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Aliases for RGR Gene

Aliases for RGR Gene

  • Retinal G Protein Coupled Receptor 2 3
  • RGR-Opsin 2 3
  • RP44 3 6
  • RPE Retinal G-Protein Coupled Receptor 3
  • RPE-Retinal G Protein-Coupled Receptor 3

External Ids for RGR Gene

Summaries for RGR Gene

Entrez Gene Summary for RGR Gene

  • This gene encodes a putative retinal G-protein coupled receptor. The gene is a member of the opsin subfamily of the 7 transmembrane, G-protein coupled receptor 1 family. Like other opsins which bind retinaldehyde, it contains a conserved lysine residue in the seventh transmembrane domain. The protein acts as a photoisomerase to catalyze the conversion of all-trans-retinal to 11-cis-retinal. The reverse isomerization occurs with rhodopsin in retinal photoreceptor cells. The protein is exclusively expressed in tissue adjacent to retinal photoreceptor cells, the retinal pigment epithelium and Mueller cells. This gene may be associated with autosomal recessive and autosomal dominant retinitis pigmentosa (arRP and adRP, respectively). Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]

GeneCards Summary for RGR Gene

RGR (Retinal G Protein Coupled Receptor) is a Protein Coding gene. Diseases associated with RGR include retinitis pigmentosa 44 and rgr-related retinitis pigmentosa. Among its related pathways are Signaling by GPCR and Signaling by GPCR. GO annotations related to this gene include G-protein coupled receptor activity and photoreceptor activity. An important paralog of this gene is OPN1SW.

UniProtKB/Swiss-Prot for RGR Gene

  • Receptor for all-trans- and 11-cis-retinal. Binds preferentially to the former and may catalyze the isomerization of the chromophore by a retinochrome-like mechanism

Gene Wiki entry for RGR Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RGR Gene

Genomics for RGR Gene

Genomic Location for RGR Gene

Start:
84,245,053 bp from pter
End:
84,259,960 bp from pter
Size:
14,908 bases
Orientation:
Plus strand

Genomic View for RGR Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RGR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RGR Gene

Regulatory Elements for RGR Gene

Proteins for RGR Gene

  • Protein details for RGR Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P47804-RGR_HUMAN
    Recommended name:
    RPE-retinal G protein-coupled receptor
    Protein Accession:
    P47804
    Secondary Accessions:
    • A6NKK7
    • Q96FC5

    Protein attributes for RGR Gene

    Size:
    291 amino acids
    Molecular mass:
    31874 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for RGR Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RGR Gene

Proteomics data for RGR Gene at MOPED

Post-translational modifications for RGR Gene

Other Protein References for RGR Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for RGR Gene

Domains for RGR Gene

Gene Families for RGR Gene

HGNC:
  • OPN :GPCR / Class A : Opsin receptors

UniProtKB/Swiss-Prot:

RGR_HUMAN
Family:
  • Belongs to the G-protein coupled receptor 1 family. Opsin subfamily.:
    • P47804
genes like me logo Genes that share domains with RGR: view

Function for RGR Gene

Molecular function for RGR Gene

GENATLAS Biochemistry: retinal opsin related,(rhodopsin homolog)expressed in the retinal pigment epithelium,encoding a retinaldehyde,preferentially all-trans retinal,binding protein,G protein coupled receptor superfamily
UniProtKB/Swiss-Prot Function: Receptor for all-trans- and 11-cis-retinal. Binds preferentially to the former and may catalyze the isomerization of the chromophore by a retinochrome-like mechanism

Gene Ontology (GO) - Molecular Function for RGR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004930 G-protein coupled receptor activity TAS 8641686
GO:0004950 chemokine receptor activity IEA --
GO:0005515 protein binding IPI 16189514
GO:0009881 photoreceptor activity IEA --
genes like me logo Genes that share ontologies with RGR: view

Phenotypes for RGR Gene

MGI mutant phenotypes for RGR:
inferred from 1 alleles
genes like me logo Genes that share phenotypes with RGR: view

Animal Models for RGR Gene

MGI Knock Outs for RGR:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for RGR Gene

Localization for RGR Gene

Subcellular locations from UniProtKB/Swiss-Prot for RGR Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RGR Gene COMPARTMENTS Subcellular localization image for RGR gene
Compartment Confidence
plasma membrane 4

Gene Ontology (GO) - Cellular Components for RGR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane IEA --
GO:0016021 integral component of membrane --
genes like me logo Genes that share ontologies with RGR: view

Pathways for RGR Gene

genes like me logo Genes that share pathways with RGR: view

Gene Ontology (GO) - Biological Process for RGR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006935 chemotaxis IEA --
GO:0007186 G-protein coupled receptor signaling pathway IEA --
GO:0007601 visual perception IEA --
GO:0007602 phototransduction IEA --
GO:0018298 protein-chromophore linkage IEA --
genes like me logo Genes that share ontologies with RGR: view

Compounds for RGR Gene

(1) HMDB Compounds for RGR Gene

Compound Synonyms Cas Number PubMed IDs
Retinal
  • 3,7-dimethyl-9-(2,6,6-trimethyl-1-cyclohexen-1-yl)-2,4,6,8-Nonatetraenal
116-31-4

(3) Novoseek inferred chemical compound relationships for RGR Gene

Compound -log(P) Hits PubMed IDs
11-cis-retinol 81.5 1
retinoid 69 2
vitamin a 51.2 1
genes like me logo Genes that share compounds with RGR: view

