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    rtn3 reticulon 3 [ Danio rerio (zebrafish) ]

    Gene ID: 394047, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rtn3provided by ZNC
    Official Full Name
    reticulon 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030710-5
    See related
    Ensembl:ENSDARG00000091348 AllianceGenome:ZFIN:ZDB-GENE-030710-5
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:56439; zgc:77630; wu:fd60d11
    Summary
    Predicted to act upstream of or within vesicle-mediated transport. Predicted to be located in Golgi membrane and endoplasmic reticulum membrane. Is expressed in gill; heart; musculature system; and nervous system. Orthologous to human RTN3 (reticulon 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rtn3 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (17716601..17753866)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (17464628..17501893)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase kinase kinase 2 Neighboring gene multiple endocrine neoplasia I Neighboring gene si:dkey-28a3.2 Neighboring gene zinc finger translocation associated Neighboring gene EMAP like 3

    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. RTN3 Regulates the Expression Level of Chemokine Receptor CXCR4 and is Required for Migration of Primordial Germ Cells. Li H, et al. Int J Mol Sci, 2016 Apr 8. PMID 27070582, Free PMC Article
    2. Analysis of the reticulon gene family demonstrates the absence of the neurite growth inhibitor Nogo-A in fish. Diekmann H, et al. Mol Biol Evol, 2005 Aug. PMID 15858203
    3. A reticular rhapsody: phylogenic evolution and nomenclature of the RTN/Nogo gene family. Oertle T, et al. FASEB J, 2003 Jul. PMID 12832288
    4. The medaka novel immune-type receptor (NITR) gene clusters reveal an extraordinary degree of divergence in variable domains. Desai S, et al. BMC Evol Biol, 2008 Jun 19. PMID 18565225, Free PMC Article
    5. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC56439

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    reticulon-3

    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_001328361.1 → NP_001315290.1  reticulon-3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CT030012, EH455188
      UniProtKB/TrEMBL
      A0A8M1P9T8, Q4G5W3
      Related
      ENSDARP00000075271.4, ENSDART00000080825.5
      Conserved Domains (1) summary
      pfam02453
      Location:47 → 211
      Reticulon; Reticulon

    2. NM_201072.2 → NP_957366.1  reticulon-3 isoform 1

      See identical proteins and their annotated locations for NP_957366.1

      Status: VALIDATED

      Source sequence(s)
      CT030012, EH454794, EH521640
      UniProtKB/TrEMBL
      A0A1D5NSK7, Q4G5W4, Q7ZUD6
      Related
      ENSDARP00000142824.1, ENSDART00000173792.2
      Conserved Domains (1) summary
      pfam02453
      Location:32 → 196
      Reticulon; Reticulon

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      17716601..17753866
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021477447.2 → XP_021333122.1  reticulon-3 isoform X1

      UniProtKB/TrEMBL
      A0A8M9PNQ3
      Conserved Domains (2) summary
      pfam02453
      Location:927 → 1091
      Reticulon
      cl26305
      Location:416 → 853
      XPG_I; XPG I-region
    Nucleotide Protein Strain
    Heading Accession and Version

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