Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

OTOP1 (otopetrin 1)

Identity

Other alias-
HGNC (Hugo) OTOP1
LocusID (NCBI) 133060
Atlas_Id 71576
Location 4p16.3  [Link to chromosome band 4p16]
Location_base_pair Starts at 4188803 and ends at 4226894 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)OTOP1   19656
Cards
Entrez_Gene (NCBI)OTOP1  133060  otopetrin 1
Aliases
GeneCards (Weizmann)OTOP1
Ensembl hg19 (Hinxton)ENSG00000163982 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000163982 [Gene_View]  chr4:4188803-4226894 [Contig_View]  OTOP1 [Vega]
ICGC DataPortalENSG00000163982
TCGA cBioPortalOTOP1
AceView (NCBI)OTOP1
Genatlas (Paris)OTOP1
WikiGenes133060
SOURCE (Princeton)OTOP1
Genetics Home Reference (NIH)OTOP1
Genomic and cartography
GoldenPath hg38 (UCSC)OTOP1  -     chr4:4188803-4226894 -  4p16.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)OTOP1  -     4p16.3   [Description]    (hg19-Feb_2009)
EnsemblOTOP1 - 4p16.3 [CytoView hg19]  OTOP1 - 4p16.3 [CytoView hg38]
Mapping of homologs : NCBIOTOP1 [Mapview hg19]  OTOP1 [Mapview hg38]
OMIM607806   
Gene and transcription
Genbank (Entrez)BC130430 BC130432 BK000653
RefSeq transcript (Entrez)NM_177998
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)OTOP1
Cluster EST : UnigeneHs.534544 [ NCBI ]
CGAP (NCI)Hs.534544
Alternative Splicing GalleryENSG00000163982
Gene ExpressionOTOP1 [ NCBI-GEO ]   OTOP1 [ EBI - ARRAY_EXPRESS ]   OTOP1 [ SEEK ]   OTOP1 [ MEM ]
Gene Expression Viewer (FireBrowse)OTOP1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)133060
GTEX Portal (Tissue expression)OTOP1
Human Protein AtlasENSG00000163982-OTOP1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ7RTM1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ7RTM1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ7RTM1
Splice isoforms : SwissVarQ7RTM1
PhosPhoSitePlusQ7RTM1
Domains : Interpro (EBI)Otopetrin   
Domain families : Pfam (Sanger)Otopetrin (PF03189)   
Domain families : Pfam (NCBI)pfam03189   
Conserved Domain (NCBI)OTOP1
DMDM Disease mutations133060
Blocks (Seattle)OTOP1
SuperfamilyQ7RTM1
Human Protein Atlas [tissue]ENSG00000163982-OTOP1 [tissue]
Peptide AtlasQ7RTM1
HPRD07421
IPIIPI00251419   
Protein Interaction databases
DIP (DOE-UCLA)Q7RTM1
IntAct (EBI)Q7RTM1
FunCoupENSG00000163982
BioGRIDOTOP1
STRING (EMBL)OTOP1
ZODIACOTOP1
Ontologies - Pathways
QuickGOQ7RTM1
Ontology : AmiGOextracellular space  integral component of membrane  biomineral tissue development  
Ontology : EGO-EBIextracellular space  integral component of membrane  biomineral tissue development  
NDEx NetworkOTOP1
Atlas of Cancer Signalling NetworkOTOP1
Wikipedia pathwaysOTOP1
Orthology - Evolution
OrthoDB133060
GeneTree (enSembl)ENSG00000163982
Phylogenetic Trees/Animal Genes : TreeFamOTOP1
HOVERGENQ7RTM1
HOGENOMQ7RTM1
Homologs : HomoloGeneOTOP1
Homology/Alignments : Family Browser (UCSC)OTOP1
Gene fusions - Rearrangements
Fusion: Tumor Portal OTOP1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerOTOP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)OTOP1
dbVarOTOP1
ClinVarOTOP1
1000_GenomesOTOP1 
Exome Variant ServerOTOP1
ExAC (Exome Aggregation Consortium)ENSG00000163982
GNOMAD BrowserENSG00000163982
Genetic variants : HAPMAP133060
Genomic Variants (DGV)OTOP1 [DGVbeta]
DECIPHEROTOP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisOTOP1 
Mutations
ICGC Data PortalOTOP1 
TCGA Data PortalOTOP1 
Broad Tumor PortalOTOP1
OASIS PortalOTOP1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICOTOP1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDOTOP1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch OTOP1
DgiDB (Drug Gene Interaction Database)OTOP1
DoCM (Curated mutations)OTOP1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)OTOP1 (select a term)
intoGenOTOP1
Cancer3DOTOP1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607806   
Orphanet
MedgenOTOP1
Genetic Testing Registry OTOP1
NextProtQ7RTM1 [Medical]
TSGene133060
GENETestsOTOP1
Target ValidationOTOP1
Huge Navigator OTOP1 [HugePedia]
snp3D : Map Gene to Disease133060
BioCentury BCIQOTOP1
ClinGenOTOP1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD133060
Chemical/Pharm GKB GenePA134883507
Clinical trialOTOP1
Miscellaneous
canSAR (ICR)OTOP1 (select the gene name)
Probes
Litterature
PubMed2 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineOTOP1
EVEXOTOP1
GoPubMedOTOP1
iHOPOTOP1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Nov 9 12:21:28 CET 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.