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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 hg19 (Hinxton)ENSG00000163914 [Gene_View]  chr3:129247482-129254187 [Contig_View]  RHO [Vega]
Ensembl hg38 (Hinxton)ENSG00000163914 [Gene_View]  chr3:129247482-129254187 [Contig_View]  RHO [Vega]
ICGC DataPortalENSG00000163914
cBioPortalRHO
AceView (NCBI)RHO
Genatlas (Paris)RHO
WikiGenes6010
SOURCE (Princeton)RHO
Genomic and cartography
GoldenPath hg19 (UCSC)RHO  -     chr3:129247482-129254187 +  3q22.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)RHO  -     3q22.1   [Description]    (hg38-Dec_2013)
EnsemblRHO - 3q22.1 [CytoView hg19]  RHO - 3q22.1 [CytoView hg38]
Mapping of homologs : NCBIRHO [Mapview hg19]  RHO [Mapview hg38]
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 ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
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    GPCR_Rhodpsn_7TM    Opsin    Retinal_BS    Rhodopsin    Rhodopsin_N   
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
Peptide AtlasP08100
HPRD01584
IPIIPI00027391   IPI00930164   
Protein Interaction databases
DIP (DOE-UCLA)P08100
IntAct (EBI)P08100
FunCoupENSG00000163914
BioGRIDRHO
IntegromeDBRHO
STRING (EMBL)RHO
Ontologies - Pathways
QuickGOP08100
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
DoCM (Curated mutations)RHO
Wikipedia pathwaysRHO
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerRHO [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RHO
dbVarRHO
ClinVarRHO
1000_GenomesRHO 
Exome Variant ServerRHO
SNP (GeneSNP Utah)RHO
SNP : HGBaseRHO
Genetic variants : HAPMAPRHO
Genomic VariantsRHO  RHO [DGVbeta]
Mutations
ICGC Data PortalENSG00000163914 
Somatic Mutations in Cancer : COSMICRHO 
CONAN: Copy Number AnalysisRHO 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Eye diseases - LOVD
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)3:129247482-129254187
Mutations and Diseases : HGMDRHO
OMIM136880    180380    610445    613731   
MedgenRHO
NextProtP08100 [Medical]
GENETestsRHO
Disease Genetic AssociationRHO
Huge Navigator RHO [HugePedia]  RHO [HugeCancerGEM]
snp3D : Map Gene to Disease6010
DGIdb (Drug Gene Interaction db)RHO
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
GoPubMedRHO
iHOPRHO
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
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sun Dec 21 01:10:36 CET 2014

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