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GPC6 Gene(Protein Coding)

Glypican 6

GCID:
GC13P093226
GIFtS:
50
Genes Participants
UDN Logo

Aliases for GPC6 Gene

Aliases for GPC6 Gene

  • Glypican 6 2 3 5
  • Glypican Proteoglycan 6 2 3
  • Glypican-6 3
  • OMIMD1 3

External Ids for GPC6 Gene

Previous GeneCards Identifiers for GPC6 Gene

  • GC13P092238
  • GC13P088266
  • GC13P092715
  • GC13P091577
  • GC13P092677
  • GC13P093879
  • GC13P074476

Summaries for GPC6 Gene

Entrez Gene Summary for GPC6 Gene

  • The glypicans comprise a family of glycosylphosphatidylinositol-anchored heparan sulfate proteoglycans, and they have been implicated in the control of cell growth and cell division. The glypican encoded by this gene is a putative cell surface coreceptor for growth factors, extracellular matrix proteins, proteases and anti-proteases. Mutations in this gene are associated with omodysplasia 1. [provided by RefSeq, Nov 2016]

GeneCards Summary for GPC6 Gene

GPC6 (Glypican 6) is a Protein Coding gene. Diseases associated with GPC6 include Omodysplasia 1 and Omodysplasia. Among its related pathways are ERK Signaling and Akt Signaling. Gene Ontology (GO) annotations related to this gene include heparan sulfate proteoglycan binding. An important paralog of this gene is GPC4.

UniProtKB/Swiss-Prot for GPC6 Gene

  • Cell surface proteoglycan that bears heparan sulfate. Putative cell surface coreceptor for growth factors, extracellular matrix proteins, proteases and anti-proteases (By similarity). Enhances migration and invasion of cancer cells through WNT5A signaling.

Gene Wiki entry for GPC6 Gene

Additional gene information for GPC6 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GPC6 Gene

Genomics for GPC6 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for GPC6 Gene

Promoters and enhancers for GPC6 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH13J093224 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 650.7 +1.6 1621 8.5 PKNOX1 FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 ENSG00000278177 GC13M093224 GPC6 GC13M093240
GH13J093248 Enhancer 1.4 Ensembl ENCODE dbSUPER 11.8 +22.7 22726 2.1 FOXA2 ZNF133 ARID4B FEZF1 DMAP1 ZNF2 ZNF48 YY1 SLC30A9 ZNF143 GPC6 GC13M093240 ENSG00000278177
GH13J093325 Enhancer 0.6 ENCODE 18.1 +99.8 99800 1.8 JUND GATA3 NANOG ESR1 RCOR1 CUX1 CHD2 FOXA1 GPC6 HNRNPA1P29 GC13M093240
GH13J093881 Enhancer 0.5 ENCODE 21 +655.3 655304 0.8 ZBTB48 ZNF366 MZF1 PRDM1 GPC6 GPC6-AS2 GC13M094026
GH13J093861 Enhancer 0.4 ENCODE 21.3 +635.3 635301 0.7 JUND FOSL2 FOS GPC6 GPC6-AS2 GC13M094026
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GPC6 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the GPC6 gene promoter:
  • FOXO4
  • STAT2
  • STAT1
  • STAT1alpha
  • STAT1beta
  • STAT3
  • STAT4
  • STAT5A
  • STAT5B
  • STAT6

Genomic Locations for GPC6 Gene

Genomic Locations for GPC6 Gene
chr13:93,226,825-94,408,020
(GRCh38/hg38)
Size:
1,181,196 bases
Orientation:
Plus strand
chr13:93,879,078-95,060,274
(GRCh37/hg19)
Size:
1,181,197 bases
Orientation:
Plus strand

Genomic View for GPC6 Gene

Genes around GPC6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GPC6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GPC6 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for GPC6 Gene

Proteins for GPC6 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for GPC6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y625-GPC6_HUMAN
    Recommended name:
    Glypican-6
    Protein Accession:
    Q9Y625
    Secondary Accessions:
    • A8K279
    • Q96SG5
    • Q96SG8
    • Q9H1P4

    Protein attributes for GPC6 Gene

    Size:
    555 amino acids
    Molecular mass:
    62736 Da
    Quaternary structure:
    No Data Available

neXtProt entry for GPC6 Gene

Protein Expression for GPC6 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for GPC6 Gene

  • Glycosylation at Thr374
  • Modification sites at PhosphoSitePlus

Other Protein References for GPC6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for GPC6 Gene

Domains & Families for GPC6 Gene

Gene Families for GPC6 Gene

HGNC:
Human Protein Atlas (HPA):
  • Disease related genes
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for GPC6 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for GPC6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y625

