Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RHO (rhodopsin)

Identity

Other namesCSNBAD1
OPN2
RP4
HGNC (Hugo) RHO
LocusID (NCBI) 6010
Location 3q22.1
Location_base_pair Starts at 129247482 and ends at 129254187 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)RHO   10012
Cards
Entrez_Gene (NCBI)RHO  6010  rhodopsin
GeneCards (Weizmann)RHO
Ensembl (Hinxton)ENSG00000163914 [Gene_View]  chr3:129247482-129254187 [Contig_View]  RHO [Vega]
ICGC DataPortalENSG00000163914
cBioPortalRHO
AceView (NCBI)RHO
Genatlas (Paris)RHO
WikiGenes6010
SOURCE (Princeton)NM_000539
Genomic and cartography
GoldenPath (UCSC)RHO  -  3q22.1   chr3:129247482-129254187 +  3q22.1   [Description]    (hg19-Feb_2009)
EnsemblRHO - 3q22.1 [CytoView]
Mapping of homologs : NCBIRHO [Mapview]
OMIM136880   180380   610445   613731   
Gene and transcription
Genbank (Entrez)AM392780 BC111451 BC112104 BC112106 BX537381
RefSeq transcript (Entrez)NM_000539
RefSeq genomic (Entrez)AC_000135 NC_000003 NC_018914 NG_009115 NT_005612 NW_001838884 NW_004929311
Consensus coding sequences : CCDS (NCBI)RHO
Cluster EST : UnigeneHs.247565 [ NCBI ]
CGAP (NCI)Hs.247565
Alternative Splicing : Fast-db (Paris)GSHG0021144
Alternative Splicing GalleryENSG00000163914
Gene ExpressionRHO [ NCBI-GEO ]     RHO [ SEEK ]   RHO [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP08100 (Uniprot)
NextProtP08100  [Medical]
With graphics : InterProP08100
Splice isoforms : SwissVarP08100 (Swissvar)
Domaine pattern : Prosite (Expaxy)G_PROTEIN_RECEP_F1_1 (PS00237)    G_PROTEIN_RECEP_F1_2 (PS50262)    OPSIN (PS00238)   
Domains : Interpro (EBI)GPCR_Rhodpsn [organisation]   GPCR_Rhodpsn_7TM [organisation]   Opsin [organisation]   Retinal_BS [organisation]   Rhodopsin [organisation]   Rhodopsin_N [organisation]  
Related proteins : CluSTrP08100
Domain families : Pfam (Sanger)7tm_1 (PF00001)    Rhodopsin_N (PF10413)   
Domain families : Pfam (NCBI)pfam00001    pfam10413   
DMDM Disease mutations6010
Blocks (Seattle)P08100
Human Protein AtlasENSG00000163914 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasP08100
HPRD01584
IPIIPI00027391   IPI00930164   
Protein Interaction databases
DIP (DOE-UCLA)P08100
IntAct (EBI)P08100
FunCoupENSG00000163914
BioGRIDRHO
InParanoidP08100
Interologous Interaction database P08100
IntegromeDBRHO
STRING (EMBL)RHO
Ontologies - Pathways
Ontology : AmiGOretinoid metabolic process  photoreceptor outer segment  photoreceptor inner segment  G-protein coupled receptor activity  protein binding  Golgi apparatus  plasma membrane  integral component of plasma membrane  protein phosphorylation  G-protein coupled receptor signaling pathway  visual perception  phototransduction, visible light  red, far-red light phototransduction  photoreceptor activity  rhodopsin mediated signaling pathway  retinal binding  protein-chromophore linkage  regulation of rhodopsin mediated signaling pathway  rough endoplasmic reticulum membrane  photoreceptor outer segment membrane  metal ion binding  retina development in camera-type eye  photoreceptor inner segment membrane  photoreceptor disc membrane  
Ontology : EGO-EBIretinoid metabolic process  photoreceptor outer segment  photoreceptor inner segment  G-protein coupled receptor activity  protein binding  Golgi apparatus  plasma membrane  integral component of plasma membrane  protein phosphorylation  G-protein coupled receptor signaling pathway  visual perception  phototransduction, visible light  red, far-red light phototransduction  photoreceptor activity  rhodopsin mediated signaling pathway  retinal binding  protein-chromophore linkage  regulation of rhodopsin mediated signaling pathway  rough endoplasmic reticulum membrane  photoreceptor outer segment membrane  metal ion binding  retina development in camera-type eye  photoreceptor inner segment membrane  photoreceptor disc membrane  
Pathways : BIOCARTAVisual Signal Transduction [Genes]   
Pathways : KEGGPhototransduction   
Protein Interaction DatabaseRHO
Wikipedia pathwaysRHO
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)RHO
snp3D : Map Gene to Disease6010
SNP (GeneSNP Utah)RHO
SNP : HGBaseRHO
Genetic variants : HAPMAPRHO
Exome VariantRHO
1000_GenomesRHO 
ICGC programENSG00000163914 
Somatic Mutations in Cancer : COSMICRHO 
CONAN: Copy Number AnalysisRHO 
Mutations and Diseases : HGMDRHO
Genomic VariantsRHO  RHO [DGVbeta]
dbVarRHO
ClinVarRHO
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM136880    180380    610445    613731   
MedgenRHO
GENETestsRHO
Disease Genetic AssociationRHO
Huge Navigator RHO [HugePedia]  RHO [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneRHO
Homology/Alignments : Family Browser (UCSC)RHO
Phylogenetic Trees/Animal Genes : TreeFamRHO
Chemical/Protein Interactions : CTD6010
Chemical/Pharm GKB GenePA34390
Clinical trialRHO
Cancer Resource (Charite)ENSG00000163914
Other databases
Probes
Litterature
PubMed175 Pubmed reference(s) in Entrez
CoreMineRHO
iHOPRHO
OncoSearchRHO
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jul 30 14:13:13 CEST 2014

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