Atlas of Genetics and Cytogenetics in Oncology and Haematology

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OPN1MW (opsin 1, medium wave sensitive)

Identity

Alias_namesGCP
CBBM
CBD
color blindness, deutan
green cone photoreceptor pigment
opsin 1 (cone pigments), medium-wave-sensitive
Alias_symbol (synonym)OPN1MW1
COD5
Other aliasGOP
HGNC (Hugo) OPN1MW
LocusID (NCBI) 2652
Atlas_Id 56462
Location Xq28  [Link to chromosome band Xq28]
Location_base_pair Starts at 154182596 and ends at 154196861 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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)OPN1MW   4206
Cards
Entrez_Gene (NCBI)OPN1MW  2652  opsin 1, medium wave sensitive
AliasesCBBM; CBD; COD5; GCP; 
GOP; OPN1MW1
GeneCards (Weizmann)OPN1MW
Ensembl hg19 (Hinxton)ENSG00000268221 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000268221 [Gene_View]  ENSG00000268221 [Sequence]  chrX:154182596-154196861 [Contig_View]  OPN1MW [Vega]
ICGC DataPortalENSG00000268221
TCGA cBioPortalOPN1MW
AceView (NCBI)OPN1MW
Genatlas (Paris)OPN1MW
WikiGenes2652
SOURCE (Princeton)OPN1MW
Genetics Home Reference (NIH)OPN1MW
Genomic and cartography
GoldenPath hg38 (UCSC)OPN1MW  -     chrX:154182596-154196861 +  Xq28   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)OPN1MW  -     Xq28   [Description]    (hg19-Feb_2009)
GoldenPathOPN1MW - Xq28 [CytoView hg19]  OPN1MW - Xq28 [CytoView hg38]
ImmunoBaseENSG00000268221
Mapping of homologs : NCBIOPN1MW [Mapview hg19]  OPN1MW [Mapview hg38]
OMIM300821   303700   303800   
Gene and transcription
Genbank (Entrez)BC140938 BC143790 BC171754 BC171755
RefSeq transcript (Entrez)NM_000513
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)OPN1MW
Cluster EST : UnigeneHs.247787 [ NCBI ]
CGAP (NCI)Hs.247787
Alternative Splicing GalleryENSG00000268221
Gene ExpressionOPN1MW [ NCBI-GEO ]   OPN1MW [ EBI - ARRAY_EXPRESS ]   OPN1MW [ SEEK ]   OPN1MW [ MEM ]
Gene Expression Viewer (FireBrowse)OPN1MW [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)2652
GTEX Portal (Tissue expression)OPN1MW
Human Protein AtlasENSG00000268221-OPN1MW [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04001   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04001  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04001
Splice isoforms : SwissVarP04001
PhosPhoSitePlusP04001
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    Opsin_red/grn    Retinal_BS   
Domain families : Pfam (Sanger)7tm_1 (PF00001)   
Domain families : Pfam (NCBI)pfam00001   
Domain families : Smart (EMBL)7TM_GPCR_Srsx (SM01381)  
Conserved Domain (NCBI)OPN1MW
DMDM Disease mutations2652
Blocks (Seattle)OPN1MW
PDB (RSDB)1KPW   
PDB Europe1KPW   
PDB (PDBSum)1KPW   
PDB (IMB)1KPW   
Structural Biology KnowledgeBase1KPW   
SCOP (Structural Classification of Proteins)1KPW   
CATH (Classification of proteins structures)1KPW   
SuperfamilyP04001
Human Protein Atlas [tissue]ENSG00000268221-OPN1MW [tissue]
Peptide AtlasP04001
HPRD02365
IPIIPI00021725   IPI00956396   IPI00956181   
Protein Interaction databases
DIP (DOE-UCLA)P04001
IntAct (EBI)P04001
FunCoupENSG00000268221
BioGRIDOPN1MW
STRING (EMBL)OPN1MW
ZODIACOPN1MW
Ontologies - Pathways
QuickGOP04001
Ontology : AmiGOretinoid metabolic process  photoreceptor outer segment  plasma membrane  integral component of plasma membrane  G protein-coupled receptor signaling pathway  G protein-coupled receptor signaling pathway  visual perception  phototransduction  G protein-coupled photoreceptor activity  detection of visible light  photoreceptor activity  protein-chromophore linkage  positive regulation of cytokinesis  identical protein binding  cellular response to light stimulus  photoreceptor disc membrane  
Ontology : EGO-EBIretinoid metabolic process  photoreceptor outer segment  plasma membrane  integral component of plasma membrane  G protein-coupled receptor signaling pathway  G protein-coupled receptor signaling pathway  visual perception  phototransduction  G protein-coupled photoreceptor activity  detection of visible light  photoreceptor activity  protein-chromophore linkage  positive regulation of cytokinesis  identical protein binding  cellular response to light stimulus  photoreceptor disc membrane  
NDEx NetworkOPN1MW
Atlas of Cancer Signalling NetworkOPN1MW
Wikipedia pathwaysOPN1MW
Orthology - Evolution
OrthoDB2652
GeneTree (enSembl)ENSG00000268221
Phylogenetic Trees/Animal Genes : TreeFamOPN1MW
HOGENOMP04001
Homologs : HomoloGeneOPN1MW
Homology/Alignments : Family Browser (UCSC)OPN1MW
Gene fusions - Rearrangements
Fusion : QuiverOPN1MW
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerOPN1MW [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)OPN1MW
dbVarOPN1MW
ClinVarOPN1MW
1000_GenomesOPN1MW 
Exome Variant ServerOPN1MW
ExAC (Exome Aggregation Consortium)ENSG00000268221
GNOMAD BrowserENSG00000268221
Varsome BrowserOPN1MW
Genetic variants : HAPMAP2652
Genomic Variants (DGV)OPN1MW [DGVbeta]
DECIPHEROPN1MW [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisOPN1MW 
Mutations
ICGC Data PortalOPN1MW 
TCGA Data PortalOPN1MW 
Broad Tumor PortalOPN1MW
OASIS PortalOPN1MW [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICOPN1MW  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DOPN1MW
Mutations and Diseases : HGMDOPN1MW
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
BioMutasearch OPN1MW
DgiDB (Drug Gene Interaction Database)OPN1MW
DoCM (Curated mutations)OPN1MW (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)OPN1MW (select a term)
intoGenOPN1MW
Cancer3DOPN1MW(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM300821    303700    303800   
Orphanet177    1843   
DisGeNETOPN1MW
MedgenOPN1MW
Genetic Testing Registry OPN1MW
NextProtP04001 [Medical]
TSGene2652
GENETestsOPN1MW
Target ValidationOPN1MW
Huge Navigator OPN1MW [HugePedia]
snp3D : Map Gene to Disease2652
BioCentury BCIQOPN1MW
ClinGenOPN1MW
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD2652
Chemical/Pharm GKB GenePA31937
Clinical trialOPN1MW
Miscellaneous
canSAR (ICR)OPN1MW (select the gene name)
DataMed IndexOPN1MW
Probes
Litterature
PubMed36 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineOPN1MW
EVEXOPN1MW
GoPubMedOPN1MW
iHOPOPN1MW
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Nov 13 17:59:09 CET 2019
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