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    rom1a retinal outer segment membrane protein 1a [ Danio rerio (zebrafish) ]

    Gene ID: 393767, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rom1aprovided by ZNC
    Official Full Name
    retinal outer segment membrane protein 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1765
    See related
    Ensembl:ENSDARG00000019752 AllianceGenome:ZFIN:ZDB-GENE-040426-1765
    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:73336; zgc:77401
    Summary
    Predicted to be involved in protein localization to plasma membrane and protein maturation. Predicted to act upstream of or within visual perception. Predicted to be located in membrane. Predicted to be active in plasma membrane. Is expressed in retina. Human ortholog(s) of this gene implicated in retinitis pigmentosa 7. Orthologous to human ROM1 (retinal outer segment membrane protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rom1a in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (67126770..67145515, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (66448401..66467146, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene fibronectin leucine rich transmembrane protein 1a Neighboring gene ribosomal protein S6 kinase, polypeptide 4 Neighboring gene si:dkey-273o13.3 Neighboring gene cell division cycle associated 5

    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. A tapt1 knock-out zebrafish line with aberrant lens development and impaired vision models human early-onset cataract. Jarayseh T, et al. Hum Genet, 2023 Mar. PMID 36697720
    2. An epigenetic mechanism for cavefish eye degeneration. Gore AV, et al. Nat Ecol Evol, 2018 Jul. PMID 29807993, Free PMC Article
    3. Quantitative genetic analysis of retinal degeneration in the blind cavefish Astyanax mexicanus. O'Quin KE, et al. PLoS One, 2013. PMID 23437360, Free PMC Article
    4. Expressed sequence tag analysis of zebrafish eye tissues for NEIBank. Vihtelic TS, et al. Mol Vis, 2005 Dec 13. PMID 16379021
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC73336

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in protein localization to plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within visual perception IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    rod outer segment membrane protein 1a
    Names
    peripherin-2

    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_200794.3 → NP_957088.1  rod outer segment membrane protein 1a

      See identical proteins and their annotated locations for NP_957088.1

      Status: VALIDATED

      Source sequence(s)
      BX897741
      UniProtKB/TrEMBL
      Q6NYK2, Q6PBM5
      Related
      ENSDARP00000017853.8, ENSDART00000011295.9
      Conserved Domains (2) summary
      cd03162
      Location:120 → 262
      peripherin_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), peripherin_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment ...
      pfam00335
      Location:20 → 288
      Tetraspannin; Tetraspanin family

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      67126770..67145515 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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