Atlas of Genetics and Cytogenetics in Oncology and Haematology

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NECTIN1 (nectin cell adhesion molecule 1)

Identity

Alias_namesHVEC
ED4
PVRL1
poliovirus receptor-related 1 (herpesvirus entry mediator C)
Alias_symbol (synonym)PRR
PRR1
PVRR1
SK-12
HIgR
CLPED1
CD111
OFC7
Other aliasHV1S
PVRR
nectin-1
HGNC (Hugo) NECTIN1
LocusID (NCBI) 5818
Atlas_Id 55660
Location 11q23.3  [Link to chromosome band 11q23]
Location_base_pair Starts at 119674389 and ends at 119728725 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)
KLC1 (14q32.33) / NECTIN1 (11q23.3)NECTIN1 (11q23.3) / FARP1 (13q32.2)NECTIN1 (11q23.3) / PRKCD (3p21.1)
NECTIN1 (11q23.3) / SNHG1 (11q12.3)

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)NECTIN1   9706
Cards
Entrez_Gene (NCBI)NECTIN1  5818  nectin cell adhesion molecule 1
AliasesCD111; CLPED1; ED4; HIgR; 
HV1S; HVEC; OFC7; PRR; PRR1; PVRL1; PVRR; PVRR1; SK-12; nectin-1
GeneCards (Weizmann)NECTIN1
Ensembl hg19 (Hinxton)ENSG00000110400 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000110400 [Gene_View]  ENSG00000110400 [Sequence]  chr11:119674389-119728725 [Contig_View]  NECTIN1 [Vega]
ICGC DataPortalENSG00000110400
TCGA cBioPortalNECTIN1
AceView (NCBI)NECTIN1
Genatlas (Paris)NECTIN1
WikiGenes5818
SOURCE (Princeton)NECTIN1
Genetics Home Reference (NIH)NECTIN1
Genomic and cartography
GoldenPath hg38 (UCSC)NECTIN1  -     chr11:119674389-119728725 -  11q23.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)NECTIN1  -     11q23.3   [Description]    (hg19-Feb_2009)
EnsemblNECTIN1 - 11q23.3 [CytoView hg19]  NECTIN1 - 11q23.3 [CytoView hg38]
Mapping of homologs : NCBINECTIN1 [Mapview hg19]  NECTIN1 [Mapview hg38]
OMIM225060   600644   
Gene and transcription
Genbank (Entrez)AF060231 AF110314 AI819997 AK056455 AK091231
RefSeq transcript (Entrez)NM_002855 NM_032767 NM_203285 NM_203286
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)NECTIN1
Cluster EST : UnigeneHs.334846 [ NCBI ]
CGAP (NCI)Hs.334846
Alternative Splicing GalleryENSG00000110400
Gene ExpressionNECTIN1 [ NCBI-GEO ]   NECTIN1 [ EBI - ARRAY_EXPRESS ]   NECTIN1 [ SEEK ]   NECTIN1 [ MEM ]
Gene Expression Viewer (FireBrowse)NECTIN1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5818
GTEX Portal (Tissue expression)NECTIN1
Human Protein AtlasENSG00000110400-NECTIN1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15223   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ15223  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ15223
Splice isoforms : SwissVarQ15223
PhosPhoSitePlusQ15223
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)CD80_C2-set    Ig-like_dom    Ig-like_dom_sf    Ig-like_fold    Ig_sub    Ig_sub2    Ig_V-set    Nectin1   
Domain families : Pfam (Sanger)C2-set_2 (PF08205)    V-set (PF07686)   
Domain families : Pfam (NCBI)pfam08205    pfam07686   
Domain families : Smart (EMBL)IG (SM00409)  IGc2 (SM00408)  IGv (SM00406)  
Conserved Domain (NCBI)NECTIN1
DMDM Disease mutations5818
Blocks (Seattle)NECTIN1
PDB (SRS)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
PDB (PDBSum)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
PDB (IMB)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
PDB (RSDB)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
Structural Biology KnowledgeBase3ALP    3SKU    3U82    3U83    4FMF    4MYW   
SCOP (Structural Classification of Proteins)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
CATH (Classification of proteins structures)3ALP    3SKU    3U82    3U83    4FMF    4MYW   
SuperfamilyQ15223
Human Protein Atlas [tissue]ENSG00000110400-NECTIN1 [tissue]
Peptide AtlasQ15223
HPRD07200
IPIIPI00003648   IPI00218887   IPI00218888   
Protein Interaction databases
DIP (DOE-UCLA)Q15223
IntAct (EBI)Q15223
FunCoupENSG00000110400
BioGRIDNECTIN1
STRING (EMBL)NECTIN1
ZODIACNECTIN1
Ontologies - Pathways
QuickGOQ15223
