Atlas of Genetics and Cytogenetics in Oncology and Haematology

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NCAN (neurocan)

Identity

Alias_namesCSPG3
chondroitin sulfate proteoglycan 3
Other alias
HGNC (Hugo) NCAN
LocusID (NCBI) 1463
Atlas_Id 70727
Location 19p13.11  [Link to chromosome band 19p13]
Location_base_pair Starts at 19211973 and ends at 19252252 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)		NCAN (19p13.11) / NR2F6 (19p13.11)SNX29 (16p13.13) / NCAN (19p13.11)ZNF605 (12q24.33) / NCAN (19p13.11)

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)NCAN   2465
Cards
Entrez_Gene (NCBI)NCAN  1463  neurocan
AliasesCSPG3
GeneCards (Weizmann)NCAN
Ensembl hg19 (Hinxton)ENSG00000130287 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000130287 [Gene_View]  chr19:19211973-19252252 [Contig_View]  NCAN [Vega]
ICGC DataPortalENSG00000130287
TCGA cBioPortalNCAN
AceView (NCBI)NCAN
Genatlas (Paris)NCAN
WikiGenes1463
SOURCE (Princeton)NCAN
Genetics Home Reference (NIH)NCAN
Genomic and cartography
GoldenPath hg38 (UCSC)NCAN  -     chr19:19211973-19252252 +  19p13.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)NCAN  -     19p13.11   [Description]    (hg19-Feb_2009)
EnsemblNCAN - 19p13.11 [CytoView hg19]  NCAN - 19p13.11 [CytoView hg38]
Mapping of homologs : NCBINCAN [Mapview hg19]  NCAN [Mapview hg38]
OMIM600826   
Gene and transcription
Genbank (Entrez)AB210004 AF026547 AK126639 AK297395 AK309138
RefSeq transcript (Entrez)NM_004386
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)NCAN
Cluster EST : UnigeneHs.169047 [ NCBI ]
CGAP (NCI)Hs.169047
Alternative Splicing GalleryENSG00000130287
Gene ExpressionNCAN [ NCBI-GEO ]   NCAN [ EBI - ARRAY_EXPRESS ]   NCAN [ SEEK ]   NCAN [ MEM ]
Gene Expression Viewer (FireBrowse)NCAN [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1463
GTEX Portal (Tissue expression)NCAN
Protein : pattern, domain, 3D structure
UniProt/SwissProtO14594   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO14594  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO14594
Splice isoforms : SwissVarO14594
PhosPhoSitePlusO14594
Domaine pattern : Prosite (Expaxy)ASX_HYDROXYL (PS00010)    C_TYPE_LECTIN_1 (PS00615)    C_TYPE_LECTIN_2 (PS50041)    EGF_1 (PS00022)    EGF_2 (PS01186)    EGF_3 (PS50026)    EGF_CA (PS01187)    IG_LIKE (PS50835)    LINK_1 (PS01241)    LINK_2 (PS50963)    SUSHI (PS50923)   
Domains : Interpro (EBI)C-type_lectin-like    C-type_lectin-like/link    C-type_lectin_CS    CTDL_fold    EGF-like_Ca-bd_dom    EGF-like_CS    EGF-like_dom    EGF-type_Asp/Asn_hydroxyl_site    EGF_Ca-bd_CS    Ig-like_dom    Ig-like_fold    Ig_sub    Ig_V-set    Link_dom    Sushi_SCR_CCP_dom   
Domain families : Pfam (Sanger)EGF (PF00008)    Lectin_C (PF00059)    Sushi (PF00084)    V-set (PF07686)    Xlink (PF00193)   
Domain families : Pfam (NCBI)pfam00008    pfam00059    pfam00084    pfam07686    pfam00193   
Domain families : Smart (EMBL)CCP (SM00032)  CLECT (SM00034)  EGF (SM00181)  EGF_CA (SM00179)  IG (SM00409)  LINK (SM00445)  
Conserved Domain (NCBI)NCAN
DMDM Disease mutations1463
Blocks (Seattle)NCAN
SuperfamilyO14594
Human Protein AtlasENSG00000130287
Peptide AtlasO14594
HPRD02897
IPIIPI00159927   IPI01013324   IPI01011247   
Protein Interaction databases
DIP (DOE-UCLA)O14594
IntAct (EBI)O14594
FunCoupENSG00000130287
BioGRIDNCAN
STRING (EMBL)NCAN
ZODIACNCAN
Ontologies - Pathways
QuickGOO14594
Ontology : AmiGOskeletal system development  extracellular matrix structural constituent  calcium ion binding  hyaluronic acid binding  extracellular region  proteinaceous extracellular matrix  Golgi lumen  cell adhesion  central nervous system development  extracellular matrix organization  glycosaminoglycan metabolic process  chondroitin sulfate biosynthetic process  chondroitin sulfate catabolic process  dermatan sulfate biosynthetic process  carbohydrate binding  lysosomal lumen  
Ontology : EGO-EBIskeletal system development  extracellular matrix structural constituent  calcium ion binding  hyaluronic acid binding  extracellular region  proteinaceous extracellular matrix  Golgi lumen  cell adhesion  central nervous system development  extracellular matrix organization  glycosaminoglycan metabolic process  chondroitin sulfate biosynthetic process  chondroitin sulfate catabolic process  dermatan sulfate biosynthetic process  carbohydrate binding  lysosomal lumen  
NDEx NetworkNCAN
Atlas of Cancer Signalling NetworkNCAN
Wikipedia pathwaysNCAN
Orthology - Evolution
OrthoDB1463
GeneTree (enSembl)ENSG00000130287
Phylogenetic Trees/Animal Genes : TreeFamNCAN
HOVERGENO14594
HOGENOMO14594
Homologs : HomoloGeneNCAN
Homology/Alignments : Family Browser (UCSC)NCAN
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNCAN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NCAN
dbVarNCAN
ClinVarNCAN
1000_GenomesNCAN 
Exome Variant ServerNCAN
ExAC (Exome Aggregation Consortium)NCAN (select the gene name)
Genetic variants : HAPMAP1463
Genomic Variants (DGV)NCAN [DGVbeta]
DECIPHERNCAN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisNCAN 
Mutations
ICGC Data PortalNCAN 
TCGA Data PortalNCAN 
Broad Tumor PortalNCAN
OASIS PortalNCAN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICNCAN  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDNCAN
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch NCAN
DgiDB (Drug Gene Interaction Database)NCAN
DoCM (Curated mutations)NCAN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NCAN (select a term)
intoGenNCAN
Cancer3DNCAN(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600826   
Orphanet
MedgenNCAN
Genetic Testing Registry NCAN
NextProtO14594 [Medical]
TSGene1463
GENETestsNCAN
Target ValidationNCAN
Huge Navigator NCAN [HugePedia]
snp3D : Map Gene to Disease1463
BioCentury BCIQNCAN
ClinGenNCAN
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1463
Chemical/Pharm GKB GenePA162396986
Clinical trialNCAN
Miscellaneous
canSAR (ICR)NCAN (select the gene name)
Probes
Litterature
PubMed37 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNCAN
EVEXNCAN
GoPubMedNCAN
iHOPNCAN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 18 13:31:47 CEST 2017
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