Atlas of Genetics and Cytogenetics in Oncology and Haematology


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NPTN (neuroplastin)

Identity

Alias_namesSDFR1
stromal cell derived factor receptor 1
Alias_symbol (synonym)SDR1
GP55
GP65
np65
np55
Other alias
HGNC (Hugo) NPTN
LocusID (NCBI) 27020
Atlas_Id 70952
Location 15q24.1  [Link to chromosome band 15q24]
Location_base_pair Starts at 73852344 and ends at 73925753 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
NPTN (15q24.1) / CLUAP1 (16p13.3)NPTN (15q24.1) / KRT19 (17q21.2)NPTN (15q24.1) / LOC643387 (2q37.3)
NPTN (15q24.1) / NPTN (15q24.1)NPTN (15q24.1) / SET (9q34.11)

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)NPTN   17867
Cards
Entrez_Gene (NCBI)NPTN  27020  neuroplastin
AliasesGP55; GP65; SDFR1; SDR1; 
np55; np65
GeneCards (Weizmann)NPTN
Ensembl hg19 (Hinxton)ENSG00000156642 [Gene_View]  chr15:73852344-73925753 [Contig_View]  NPTN [Vega]
Ensembl hg38 (Hinxton)ENSG00000156642 [Gene_View]  chr15:73852344-73925753 [Contig_View]  NPTN [Vega]
ICGC DataPortalENSG00000156642
TCGA cBioPortalNPTN
AceView (NCBI)NPTN
Genatlas (Paris)NPTN
WikiGenes27020
SOURCE (Princeton)NPTN
Genetics Home Reference (NIH)NPTN
Genomic and cartography
GoldenPath hg19 (UCSC)NPTN  -     chr15:73852344-73925753 -  15q24.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)NPTN  -     15q24.1   [Description]    (hg38-Dec_2013)
EnsemblNPTN - 15q24.1 [CytoView hg19]  NPTN - 15q24.1 [CytoView hg38]
Mapping of homologs : NCBINPTN [Mapview hg19]  NPTN [Mapview hg38]
OMIM612820   
Gene and transcription
Genbank (Entrez)AB209812 AF035287 AF109126 AF109127 AI357728
RefSeq transcript (Entrez)NM_001161363 NM_001161364 NM_012428 NM_017455
RefSeq genomic (Entrez)NC_000015 NC_018926 NT_010194 NW_004929398
Consensus coding sequences : CCDS (NCBI)NPTN
Cluster EST : UnigeneHs.744867 [ NCBI ]
CGAP (NCI)Hs.744867
Alternative Splicing GalleryENSG00000156642
Gene ExpressionNPTN [ NCBI-GEO ]   NPTN [ EBI - ARRAY_EXPRESS ]   NPTN [ SEEK ]   NPTN [ MEM ]
Gene Expression Viewer (FireBrowse)NPTN [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27020
GTEX Portal (Tissue expression)NPTN
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y639   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y639  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y639
Splice isoforms : SwissVarQ9Y639
PhosPhoSitePlusQ9Y639
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)Ig-like_dom    Ig-like_fold    Ig_I-set    Ig_sub    Ig_sub2    Neuroplastin    Tyr_kinase_CSF1/PDGF_rcpt   
Domain families : Pfam (Sanger)I-set (PF07679)   
Domain families : Pfam (NCBI)pfam07679   
Domain families : Smart (EMBL)IG (SM00409)  IGc2 (SM00408)  
Conserved Domain (NCBI)NPTN
DMDM Disease mutations27020
Blocks (Seattle)NPTN
SuperfamilyQ9Y639
Human Protein AtlasENSG00000156642
Peptide AtlasQ9Y639
HPRD18033
IPIIPI00011578   IPI00018311   IPI00657724   IPI00964352   IPI00922797   IPI00654584   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y639
IntAct (EBI)Q9Y639
FunCoupENSG00000156642
BioGRIDNPTN
STRING (EMBL)NPTN
ZODIACNPTN
Ontologies - Pathways
QuickGOQ9Y639
Ontology : AmiGOpositive regulation of protein phosphorylation  transmembrane receptor protein tyrosine kinase activity  type 1 fibroblast growth factor receptor binding  cytosol  homophilic cell adhesion via plasma membrane adhesion molecules  transmembrane receptor protein tyrosine kinase signaling pathway  positive regulation of cytosolic calcium ion concentration  cell surface  positive regulation of neuron projection development  integral component of membrane  peptidyl-tyrosine phosphorylation  presynaptic membrane  positive regulation of fibroblast growth factor receptor signaling pathway  positive regulation of long-term neuronal synaptic plasticity  cell adhesion molecule binding  long-term synaptic potentiation  
Ontology : EGO-EBIpositive regulation of protein phosphorylation  transmembrane receptor protein tyrosine kinase activity  type 1 fibroblast growth factor receptor binding  cytosol  homophilic cell adhesion via plasma membrane adhesion molecules  transmembrane receptor protein tyrosine kinase signaling pathway  positive regulation of cytosolic calcium ion concentration  cell surface  positive regulation of neuron projection development  integral component of membrane  peptidyl-tyrosine phosphorylation  presynaptic membrane  positive regulation of fibroblast growth factor receptor signaling pathway  positive regulation of long-term neuronal synaptic plasticity  cell adhesion molecule binding  long-term synaptic potentiation  
NDEx NetworkNPTN
Atlas of Cancer Signalling NetworkNPTN
Wikipedia pathwaysNPTN
Orthology - Evolution
OrthoDB27020
GeneTree (enSembl)ENSG00000156642
Phylogenetic Trees/Animal Genes : TreeFamNPTN
HOVERGENQ9Y639
HOGENOMQ9Y639
Homologs : HomoloGeneNPTN
Homology/Alignments : Family Browser (UCSC)NPTN
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNPTN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NPTN
dbVarNPTN
ClinVarNPTN
1000_GenomesNPTN 
Exome Variant ServerNPTN
ExAC (Exome Aggregation Consortium)NPTN (select the gene name)
Genetic variants : HAPMAP27020
Genomic Variants (DGV)NPTN [DGVbeta]
DECIPHER (Syndromes)15:73852344-73925753  ENSG00000156642
CONAN: Copy Number AnalysisNPTN 
Mutations
ICGC Data PortalNPTN 
TCGA Data PortalNPTN 
Broad Tumor PortalNPTN
OASIS PortalNPTN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICNPTN  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDNPTN
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch NPTN
DgiDB (Drug Gene Interaction Database)NPTN
DoCM (Curated mutations)NPTN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NPTN (select a term)
intoGenNPTN
Cancer3DNPTN(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM612820   
Orphanet
MedgenNPTN
Genetic Testing Registry NPTN
NextProtQ9Y639 [Medical]
TSGene27020
GENETestsNPTN
Huge Navigator NPTN [HugePedia]
snp3D : Map Gene to Disease27020
BioCentury BCIQNPTN
ClinGenNPTN
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD27020
Chemical/Pharm GKB GenePA134927704
Clinical trialNPTN
Miscellaneous
canSAR (ICR)NPTN (select the gene name)
Probes
Litterature
PubMed18 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNPTN
EVEXNPTN
GoPubMedNPTN
iHOPNPTN
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 12:35:19 CET 2017

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