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GPC6 (glypican 6)

Identity

Other aliasOMIMD1
HGNC (Hugo) GPC6
LocusID (NCBI) 10082
Atlas_Id 55080
Location 13q31.3  [Link to chromosome band 13q31]
Location_base_pair Starts at 93226808 and ends at 94408019 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CFH (1q31.3) / GPC6 (13q31.3)DNAJC3 (13q32.1) / GPC6 (13q31.3)FARP1 (13q32.2) / GPC6 (13q31.3)
GPC6 (13q31.3) / GCHFR (15q15.1)GPC6 (13q31.3) / GPC5 (13q31.3)GPC6 (13q31.3) / GPC6 (13q31.3)
GPC6 (13q31.3) / MPHOSPH8 (13q12.11)GPR180 (13q32.1) / GPC6 (13q31.3)PLEKHA5 (12p12.3) / GPC6 (13q31.3)
DNAJC3 13q32.1 / GPC6 13q31.3FARP1 13q32.2 / GPC6 13q31.3GPC6 13q31.3 / GPC5 13q31.3
PLEKHA5 12p12.3 / GPC6 13q31.3

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)GPC6   4454
Cards
Entrez_Gene (NCBI)GPC6  10082  glypican 6
AliasesOMIMD1
GeneCards (Weizmann)GPC6
Ensembl hg19 (Hinxton)ENSG00000183098 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000183098 [Gene_View]  chr13:93226808-94408019 [Contig_View]  GPC6 [Vega]
ICGC DataPortalENSG00000183098
TCGA cBioPortalGPC6
AceView (NCBI)GPC6
Genatlas (Paris)GPC6
WikiGenes10082
SOURCE (Princeton)GPC6
Genetics Home Reference (NIH)GPC6
Genomic and cartography
GoldenPath hg38 (UCSC)GPC6  -     chr13:93226808-94408019 +  13q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)GPC6  -     13q31.3   [Description]    (hg19-Feb_2009)
EnsemblGPC6 - 13q31.3 [CytoView hg19]  GPC6 - 13q31.3 [CytoView hg38]
Mapping of homologs : NCBIGPC6 [Mapview hg19]  GPC6 [Mapview hg38]
OMIM258315   604404   
Gene and transcription
Genbank (Entrez)AF105267 AF111178 AK074741 AK130013 AK290144
RefSeq transcript (Entrez)NM_005708
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)GPC6
Cluster EST : UnigeneHs.615434 [ NCBI ]
CGAP (NCI)Hs.615434
Alternative Splicing GalleryENSG00000183098
Gene ExpressionGPC6 [ NCBI-GEO ]   GPC6 [ EBI - ARRAY_EXPRESS ]   GPC6 [ SEEK ]   GPC6 [ MEM ]
Gene Expression Viewer (FireBrowse)GPC6 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10082
GTEX Portal (Tissue expression)GPC6
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y625   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y625  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y625
Splice isoforms : SwissVarQ9Y625
PhosPhoSitePlusQ9Y625
Domaine pattern : Prosite (Expaxy)GLYPICAN (PS01207)   
Domains : Interpro (EBI)Glypican    Glypican-6    Glypican_CS   
Domain families : Pfam (Sanger)Glypican (PF01153)   
Domain families : Pfam (NCBI)pfam01153   
Conserved Domain (NCBI)GPC6
DMDM Disease mutations10082
Blocks (Seattle)GPC6
SuperfamilyQ9Y625
Human Protein AtlasENSG00000183098
Peptide AtlasQ9Y625
HPRD05099
IPIIPI00001755   IPI00911077   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y625
IntAct (EBI)Q9Y625
FunCoupENSG00000183098
BioGRIDGPC6
STRING (EMBL)GPC6
ZODIACGPC6
Ontologies - Pathways
QuickGOQ9Y625
Ontology : AmiGOretinoid metabolic process  proteinaceous extracellular matrix  extracellular space  nucleus  Golgi lumen  plasma membrane  integral component of plasma membrane  glycosaminoglycan biosynthetic process  glycosaminoglycan catabolic process  cell migration  glycosaminoglycan metabolic process  anchored component of membrane  lysosomal lumen  heparan sulfate proteoglycan binding  Wnt signaling pathway, planar cell polarity pathway  coreceptor activity involved in Wnt signaling pathway, planar cell polarity pathway  
Ontology : EGO-EBIretinoid metabolic process  proteinaceous extracellular matrix  extracellular space  nucleus  Golgi lumen  plasma membrane  integral component of plasma membrane  glycosaminoglycan biosynthetic process  glycosaminoglycan catabolic process  cell migration  glycosaminoglycan metabolic process  anchored component of membrane  lysosomal lumen  heparan sulfate proteoglycan binding  Wnt signaling pathway, planar cell polarity pathway  coreceptor activity involved in Wnt signaling pathway, planar cell polarity pathway  
NDEx NetworkGPC6
Atlas of Cancer Signalling NetworkGPC6
Wikipedia pathwaysGPC6
Orthology - Evolution
OrthoDB10082
GeneTree (enSembl)ENSG00000183098
Phylogenetic Trees/Animal Genes : TreeFamGPC6
HOVERGENQ9Y625
HOGENOMQ9Y625
Homologs : HomoloGeneGPC6
Homology/Alignments : Family Browser (UCSC)GPC6
Gene fusions - Rearrangements
Fusion : MitelmanDNAJC3/GPC6 [13q32.1/13q31.3]  [t(13;13)(q31;q32)]  
Fusion : MitelmanFARP1/GPC6 [13q32.2/13q31.3]  [t(13;13)(q31;q32)]  
Fusion : MitelmanGPC6/GPC5 [13q31.3/13q31.3]  [t(13;13)(q31;q31)]  
Fusion : MitelmanPLEKHA5/GPC6 [12p12.3/13q31.3]  [t(12;13)(p12;q31)]  
Fusion: TCGADNAJC3 13q32.1 GPC6 13q31.3 BRCA
Fusion: TCGAFARP1 13q32.2 GPC6 13q31.3 LUSC
Fusion: TCGAGPC6 13q31.3 GPC5 13q31.3 HNSC KIRC PRAD
Fusion: TCGAPLEKHA5 12p12.3 GPC6 13q31.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerGPC6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)GPC6
dbVarGPC6
ClinVarGPC6
1000_GenomesGPC6 
Exome Variant ServerGPC6
ExAC (Exome Aggregation Consortium)GPC6 (select the gene name)
Genetic variants : HAPMAP10082
Genomic Variants (DGV)GPC6 [DGVbeta]
DECIPHERGPC6 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisGPC6 
Mutations
ICGC Data PortalGPC6 
TCGA Data PortalGPC6 
Broad Tumor PortalGPC6
OASIS PortalGPC6 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICGPC6  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDGPC6
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 GPC6
DgiDB (Drug Gene Interaction Database)GPC6
DoCM (Curated mutations)GPC6 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)GPC6 (select a term)
intoGenGPC6
Cancer3DGPC6(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM258315    604404   
Orphanet12265   
MedgenGPC6
Genetic Testing Registry GPC6
NextProtQ9Y625 [Medical]
TSGene10082
GENETestsGPC6
Huge Navigator GPC6 [HugePedia]
snp3D : Map Gene to Disease10082
BioCentury BCIQGPC6
ClinGenGPC6 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10082
Chemical/Pharm GKB GenePA28835
Clinical trialGPC6
Miscellaneous
canSAR (ICR)GPC6 (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineGPC6
EVEXGPC6
GoPubMedGPC6
iHOPGPC6
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:17:44 CEST 2017

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