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    Opn1sw opsin 1, short wave sensitive [ Rattus norvegicus (Norway rat) ]

    Gene ID: 81644, updated on 4-Jan-2025

    Summary

    Official Symbol
    Opn1swprovided by RGD
    Official Full Name
    opsin 1, short wave sensitiveprovided by RGD
    Primary source
    RGD:621033
    See related
    EnsemblRapid:ENSRNOG00000006874 AllianceGenome:RGD:621033
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable G protein-coupled photoreceptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway; cellular response to UV-A; and phototransduction. Located in cell body; photoreceptor outer segment; and terminal bouton. Human ortholog(s) of this gene implicated in blue color blindness. Orthologous to human OPN1SW (opsin 1, short wave sensitive). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in Spleen (RPKM 2.3), Uterus (RPKM 2.2) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Opn1sw in Genome Data Viewer
    Location:
    4q22
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (58942685..58945825, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (57977317..57980457, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (56653840..56656980, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene golgi associated RAB2 interactor 1B Neighboring gene calumenin Neighboring gene transfer RNA proline (anticodon AGG) 6 Neighboring gene coiled-coil domain containing 136

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables G protein-coupled photoreceptor activity  
    enables G protein-coupled receptor activity  
    enables photoreceptor activity  
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway  
    involved_in G protein-coupled receptor signaling pathway  
    involved_in biological_process  
    involved_in cellular response to UV-A  
    involved_in cellular response to UV-A  
    involved_in cellular response to UV-A  
    involved_in cellular response to light stimulus  
    involved_in detection of visible light  
    involved_in phototransduction  
    involved_in phototransduction  
    involved_in visual perception  
    Items 1 - 20 of 21
    Component Evidence Code Pubs
    located_in cell body PubMed 
    located_in cone photoreceptor outer segment  
    located_in cone photoreceptor outer segment  
    located_in cytosol  
    located_in cytosol  
    located_in intercellular bridge  
    located_in intercellular bridge  
    located_in nucleoplasm  
    located_in nucleoplasm  
    located_in perinuclear region of cytoplasm  
    located_in perinuclear region of cytoplasm  
    located_in perinuclear region of cytoplasm  
    located_in photoreceptor inner segment  
    is_active_in photoreceptor outer segment  
    located_in photoreceptor outer segment PubMed 
    located_in photoreceptor outer segment  
    is_active_in plasma membrane  
    located_in plasma membrane  
    located_in plasma membrane  
    located_in plasma membrane  
    located_in terminal bouton PubMed 
    Items 1 - 20 of 21

    General protein information

    Preferred Names
    short-wave-sensitive opsin 1
    Names
    BOP
    blue cone opsin-like pigment
    blue cone photoreceptor pigment
    blue-sensitive opsin
    opsin 1 (cone pigments), short-wave-sensitive (color blindness, tritan)
    s opsin
    short wavelength-sensitive cone opsin

    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_031015.2NP_112277.2  short-wave-sensitive opsin 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      O70363, Q63652
      UniProtKB/TrEMBL
      A6IEC9, G3V6V4
      Related
      ENSRNOP00000009278.1, ENSRNOT00000009278.5
      Conserved Domains (1) summary
      cd15076
      Location:33312
      7tmA_SWS1_opsin; short wave-sensitive 1 opsins, member of the class A family of seven-transmembrane G protein-coupled receptors

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      58942685..58945825 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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