UQX3, E7EXX6
      Conserved Domains (5) summary
      smart00180
      Location:404 → 456
      EGF_Lam; Laminin-type epidermal growth factor-like domai
      cd00055
      Location:273 → 327
      EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
      cd03578
      Location:530 → 640
      NTR_netrin-4_like; NTR domain, Netrin-4-like subfamily; composed of the C-terminal NTR domains of netrin-4 (beta netrin) and similar proteins. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration during neural ...
      pfam00053
      Location:341 → 394
      Laminin_EGF; Laminin EGF domain
      cl02806
      Location:75 → 217
      Laminin_N; Laminin N-terminal (Domain VI)
    Nucleotide Protein
    Heading Accession and Version

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