Transcripts for RGR Gene

Unigene Clusters for RGR Gene

Retinal G protein coupled receptor:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RGR Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d · 9e
SP1: - - - -
SP2: - - -
SP3: - -
SP4: - - - - - - -
SP5: - - - - -
SP6: - -
SP7: -
SP8:

Relevant External Links for RGR Gene

GeneLoc Exon Structure for
RGR
ECgene alternative splicing isoforms for
RGR

Expression for RGR Gene

mRNA expression in normal human tissues for RGR Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RGR Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (6.6), Brain - Caudate (basal ganglia) (6.4), Brain - Cortex (6.0), Brain - Frontal Cortex (BA9) (5.7), Brain - Amygdala (5.3), and Brain - Anterior cingulate cortex (BA24) (4.4).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for RGR Gene

SOURCE GeneReport for Unigene cluster for RGR Gene Hs.1544

mRNA Expression by UniProt/SwissProt for RGR Gene

P47804-RGR_HUMAN
Tissue specificity: Preferentially expressed at high levels in the retinal pigment epithelium (RPE) and Mueller cells of the neural retina
genes like me logo Genes that share expressions with RGR: view

Orthologs for RGR Gene

This gene was present in the common ancestor of chordates.

Orthologs for RGR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RGR 36
  • 98.74 (n)
  • 98.97 (a)
RGR 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RGR 36
  • 85.57 (n)
  • 86.25 (a)
RGR 37
  • 86 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RGR 36
  • 83.39 (n)
  • 80.41 (a)
RGR 37
  • 80 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rgr 36
  • 81.9 (n)
  • 81.44 (a)
Rgr 16
Rgr 37
  • 81 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RGR 37
  • 59 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rgr 36
  • 81.44 (n)
  • 80.76 (a)
chicken
(Gallus gallus)
Aves RGR 36
  • 67.25 (n)
  • 63.07 (a)
RGR 37
  • 62 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RGR 37
  • 56 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.17609 36
tropical clawed frog
(Silurana tropicalis)
Amphibia rgr 36
  • 61.97 (n)
  • 61.51 (a)
zebrafish
(Danio rerio)
Actinopterygii rgra 36
  • 62.12 (n)
  • 57.34 (a)
rgra 37
  • 56 (a)
OneToOne
Species with no ortholog for RGR:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RGR Gene

ENSEMBL:
Gene Tree for RGR (if available)
TreeFam:
Gene Tree for RGR (if available)

Paralogs for RGR Gene

Paralogs for RGR Gene

Selected SIMAP similar genes for RGR Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RGR: view

Variants for RGR Gene

Sequence variations from dbSNP and Humsavar for RGR Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type MAF
rs3526 -- 84,258,704(+) GCCTC(A/G)GTGGC utr-variant-3-prime
rs736138 -- 84,256,904(+) ACCGC(C/G)TAGCC intron-variant
rs736139 -- 84,256,957(+) GGCCC(C/T)GAGGT intron-variant
rs736140 -- 84,256,985(+) GTGGG(G/T)TTTTT intron-variant
rs736141 -- 84,256,734(+) GGAGG(C/T)GCAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RGR Gene

Variant ID Type Subtype PubMed ID
nsv895828 CNV Loss 21882294
nsv527522 CNV Loss 19592680

Relevant External Links for RGR Gene

HapMap Linkage Disequilibrium report
RGR
Human Gene Mutation Database (HGMD)
RGR
Locus Specific Mutation Databases (LSDB)
RGR

Disorders for RGR Gene

(1) OMIM Diseases for RGR Gene (600342)

UniProtKB/Swiss-Prot

RGR_HUMAN
  • Retinitis pigmentosa 44 (RP44) [MIM:613769]: A retinal dystrophy belonging to the group of pigmentary retinopathies. Retinitis pigmentosa is characterized by retinal pigment deposits visible on fundus examination and primary loss of rod photoreceptor cells followed by secondary loss of cone photoreceptors. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. {ECO:0000269 PubMed:10581022}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(2) University of Copenhagen DISEASES for RGR Gene

(1) Novoseek inferred disease relationships for RGR Gene

Disease -log(P) Hits PubMed IDs
retinitis pigmentosa 77.3 4

Relevant External Links for RGR

Genetic Association Database (GAD)
RGR
Human Genome Epidemiology (HuGE) Navigator
RGR
genes like me logo Genes that share disorders with RGR: view

Publications for RGR Gene

  1. Mutations in RGR, encoding a light-sensitive opsin homologue, in patients with retinitis pigmentosa. (PMID: 10581022) Morimura H. … Dryja T.P. (Nat. Genet. 1999) 3 4 23
  2. A human opsin-related gene that encodes a retinaldehyde-binding protein. (PMID: 7947717) Shen D. … Fong H.K.W. (Biochemistry 1994) 3 4 23
  3. Localization of the human RGR opsin gene to chromosome 10q23. (PMID: 8641686) Chen X.N. … Fong H.K. (Hum. Genet. 1996) 2 3 23
  4. Deposition of exon-skipping splice isoform of human retinal G protein-coupled receptor from retinal pigment epithelium into Bruch's membrane. (PMID: 17679941) Lin M.Y. … Fong H.K. (Mol. Vis. 2007) 3 23
  5. Retinal pigment epithelium-retinal G protein receptor-opsin mediates light-dependent translocation of all-trans-retinyl esters for synthesis of visual chromophore in retinal pigment epithelial cells. (PMID: 18474598) Radu R.A. … Travis G.H. (J. Biol. Chem. 2008) 3 23

Products for RGR Gene

Sources for RGR Gene

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