UniProtKB/Swiss-Prot:

GPC6_HUMAN :
  • Belongs to the glypican family.
Family:
  • Belongs to the glypican family.
genes like me logo Genes that share domains with GPC6: view

Function for GPC6 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for GPC6 Gene

UniProtKB/Swiss-Prot Function:
Cell surface proteoglycan that bears heparan sulfate. Putative cell surface coreceptor for growth factors, extracellular matrix proteins, proteases and anti-proteases (By similarity). Enhances migration and invasion of cancer cells through WNT5A signaling.
UniProtKB/Swiss-Prot Induction:
Expression is induced by NFATC2.
GENATLAS Biochemistry:
glypican 6,cell surface heparan sulfate proteoglycan,widely expressed with predominant expression in the adult ovary,liver and fetal kidney,juxtaposed to GPC5,involved in cellular growth control and differentiation

Phenotypes From GWAS Catalog for GPC6 Gene

Gene Ontology (GO) - Molecular Function for GPC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 29162697
GO:0043395 heparan sulfate proteoglycan binding IEA --
GO:1904929 coreceptor activity involved in Wnt signaling pathway, planar cell polarity pathway NAS 24431302
genes like me logo Genes that share ontologies with GPC6: view
genes like me logo Genes that share phenotypes with GPC6: view

Human Phenotype Ontology for GPC6 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for GPC6 Gene

MGI Knock Outs for GPC6:

Animal Model Products

  • Taconic Biosciences Mouse Models for GPC6

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GPC6

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for GPC6 Gene

Localization for GPC6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GPC6 Gene

Cell membrane; Lipid-anchor, GPI-anchor; Extracellular side.
Secreted glypican-6: Secreted, extracellular space.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for GPC6 gene
Compartment Confidence
plasma membrane 5
nucleus 5
lysosome 5
golgi apparatus 5
extracellular 4
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for GPC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IEA --
GO:0005634 nucleus HDA 21630459
GO:0005796 Golgi lumen TAS --
GO:0005886 plasma membrane TAS,IEA --
genes like me logo Genes that share ontologies with GPC6: view

Pathways & Interactions for GPC6 Gene

SuperPathways for GPC6 Gene

PathCards logo More details on SuperPathways for GPC6
SuperPathway Contained pathways
1 Apoptotic Pathways in Synovial Fibroblasts
Cellular Apoptosis Pathway
.85
Mitochondrial Apoptosis
.85
Apoptotic Pathways in Synovial Fibroblasts
.84
p53 Mediated Apoptosis
.84
DHA Signaling
.74
Telomerase Components in Cell Signaling
.72
PPAR Pathway
.66
Rac1 Pathway
.65
Glioma Invasiveness
.64
Actin-Based Motility by Rho Family GTPases
.62
ERK5 Signaling
.61
eIF2 Pathway
.60
Rap1 Pathway
.57
Nuclear Receptor Activation by Vitamin-A
.57
2 Chondroitin sulfate/dermatan sulfate metabolism
A tetrasaccharide linker sequence is required for GAG synthesis
.73
Defective B3GALT6 causes EDSP2 and SEMDJL1
.73
Diseases associated with glycosaminoglycan metabolism
.73
Defective EXT1 causes exostoses 1, TRPS2 and CHDS
.63
HS-GAG degradation
.57
Chondroitin sulfate/dermatan sulfate metabolism
.51
Defective B3GAT3 causes JDSSDHD
.01
Defective B4GALT7 causes EDS, progeroid type
.01
Defective EXT2 causes exostoses 2
.01
3 GPCR Pathway
Paxillin Interactions
.73
Ras Pathway
.73
GPCR Pathway
.62
Pancreatic Adenocarcinoma
.59
Breast Cancer Regulation by Stathmin1
.58
NFAT in Immune Response
.58
Estrogen Pathway
.55
4 ERK Signaling
ERK Signaling
.61
Rho Family GTPases
.61
MAPK Signaling
.58
Molecular Mechanisms of Cancer
.51
ILK Signaling
.49
5 Nanog in Mammalian ESC Pluripotency
GSK3 Signaling
.61
Nanog in Mammalian ESC Pluripotency
.61
14-3-3 Induced Intracellular Signaling
.59
eNOS Signaling
.48
genes like me logo Genes that share pathways with GPC6: view

