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RHO (rhodopsin)

Identity

Other namesCSNBAD1
OPN2
RP4
HGNC (Hugo) RHO
LocusID (NCBI) 6010
Atlas_Id 42106
Location 3q22.1
Location_base_pair Starts at 129247482 and ends at 129254187 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
RHO (3q22.1) / RHO (3q22.1)

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
TCGA 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)NC_000003 NC_018914 NG_009115 NT_005612 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 [ EBI - ARRAY_EXPRESS ]   RHO [ SEEK ]   RHO [ MEM ]
Gene Expression Viewer (FireBrowse)RHO [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)6010
Protein : pattern, domain, 3D structure
UniProt/SwissProtP08100 (Uniprot)
NextProtP08100  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP08100
Splice isoforms : SwissVarP08100 (Swissvar)
PhosPhoSitePlusP08100
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   
Domain families : Pfam (Sanger)7tm_1 (PF00001)    Rhodopsin_N (PF10413)   
Domain families : Pfam (NCBI)pfam00001    pfam10413   
DMDM Disease mutations6010
Blocks (Seattle)RHO
PDB (SRS)4ZWJ   
PDB (PDBSum)4ZWJ   
PDB (IMB)4ZWJ   
PDB (RSDB)4ZWJ   
Structural Biology KnowledgeBase4ZWJ   
SCOP (Structural Classification of Proteins)4ZWJ   
CATH (Classification of proteins structures)4ZWJ   
SuperfamilyP08100
Human Protein AtlasENSG00000163914
Peptide AtlasP08100
HPRD01584
IPIIPI00027391   IPI00930164   
Protein Interaction databases
DIP (DOE-UCLA)P08100
IntAct (EBI)P08100
FunCoupENSG00000163914
BioGRIDRHO
STRING (EMBL)RHO
ZODIACRHO
Ontologies - Pathways
QuickGOP08100
Ontology : AmiGOGolgi membrane  retinoid metabolic process  photoreceptor outer segment  photoreceptor inner segment  G-protein coupled receptor activity  protein binding  Golgi apparatus  plasma membrane  integral component of plasma membrane  cell-cell junction  protein phosphorylation  G-protein coupled receptor signaling pathway  visual perception  phototransduction, visible light  G-protein coupled photoreceptor activity  red, far-red light phototransduction  absorption of visible light  rhodopsin mediated signaling pathway  retinal binding  protein-chromophore linkage  regulation of rhodopsin mediated signaling pathway  Golgi-associated vesicle membrane  rough endoplasmic reticulum membrane  photoreceptor outer segment membrane  photoreceptor cell maintenance  metal ion binding  retina development in camera-type eye  ciliary membrane  photoreceptor inner segment membrane  photoreceptor disc membrane  
Ontology : EGO-EBIGolgi membrane  retinoid metabolic process  photoreceptor outer segment  photoreceptor inner segment  G-protein coupled receptor activity  protein binding  Golgi apparatus  plasma membrane  integral component of plasma membrane  cell-cell junction  protein phosphorylation  G-protein coupled receptor signaling pathway  visual perception  phototransduction, visible light  G-protein coupled photoreceptor activity  red, far-red light phototransduction  absorption of visible light  rhodopsin mediated signaling pathway  retinal binding  protein-chromophore linkage  regulation of rhodopsin mediated signaling pathway  Golgi-associated vesicle membrane  rough endoplasmic reticulum membrane  photoreceptor outer segment membrane  photoreceptor cell maintenance  metal ion binding  retina development in camera-type eye  ciliary membrane  photoreceptor inner segment membrane  photoreceptor disc membrane  
Pathways : BIOCARTAVisual Signal Transduction [Genes]   
Pathways : KEGGPhototransduction   
NDEx Network
Atlas of Cancer Signalling NetworkRHO
Wikipedia pathwaysRHO
Orthology - Evolution
OrthoDB6010
GeneTree (enSembl)ENSG00000163914
Phylogenetic Trees/Animal Genes : TreeFamRHO
Homologs : HomoloGeneRHO
Homology/Alignments : Family Browser (UCSC)RHO
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerRHO [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RHO
dbVarRHO
ClinVarRHO
1000_GenomesRHO 
Exome Variant ServerRHO
ExAC (Exome Aggregation Consortium)RHO (select the gene name)
SNP (GeneSNP Utah)RHO
SNP : HGBaseRHO
Genetic variants : HAPMAPRHO
Genomic Variants (DGV)RHO [DGVbeta]
Mutations
ICGC Data PortalRHO 
TCGA Data PortalRHO 
Broad Tumor PortalRHO
OASIS PortalRHO [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRHO 
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
BioMutasearch RHO
DgiDB (Drug Gene Interaction Database)RHO
DoCM (Curated mutations)RHO (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RHO (select a term)
intoGenRHO
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)3:129247482-129254187
CONAN: Copy Number AnalysisRHO 
Mutations and Diseases : HGMDRHO
OMIM136880    180380    610445    613731   
MedgenRHO
Genetic Testing Registry RHO
NextProtP08100 [Medical]
TSGene6010
GENETestsRHO
Huge Navigator RHO [HugePedia]  RHO [HugeCancerGEM]
snp3D : Map Gene to Disease6010
BioCentury BCIQRHO
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6010
Chemical/Pharm GKB GenePA34390
Clinical trialRHO
Miscellaneous
canSAR (ICR)RHO (select the gene name)
Probes
Litterature
PubMed195 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRHO
GoPubMedRHO
iHOPRHO
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Apr 16 18:02:11 CEST 2016

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