Atlas of Genetics and Cytogenetics in Oncology and Haematology


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OPTC (opticin)

Identity

Other aliasOPT
HGNC (Hugo) OPTC
LocusID (NCBI) 26254
Atlas_Id 71138
Location 1q32.1  [Link to chromosome band 1q32]
Location_base_pair Starts at 203463271 and ends at 203478077 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)OPTC   8158
Cards
Entrez_Gene (NCBI)OPTC  26254  opticin
AliasesOPT
GeneCards (Weizmann)OPTC
Ensembl hg19 (Hinxton)ENSG00000188770 [Gene_View]  chr1:203463271-203478077 [Contig_View]  OPTC [Vega]
Ensembl hg38 (Hinxton)ENSG00000188770 [Gene_View]  chr1:203463271-203478077 [Contig_View]  OPTC [Vega]
ICGC DataPortalENSG00000188770
TCGA cBioPortalOPTC
AceView (NCBI)OPTC
Genatlas (Paris)OPTC
WikiGenes26254
SOURCE (Princeton)OPTC
Genetics Home Reference (NIH)OPTC
Genomic and cartography
GoldenPath hg19 (UCSC)OPTC  -     chr1:203463271-203478077 +  1q32.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)OPTC  -     1q32.1   [Description]    (hg38-Dec_2013)
EnsemblOPTC - 1q32.1 [CytoView hg19]  OPTC - 1q32.1 [CytoView hg38]
Mapping of homologs : NCBIOPTC [Mapview hg19]  OPTC [Mapview hg38]
OMIM605127   
Gene and transcription
Genbank (Entrez)AF161702 AJ133790 AY077681 BC074942 BC074943
RefSeq transcript (Entrez)NM_014359
RefSeq genomic (Entrez)NC_000001 NC_018912 NG_022886 NT_004487 NW_004929293
Consensus coding sequences : CCDS (NCBI)OPTC
Cluster EST : UnigeneHs.632468 [ NCBI ]
CGAP (NCI)Hs.632468
Alternative Splicing GalleryENSG00000188770
Gene ExpressionOPTC [ NCBI-GEO ]   OPTC [ EBI - ARRAY_EXPRESS ]   OPTC [ SEEK ]   OPTC [ MEM ]
Gene Expression Viewer (FireBrowse)OPTC [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)26254
GTEX Portal (Tissue expression)OPTC
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UBM4   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UBM4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UBM4
Splice isoforms : SwissVarQ9UBM4
PhosPhoSitePlusQ9UBM4
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR-contain_N   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRNT (SM00013)  
Conserved Domain (NCBI)OPTC
DMDM Disease mutations26254
Blocks (Seattle)OPTC
SuperfamilyQ9UBM4
Human Protein AtlasENSG00000188770
Peptide AtlasQ9UBM4
HPRD05498
IPIIPI00002678   IPI00470341   IPI00515086   
Protein Interaction databases
DIP (DOE-UCLA)Q9UBM4
IntAct (EBI)Q9UBM4
FunCoupENSG00000188770
BioGRIDOPTC
STRING (EMBL)OPTC
ZODIACOPTC
Ontologies - Pathways
QuickGOQ9UBM4
Ontology : AmiGOextracellular matrix structural constituent  proteinaceous extracellular matrix  negative regulation of angiogenesis  
Ontology : EGO-EBIextracellular matrix structural constituent  proteinaceous extracellular matrix  negative regulation of angiogenesis  
NDEx NetworkOPTC
Atlas of Cancer Signalling NetworkOPTC
Wikipedia pathwaysOPTC
Orthology - Evolution
OrthoDB26254
GeneTree (enSembl)ENSG00000188770
Phylogenetic Trees/Animal Genes : TreeFamOPTC
HOVERGENQ9UBM4
HOGENOMQ9UBM4
Homologs : HomoloGeneOPTC
Homology/Alignments : Family Browser (UCSC)OPTC
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerOPTC [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)OPTC
dbVarOPTC
ClinVarOPTC
1000_GenomesOPTC 
Exome Variant ServerOPTC
ExAC (Exome Aggregation Consortium)OPTC (select the gene name)
Genetic variants : HAPMAP26254
Genomic Variants (DGV)OPTC [DGVbeta]
DECIPHER (Syndromes)1:203463271-203478077  ENSG00000188770
CONAN: Copy Number AnalysisOPTC 
Mutations
ICGC Data PortalOPTC 
TCGA Data PortalOPTC 
Broad Tumor PortalOPTC
OASIS PortalOPTC [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICOPTC  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDOPTC
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
BioMutasearch OPTC
DgiDB (Drug Gene Interaction Database)OPTC
DoCM (Curated mutations)OPTC (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)OPTC (select a term)
intoGenOPTC
Cancer3DOPTC(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605127   
Orphanet
MedgenOPTC
Genetic Testing Registry OPTC
NextProtQ9UBM4 [Medical]
TSGene26254
GENETestsOPTC
Huge Navigator OPTC [HugePedia]
snp3D : Map Gene to Disease26254
BioCentury BCIQOPTC
ClinGenOPTC
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD26254
Chemical/Pharm GKB GenePA31947
Clinical trialOPTC
Miscellaneous
canSAR (ICR)OPTC (select the gene name)
Probes
Litterature
PubMed20 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineOPTC
EVEXOPTC
GoPubMedOPTC
iHOPOPTC
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 12:35:56 CET 2017

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