Gene Ontology (GO) - Biological Process for GPC6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001523 retinoid metabolic process TAS --
GO:0006024 glycosaminoglycan biosynthetic process TAS --
GO:0006027 glycosaminoglycan catabolic process TAS --
GO:0009966 regulation of signal transduction IEA --
GO:0016477 cell migration IDA 21871017
genes like me logo Genes that share ontologies with GPC6: view

No data available for SIGNOR curated interactions for GPC6 Gene

Drugs & Compounds for GPC6 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for GPC6 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for GPC6 Gene

(7) REFSEQ mRNAs :
(9) Additional mRNA sequences :
(139) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for GPC6 Gene

Glypican 6:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GPC6

Alternative Splicing Database (ASD) splice patterns (SP) for GPC6 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10
SP1: - -
SP2:
SP3:

Relevant External Links for GPC6 Gene

GeneLoc Exon Structure for
GPC6
ECgene alternative splicing isoforms for
GPC6

Expression for GPC6 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GPC6 Gene

mRNA expression in normal human tissues for GPC6 Gene
mRNA expression by GTEx for GPC6 GenemRNA expression by BioGPS for GPC6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for GPC6 Gene

This gene is overexpressed in Artery - Tibial (x5.1).

Protein differential expression in normal tissues from HIPED for GPC6 Gene

This gene is overexpressed in Ovary (12.1), Plasma (8.7), Cerebral cortex (8.6), Seminal vesicle (7.7), and Fetal testis (7.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for GPC6 Gene



NURSA nuclear receptor signaling pathways regulating expression of GPC6 Gene:

GPC6

SOURCE GeneReport for Unigene cluster for GPC6 Gene:

Hs.444329

mRNA Expression by UniProt/SwissProt for GPC6 Gene:

Q9Y625-GPC6_HUMAN
Tissue specificity: Widely expressed. High expression in fetal kidney and lung and lower expressions in fetal liver and brain. In adult tissues, very abundant in ovary, high levels also observed in liver, kidney, small intestine and colon. Not detected in peripheral blood leukocytes. Detected in breast cancer cells (at protein level).

Evidence on tissue expression from TISSUES for GPC6 Gene

  • Nervous system(4.5)

Phenotype-based relationships between genes and organs from Gene ORGANizer for GPC6 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • integumentary
  • reproductive
  • respiratory
  • skeletal muscle
  • skeleton
Regions:
Head and neck:
  • chin
  • ear
  • eye
  • eyelid
  • face
  • forehead
  • head
  • jaw
  • lip
  • mandible
  • maxilla
  • mouth
  • neck
  • nose
  • outer ear
  • skull
Thorax:
  • heart
  • heart valve
  • lung
Abdomen:
  • abdominal wall
  • intestine
Pelvis:
  • pelvis
  • testicle
Limb:
  • arm
  • elbow
  • femur
  • fibula
  • forearm
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • ulna
  • upper limb
General:
  • blood vessel
  • skin
  • spinal column
genes like me logo Genes that share expression patterns with GPC6: view

No data available for Protein tissue co-expression partners for GPC6 Gene

Orthologs for GPC6 Gene

This gene was present in the common ancestor of animals.

Orthologs for GPC6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia GPC6 34 33
  • 99.7 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia -- 34
  • 98 (a)
 OneToMany
-- 34
  • 97 (a)
 OneToMany
GPC6 33
  • 91.29 (n)
oppossum
(Monodelphis domestica)
 Mammalia GPC6 34
  • 93 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia GPC6 34
  • 89 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Gpc6 16 34 33
  • 88.65 (n)
rat
(Rattus norvegicus)
 Mammalia LOC691984 33
  • 87.87 (n)
cow
(Bos Taurus)
 Mammalia GPC6 34
  • 61 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves GPC6 34 33
  • 81.88 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia -- 34
  • 90 (a)
 OneToMany
-- 34
  • 81 (a)
 OneToMany
tropical clawed frog
(Silurana tropicalis)
 Amphibia gpc6 33
  • 76.23 (n)
zebrafish
(Danio rerio)
 Actinopterygii GPC6 (2 of 3) 34
  • 77 (a)
 OneToMany
zgc:171629 33
  • 68.45 (n)
GPC6 (1 of 3) 34
  • 62 (a)
 OneToMany
GPC6 (3 of 3) 34
  • 62 (a)
 OneToMany
kny 33
fruit fly
(Drosophila melanogaster)
 Insecta dlp 34 35
  • 27 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea gpn-1 34
  • 22 (a)
 OneToMany
Species where no ortholog for GPC6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for GPC6 Gene

ENSEMBL:
Gene Tree for GPC6 (if available)
TreeFam:
Gene Tree for GPC6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for GPC6: view image

