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    rtn4a reticulon 4a [ Danio rerio (zebrafish) ]

    Gene ID: 447816, updated on 9-Dec-2024

    Summary

    Official Symbol
    rtn4aprovided by ZNC
    Official Full Name
    reticulon 4aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030710-1
    See related
    Ensembl:ENSDARG00000044601 AllianceGenome:ZFIN:ZDB-GENE-030710-1
    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
    nogo; rtn4; Nogo-B; zgc:92163; wu:fb17a02; wu:fb22f12; wu:fd61a07
    Summary
    Acts upstream of or within several processes, including mesenchymal to epithelial transition; nervous system development; and sensory system development. Predicted to be located in endoplasmic reticulum membrane. Is expressed in several structures, including heart; liver; muscle; nervous system; and pectoral fin. Orthologous to human RTN4 (reticulon 4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    NEW
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    Genomic context

    See rtn4a in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (6231382..6258524, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (6074213..6101355, complement)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101885479 Neighboring gene uncharacterized LOC110439858 Neighboring gene ribosomal protein S27a Neighboring gene mitochondrial translational initiation factor 2

    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?

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    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

    Preferred Names
    reticulon-4a
    Names
    reticulon 4

    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_001004555.2NP_001004555.2  reticulon-4a isoform 1

      See identical proteins and their annotated locations for NP_001004555.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      BX324134
      UniProtKB/TrEMBL
      A0A8M1N243, Q4G5V9
      Related
      ENSDARP00000076390.4, ENSDART00000081952.6
      Conserved Domains (1) summary
      pfam02453
      Location:25189
      Reticulon; Reticulon
    2. NM_001079912.2NP_001073381.1  reticulon-4a isoform 4-l

      See identical proteins and their annotated locations for NP_001073381.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5' most exon which results in a distinct 5' UTR and the use of an alternate start codon compared to variant 1. The encoded isoform (4-I) is longer an has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      BX324134
      UniProtKB/TrEMBL
      A0A8M1NCF0, Q4G5W2
      Related
      ENSDARP00000076404.3, ENSDART00000081966.5
      Conserved Domains (1) summary
      pfam02453
      Location:137299
      Reticulon; Reticulon
    3. NM_001201446.1NP_001188375.1  reticulon-4a isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 5' most exon which results in a distinct 5' UTR and the use of an alternate start codon compared to variant 1. The encoded isoform (3) is shorter an has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      BX324134
      UniProtKB/TrEMBL
      A0A8M1P2F7, F1QT89
      Related
      ENSDARP00000108083.2, ENSDART00000124662.4
      Conserved Domains (1) summary
      pfam02453
      Location:9173
      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_007117.7 Reference GRCz11 Primary Assembly

      Range
      6231382..6258524 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394624.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      114495..141637 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)