Ontology : AmiGOvirus receptor activity  lens morphogenesis in camera-type eye  desmosome organization  signaling receptor binding  protein binding  extracellular region  plasma membrane  adherens junction  cell-cell adherens junction  cell-cell adherens junction  iron ion transport  immune response  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  signal transduction  axon guidance  cell recognition  coreceptor activity  membrane  integral component of membrane  catenin complex  virion attachment to host cell  carbohydrate binding  growth cone membrane  adherens junction organization  presynaptic membrane  identical protein binding  protein homodimerization activity  protein homodimerization activity  intracellular membrane-bounded organelle  apical junction complex  cell-cell contact zone  viral entry into host cell  virion binding  protein heterodimerization activity  cell adhesion molecule binding  cell adhesion molecule binding  regulation of synapse assembly  retina development in camera-type eye  enamel mineralization  cell-cell adhesion  protein localization to cell junction  
Ontology : EGO-EBIvirus receptor activity  lens morphogenesis in camera-type eye  desmosome organization  signaling receptor binding  protein binding  extracellular region  plasma membrane  adherens junction  cell-cell adherens junction  cell-cell adherens junction  iron ion transport  immune response  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  signal transduction  axon guidance  cell recognition  coreceptor activity  membrane  integral component of membrane  catenin complex  virion attachment to host cell  carbohydrate binding  growth cone membrane  adherens junction organization  presynaptic membrane  identical protein binding  protein homodimerization activity  protein homodimerization activity  intracellular membrane-bounded organelle  apical junction complex  cell-cell contact zone  viral entry into host cell  virion binding  protein heterodimerization activity  cell adhesion molecule binding  cell adhesion molecule binding  regulation of synapse assembly  retina development in camera-type eye  enamel mineralization  cell-cell adhesion  protein localization to cell junction  
NDEx NetworkNECTIN1
Atlas of Cancer Signalling NetworkNECTIN1
Wikipedia pathwaysNECTIN1
Orthology - Evolution
OrthoDB5818
GeneTree (enSembl)ENSG00000110400
Phylogenetic Trees/Animal Genes : TreeFamNECTIN1
HOVERGENQ15223
HOGENOMQ15223
Homologs : HomoloGeneNECTIN1
Homology/Alignments : Family Browser (UCSC)NECTIN1
Gene fusions - Rearrangements
Fusion : QuiverNECTIN1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNECTIN1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NECTIN1
dbVarNECTIN1
ClinVarNECTIN1
1000_GenomesNECTIN1 
Exome Variant ServerNECTIN1
ExAC (Exome Aggregation Consortium)ENSG00000110400
GNOMAD BrowserENSG00000110400
Varsome BrowserNECTIN1
Genetic variants : HAPMAP5818
Genomic Variants (DGV)NECTIN1 [DGVbeta]
DECIPHERNECTIN1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisNECTIN1 
Mutations
ICGC Data PortalNECTIN1 
TCGA Data PortalNECTIN1 
Broad Tumor PortalNECTIN1
OASIS PortalNECTIN1 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDNECTIN1
BioMutasearch NECTIN1
DgiDB (Drug Gene Interaction Database)NECTIN1
DoCM (Curated mutations)NECTIN1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NECTIN1 (select a term)
intoGenNECTIN1
Cancer3DNECTIN1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM225060    600644   
Orphanet2908   
DisGeNETNECTIN1
MedgenNECTIN1
Genetic Testing Registry NECTIN1
NextProtQ15223 [Medical]
TSGene5818
GENETestsNECTIN1
Target ValidationNECTIN1
Huge Navigator NECTIN1 [HugePedia]
snp3D : Map Gene to Disease5818
BioCentury BCIQNECTIN1
ClinGenNECTIN1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5818
Chemical/Pharm GKB GenePA34051
Clinical trialNECTIN1
Miscellaneous
canSAR (ICR)NECTIN1 (select the gene name)
Probes
Litterature
PubMed90 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNECTIN1
EVEXNECTIN1
GoPubMedNECTIN1
iHOPNECTIN1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Aug 27 11:40:19 CEST 2018
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