Paralogs for GPC6 Gene

Paralogs for GPC6 Gene

(3) SIMAP similar genes for GPC6 Gene using alignment to 1 proteins:

  • GPC6_HUMAN
genes like me logo Genes that share paralogs with GPC6: view

Variants for GPC6 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for GPC6 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs10606518 likely-benign, Omodysplasia 94,403,911(+) CTCT/CT 3_prime_UTR_variant
rs113980048 uncertain-significance, Omodysplasia 94,405,822(+) C/A 3_prime_UTR_variant
rs114974584 uncertain-significance, Omodysplasia 94,404,892(+) C/T 3_prime_UTR_variant
rs116355843 likely-benign, Omodysplasia 94,403,889(+) A/G 3_prime_UTR_variant
rs117005708 uncertain-significance, Omodysplasia 94,404,656(+) T/C 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for GPC6 Gene

Variant ID Type Subtype PubMed ID
dgv1014n106 CNV tandem duplication 24896259
dgv1015n106 CNV duplication 24896259
dgv571e212 CNV loss 25503493
dgv572e212 CNV loss 25503493
dgv573e212 CNV loss 25503493
dgv574e212 CNV loss 25503493
esv1057463 CNV insertion 17803354
esv1183301 CNV insertion 17803354
esv1437424 CNV deletion 17803354
esv2102591 CNV deletion 18987734
esv2435780 CNV deletion 19546169
esv2462615 CNV deletion 19546169
esv2530447 CNV deletion 19546169
esv2558321 CNV deletion 19546169
esv2661209 CNV deletion 23128226
esv2663873 CNV deletion 23128226
esv2667490 CNV deletion 23128226
esv2667781 CNV deletion 23128226
esv2677275 CNV deletion 23128226
esv2747828 CNV deletion 23290073
esv2747829 CNV deletion 23290073
esv2747831 CNV deletion 23290073
esv2747832 CNV deletion 23290073
esv2747833 CNV deletion 23290073
esv2747834 CNV deletion 23290073
esv2747835 CNV deletion 23290073
esv2747836 CNV deletion 23290073
esv2747837 CNV deletion 23290073
esv2747838 CNV deletion 23290073
esv2747839 CNV deletion 23290073
esv2747840 CNV deletion 23290073
esv2747842 CNV deletion 23290073
esv2751156 CNV loss 17911159
esv2759958 CNV loss 17122850
esv3143 CNV loss 18987735
esv3302619 CNV tandem duplication 20981092
esv3303710 CNV mobile element insertion 20981092
esv3307750 CNV mobile element insertion 20981092
esv3309712 CNV mobile element insertion 20981092
esv3327630 CNV insertion 20981092
esv3346862 CNV insertion 20981092
esv3360076 CNV duplication 20981092
esv3389916 CNV insertion 20981092
esv34004 CNV loss 18971310
esv3410705 CNV insertion 20981092
esv3425943 CNV insertion 20981092
esv3580825 CNV loss 25503493
esv3580826 CNV loss 25503493
esv3580828 CNV loss 25503493
esv3580829 CNV loss 25503493
esv3580830 CNV loss 25503493
esv3580833 CNV loss 25503493
esv3580834 CNV loss 25503493
esv3580835 CNV loss 25503493
esv3580836 CNV loss 25503493
esv3580837 CNV loss 25503493
esv3580839 CNV loss 25503493
esv3580850 CNV loss 25503493
esv3582694 CNV gain 25503493
esv3582716 CNV gain 25503493
esv3633196 CNV loss 21293372
esv3633197 CNV gain 21293372
esv3633198 CNV loss 21293372
esv3633199 CNV loss 21293372
esv3633200 CNV loss 21293372
esv3633201 CNV loss 21293372
esv3633202 CNV loss 21293372
esv3633204 CNV loss 21293372
esv3633207 CNV loss 21293372
esv3633212 CNV loss 21293372
esv3633213 CNV loss 21293372
esv3633214 CNV loss 21293372
esv3633217 CNV gain 21293372
esv3633218 CNV loss 21293372
esv3633223 CNV loss 21293372
esv3633225 CNV loss 21293372
esv3633227 CNV loss 21293372
esv3633229 CNV loss 21293372
esv3892424 CNV gain 25118596
esv3892428 CNV loss 25118596
esv3892429 CNV loss 25118596
esv9361 CNV gain 19470904
nsv1035144 CNV loss 25217958
nsv1048843 CNV loss 25217958
nsv1049455 CNV loss 25217958
nsv1050202 CNV loss 25217958
nsv1051276 CNV loss 25217958
nsv1052141 CNV gain 25217958
nsv1053695 CNV loss 25217958
nsv1070603 CNV deletion 25765185
nsv1116509 OTHER inversion 24896259
nsv1120288 CNV tandem duplication 24896259
nsv1127353 CNV deletion 24896259
nsv1129 CNV deletion 18451855
nsv1129549 CNV tandem duplication 24896259
nsv1130 CNV deletion 18451855
nsv1131 CNV insertion 18451855
nsv1135804 CNV deletion 24896259
nsv1138252 CNV deletion 24896259
nsv1147326 CNV deletion 26484159
nsv1153706 CNV insertion 26484159
nsv1154004 CNV deletion 26484159
nsv473254 CNV novel sequence insertion 20440878
nsv474799 CNV novel sequence insertion 20440878
nsv476626 CNV novel sequence insertion 20440878
nsv483085 CNV loss 15286789
nsv507724 OTHER sequence alteration 20534489
nsv507725 OTHER sequence alteration 20534489
nsv523214 CNV loss 19592680
nsv526048 CNV loss 19592680
nsv562749 CNV loss 21841781
nsv562750 CNV loss 21841781
nsv562751 CNV loss 21841781
nsv562752 CNV loss 21841781
nsv562753 CNV loss 21841781
nsv562754 CNV loss 21841781
nsv562755 CNV gain 21841781
nsv64659 CNV deletion 16902084
nsv64776 CNV deletion 16902084
nsv818989 CNV gain 17921354
nsv832683 CNV gain+loss 17160897
nsv832684 CNV loss 17160897
nsv957438 CNV deletion 24416366
nsv957483 CNV deletion 24416366
nsv977270 CNV duplication 23825009

