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RHO rhodopsin [ Sus scrofa (pig) ]

Gene ID: 397437, updated on 17-Aug-2024

Summary

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Official Symbol
RHOprovided by VGNC
Official Full Name
rhodopsinprovided by VGNC
Primary source
VGNC:VGNC:92283
See related
Ensembl:ENSSSCG00000011590
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Sus scrofa
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Also known as
PIGRHO1
Expression
Low expression observed in reference dataset See more
Orthologs
human mouse all
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Genomic context

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See RHO in Genome Data Viewer
Location:
chromosome: 13
Exon count:
5
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 13 NC_010455.5 (68908578..68913651)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) 13 NC_010455.4 (76135867..76140946)

Chromosome 13 - NC_010455.5Genomic Context describing neighboring genes Neighboring gene methyl-CpG binding domain 4, DNA glycosylase Neighboring gene intraflagellar transport 122 Neighboring gene H1.8 linker histone Neighboring gene plexin D1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
  • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
  • BioProject: PRJNA311523
  • Publication: PMID 27646534
  • Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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Related articles in PubMed

  1. Spatial arrangement of rhodopsin in retinal rod outer segment membranes studied by spin-labeling and pulsed electron double resonance. Yasuda S, et al. Biochem Biophys Res Commun, 2012 Aug 24. PMID 22842041
  2. Altered light responses of single rod photoreceptors in transgenic pigs expressing P347L or P347S rhodopsin. Kraft TW, et al. Mol Vis, 2005 Dec 31. PMID 16402026
  3. Genetically engineered large animal model for studying cone photoreceptor survival and degeneration in retinitis pigmentosa. Petters RM, et al. Nat Biotechnol, 1997 Oct. PMID 9335046
  4. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  5. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. the rhodopsin is densely packed in the retina and the rhodopsin molecules are not aligned well.
    Title: Spatial arrangement of rhodopsin in retinal rod outer segment membranes studied by spin-labeling and pulsed electron double resonance.
  2. Phototransduction, even when initiated by wild type rhodopsin, is altered in a way progressive with level of retinal degeneration. A model introduces idea of binding site for carboxy terminus of rhodopsin on rhodopsin kinase.
    Title: Altered light responses of single rod photoreceptors in transgenic pigs expressing P347L or P347S rhodopsin.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables G protein-coupled receptor activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in G protein-coupled receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in phototransduction IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in visual perception IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in photoreceptor outer segment IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
rhodopsin

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_214221.1 → NP_999386.1  rhodopsin

    See identical proteins and their annotated locations for NP_999386.1

    Status: PROVISIONAL

    Source sequence(s)
    AF008947
    UniProtKB/Swiss-Prot
    O18766
    UniProtKB/TrEMBL
    A0A4X1U875
    Related
    ENSSSCP00000012353.1, ENSSSCT00000012686.2
    Conserved Domains (3) summary
    pfam00001
    Location:55 → 306
    7tm_1; 7 transmembrane receptor (rhodopsin family)
    pfam10413
    Location:2 → 37
    Rhodopsin_N; Amino terminal of the G-protein receptor rhodopsin
    cl21561
    Location:43 → 323
    7tm_4; Olfactory receptor

RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

Reference Sscrofa11.1 Primary Assembly

Genomic

  1. NC_010455.5 Reference Sscrofa11.1 Primary Assembly

    Range
    68908578..68913651
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O18766.1 GenPept UniProtKB/Swiss-Prot:O18766

Gene LinkOut

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