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OPN1LW (opsin 1, long wave sensitive)

Identity

Alias_namesCBBM
RCP
CBP
color blindness, protan
red cone photoreceptor pigment
Alias_symbol (synonym)COD5
Other aliasROP
HGNC (Hugo) OPN1LW
LocusID (NCBI) 5956
Atlas_Id 56415
Location Xq28  [Link to chromosome band Xq28]
Location_base_pair Starts at 154144224 and ends at 154159032 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)
BGN (Xq28) / OPN1LW (Xq28)KAT6A (8p11.21) / OPN1LW (Xq28)KMT2A (11q23.3) / OPN1LW (Xq28)
PCLO (7q21.11) / OPN1LW (Xq28)PTMS (12p13.31) / OPN1LW (Xq28)

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)OPN1LW   9936
Cards
Entrez_Gene (NCBI)OPN1LW  5956  opsin 1, long wave sensitive
AliasesCBBM; CBP; COD5; RCP; 
ROP
GeneCards (Weizmann)OPN1LW
Ensembl hg19 (Hinxton)ENSG00000102076 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000102076 [Gene_View]  chrX:154144224-154159032 [Contig_View]  OPN1LW [Vega]
ICGC DataPortalENSG00000102076
TCGA cBioPortalOPN1LW
AceView (NCBI)OPN1LW
Genatlas (Paris)OPN1LW
WikiGenes5956
SOURCE (Princeton)OPN1LW
Genetics Home Reference (NIH)OPN1LW
Genomic and cartography
GoldenPath hg38 (UCSC)OPN1LW  -     chrX:154144224-154159032 +  Xq28   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)OPN1LW  -     Xq28   [Description]    (hg19-Feb_2009)
EnsemblOPN1LW - Xq28 [CytoView hg19]  OPN1LW - Xq28 [CytoView hg38]
Mapping of homologs : NCBIOPN1LW [Mapview hg19]  OPN1LW [Mapview hg38]
OMIM300822   303700   303900   
Gene and transcription
Genbank (Entrez)AW950066 BC156643 BM688032 BQ637240 BQ639996
RefSeq transcript (Entrez)NM_020061
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)OPN1LW
Cluster EST : UnigeneHs.592247 [ NCBI ]
CGAP (NCI)Hs.592247
Alternative Splicing GalleryENSG00000102076
Gene ExpressionOPN1LW [ NCBI-GEO ]   OPN1LW [ EBI - ARRAY_EXPRESS ]   OPN1LW [ SEEK ]   OPN1LW [ MEM ]
Gene Expression Viewer (FireBrowse)OPN1LW [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5956
GTEX Portal (Tissue expression)OPN1LW
Human Protein AtlasENSG00000102076-OPN1LW [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04000   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04000  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04000
Splice isoforms : SwissVarP04000
PhosPhoSitePlusP04000
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   
Conserved Domain (NCBI)OPN1LW
DMDM Disease mutations5956
Blocks (Seattle)OPN1LW
PDB (SRS)1KPX   
PDB (PDBSum)1KPX   
PDB (IMB)1KPX   
PDB (RSDB)1KPX   
Structural Biology KnowledgeBase1KPX   
SCOP (Structural Classification of Proteins)1KPX   
CATH (Classification of proteins structures)1KPX   
SuperfamilyP04000
Human Protein Atlas [tissue]ENSG00000102076-OPN1LW [tissue]
Peptide AtlasP04000
HPRD02366
IPIIPI00021724   IPI00789791   
Protein Interaction databases
DIP (DOE-UCLA)P04000
IntAct (EBI)P04000
FunCoupENSG00000102076
BioGRIDOPN1LW
STRING (EMBL)OPN1LW
ZODIACOPN1LW
Ontologies - Pathways
QuickGOP04000
Ontology : AmiGOretinoid metabolic process  photoreceptor outer segment  G-protein coupled receptor activity  integral component of plasma membrane  signal transduction  G-protein coupled receptor signaling pathway  visual perception  phototransduction  photoreceptor activity  protein-chromophore linkage  positive regulation of cytokinesis  photoreceptor outer segment membrane  
Ontology : EGO-EBIretinoid metabolic process  photoreceptor outer segment  G-protein coupled receptor activity  integral component of plasma membrane  signal transduction  G-protein coupled receptor signaling pathway  visual perception  phototransduction  photoreceptor activity  protein-chromophore linkage  positive regulation of cytokinesis  photoreceptor outer segment membrane  
NDEx NetworkOPN1LW
Atlas of Cancer Signalling NetworkOPN1LW
Wikipedia pathwaysOPN1LW
Orthology - Evolution
OrthoDB5956
GeneTree (enSembl)ENSG00000102076
Phylogenetic Trees/Animal Genes : TreeFamOPN1LW
HOVERGENP04000
HOGENOMP04000
Homologs : HomoloGeneOPN1LW
Homology/Alignments : Family Browser (UCSC)OPN1LW
Gene fusions - Rearrangements
Tumor Fusion PortalOPN1LW
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerOPN1LW [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)OPN1LW
dbVarOPN1LW
ClinVarOPN1LW
1000_GenomesOPN1LW 
Exome Variant ServerOPN1LW
ExAC (Exome Aggregation Consortium)ENSG00000102076
GNOMAD BrowserENSG00000102076
Genetic variants : HAPMAP5956
Genomic Variants (DGV)OPN1LW [DGVbeta]
DECIPHEROPN1LW [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisOPN1LW 
Mutations
ICGC Data PortalOPN1LW 
TCGA Data PortalOPN1LW 
Broad Tumor PortalOPN1LW
OASIS PortalOPN1LW [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICOPN1LW  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDOPN1LW
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Mendelian genes
LOVD (Leiden Open Variation Database)Eye diseases - LOVD
BioMutasearch OPN1LW
DgiDB (Drug Gene Interaction Database)OPN1LW
DoCM (Curated mutations)OPN1LW (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)OPN1LW (select a term)
intoGenOPN1LW
Cancer3DOPN1LW(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM300822    303700    303900   
Orphanet177    1843   
DisGeNETOPN1LW
MedgenOPN1LW
Genetic Testing Registry OPN1LW
NextProtP04000 [Medical]
TSGene5956
GENETestsOPN1LW
Target ValidationOPN1LW
Huge Navigator OPN1LW [HugePedia]
snp3D : Map Gene to Disease5956
BioCentury BCIQOPN1LW
ClinGenOPN1LW
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5956
Chemical/Pharm GKB GenePA31936
Clinical trialOPN1LW
Miscellaneous
canSAR (ICR)OPN1LW (select the gene name)
Probes
Litterature
PubMed48 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineOPN1LW
EVEXOPN1LW
GoPubMedOPN1LW
iHOPOPN1LW
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Nov 20 20:50:45 CET 2017

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