Variation tolerance for GPC6 Gene

Residual Variation Intolerance Score: 28.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.34; 85.34% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GPC6 Gene

Human Gene Mutation Database (HGMD)
GPC6
SNPedia medical, phenotypic, and genealogical associations of SNPs for
GPC6

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GPC6 Gene

Disorders for GPC6 Gene

MalaCards: The human disease database

(5) MalaCards diseases for GPC6 Gene - From: HGMD, OMIM, ClinVar, GTR, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
omodysplasia 1
  • omod1
omodysplasia
  • omodysplasia 2
atelosteogenesis
  • atelosteogenesis, type 1
body dysmorphic disorder
  • body dysmorphia
simpson-golabi-behmel syndrome
  • sgbs1
- elite association - COSMIC cancer census association via MalaCards
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UniProtKB/Swiss-Prot

GPC6_HUMAN
  • Omodysplasia 1 (OMOD1) [MIM:258315]: A rare autosomal recessive skeletal dysplasia characterized by facial dysmorphism and severe congenital micromelia with shortening and distal tapering of the humeri and femora, to give a club-like appearance. Typical facial features include a prominent forehead, frontal bossing, short nose with a depressed broad bridge, short columella, anteverted nostrils, long philtrum, and small chin. {ECO:0000269 PubMed:19481194}. Note=The disease is caused by mutations affecting the gene represented in this entry. Point mutations leading to protein truncation, as well as larger genomic rearrangements resulting in exon deletions, have been found in family segregating omodysplasia type 1. All mutations identified in individuals affected by omodysplasia could lead to the absence of a functional protein, the mutant RNAs being suspected to be nonsense-mediated mRNA decay (NMD) targets. Even if the mRNA escapes NMD and is translated, all mutations are expected to disrupt the three-dimensional protein structure and often to abolish multiple highly conserved cysteine residues.

Additional Disease Information for GPC6

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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No data available for Genatlas for GPC6 Gene

Publications for GPC6 Gene

  1. GPC6, a novel member of the glypican gene family, encodes a product structurally related to GPC4 and is colocalized with GPC5 on human chromosome 13. (PMID: 10329016) Paine-Saunders S … Saunders S (Genomics 1999) 2 3 4 22 58
  2. Mutations in the heparan-sulfate proteoglycan glypican 6 (GPC6) impair endochondral ossification and cause recessive omodysplasia. (PMID: 19481194) Campos-Xavier AB … Bonafé L (American journal of human genetics 2009) 3 4 22 58
  3. NFAT promotes carcinoma invasive migration through glypican-6. (PMID: 21871017) Yiu GK … Toker A (The Biochemical journal 2011) 3 4 58
  4. Heritability and genome-wide association analysis of renal sinus fat accumulation in the Framingham Heart Study. (PMID: 22044751) Foster MC … Fox CS (BMC medical genetics 2011) 3 44 58
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58

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