ENSG00000183098


Homo sapiens

Features
Gene ID: ENSG00000183098
  
Biological name :GPC6
  
Synonyms : glypican 6 / GPC6 / Q9Y625
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 13
Strand: 1
Band: q31.3
Gene start: 93226842
Gene end: 94407401
  
Corresponding Affymetrix probe sets: 223730_at (Human Genome U133 Plus 2.0 Array)   227059_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000477667
Ensembl peptide - ENSP00000366246
NCBI entrez gene - 10082     See in Manteia.
OMIM - 604404
RefSeq - XM_017020302
RefSeq - NM_005708
RefSeq - XM_017020299
RefSeq - XM_017020300
RefSeq - XM_017020301
RefSeq - XM_011521044
RefSeq - XM_017020298
RefSeq Peptide - NP_005699
swissprot - Q9Y625
swissprot - A0A087WT82
Ensembl - ENSG00000183098
  
Related genetic diseases (OMIM): 258315 - Omodysplasia 1, 258315
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 gpc6aENSDARG00000103156Danio rerio
 gpc6bENSDARG00000104219Danio rerio
 GPC6ENSGALG00000016900Gallus gallus
 Gpc6ENSMUSG00000058571Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
GPC4 / O75487 / glypican 4ENSG0000007671664
GPC1 / P35052 / glypican 1ENSG0000006366045
GPC2 / Q8N158 / glypican 2ENSG0000021342042
GPC5 / P78333 / glypican 5ENSG0000017939925
GPC3 / P51654 / glypican 3ENSG0000014725724


Protein motifs (from Interpro)
Interpro ID Name
 IPR001863  Glypican
 IPR019803  Glypican, conserved site
 IPR031183  Glypican-6


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001523 retinoid metabolic process TAS
 biological_processGO:0006024 glycosaminoglycan biosynthetic process TAS
 biological_processGO:0006027 glycosaminoglycan catabolic process TAS
 biological_processGO:0009966 regulation of signal transduction IEA
 biological_processGO:0016477 cell migration IDA
 biological_processGO:0030203 glycosaminoglycan metabolic process TAS
 biological_processGO:0060071 Wnt signaling pathway, planar cell polarity pathway IEA
 cellular_componentGO:0005576 extracellular region IEA
 cellular_componentGO:0005615 extracellular space IEA
 cellular_componentGO:0005634 nucleus HDA
 cellular_componentGO:0005796 Golgi lumen TAS
 cellular_componentGO:0005886 plasma membrane IEA
 cellular_componentGO:0005887 integral component of plasma membrane TAS
 cellular_componentGO:0016020 membrane IEA
 cellular_componentGO:0031225 anchored component of membrane IEA
 cellular_componentGO:0043202 lysosomal lumen TAS
 cellular_componentGO:0046658 anchored component of plasma membrane IEA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0043395 heparan sulfate proteoglycan binding IEA
 molecular_functionGO:1904929 coreceptor activity involved in Wnt signaling pathway, planar cell polarity pathway NAS


Pathways (from Reactome)
Pathway description
A tetrasaccharide linker sequence is required for GAG synthesis
HS-GAG biosynthesis
HS-GAG degradation
Defective B4GALT7 causes EDS, progeroid type
Defective B3GAT3 causes JDSSDHD
Defective EXT2 causes exostoses 2
Defective EXT1 causes exostoses 1, TRPS2 and CHDS
Defective B3GALT6 causes EDSP2 and SEMDJL1
Retinoid metabolism and transport


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000007 Autosomal recessive inheritance "A mode of inheritance that is observed for traits related to a gene encoded on one of the autosomes (i.e., the human chromosomes 1-22) in which a trait manifests in homozygotes. In the context of medical genetics, autosomal recessive disorders manifest in homozygotes (with two copies of the mutant allele) or compound heterozygotes (whereby each copy of a gene has a distinct mutant allele)." [HPO:curators]
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 HP:0000028 Cryptorchidism "Absence of one or both testes from the scrotum owing to failure of the testis or testes to descend through the inguinal canal to the testis." [HPO:curators]
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 HP:0000272 Malar hypoplasia "Underdeveloped midface region." [HPO:curators]
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 HP:0000286 Epicanthus "An epicanthal fold is a semilunar fold of skin that extends from the upper eyelid across the medial canthal area to the lower eyelid." [HPO:curators]
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 HP:0000343 Long philtrum 
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 HP:0000347 Mandibular hypoplasia "Underdevelopment of the mandible." [HPO:curators]
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 HP:0000358 Posteriorly rotated ears "A type of `abnormal location of the ears` (HP:0000357) in which the position of the ears is characterized by posterior rotation (the superior part of the ears is rotated towards the back of the head, and the inferior part of the ears towards the front)." [HPO:probinson]
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 HP:0000369 Low-set ears "Low-set ears are defined to be set below an arbitrary line drawn between the lateral canthus of the eye and the occipital protruberance." [HPO:curators]
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 HP:0000431 Broad nasal bridge "Increased horizontal dimension of the upper, bony part of the nose." [HPO:curators]
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 HP:0000463 Nares, anteverted "Anteriorly-facing nostrils viewed with the head in the Frankfurt horizontal and the eyes of the observer level with the eyes of the subject." [pmid:19152422]
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 HP:0000470 Short neck 
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 HP:0000581 Blepharophimosis "Reduced width of the palpebral fissures." [HPO:sdoelken]
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 HP:0000944 Abnormality of the metaphyses 
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 HP:0001028 Hemangiomas "The presence of multiple hemangiomas. A hemangioma is a benign tumor characterized by blood-filled spaces lined by benign endothelial cells. A hemangioma characterized by large endothelial spaces (caverns) is called a cavernous hemangioma (in contrast to a hemangioma with small endothelial spaces, which is called capillary hemangioma)." [HPO:curators]
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 HP:0001059 Pterygia "Pterygia are winglike triangular membranes occurring in the neck, eyes, knees, elbows, ankles or digits." [HPO:curators]
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 HP:0001060 Axillary pterygia 
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 HP:0001249 Mental retardation 
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 HP:0001363 Craniosynostosis "Craniosynostosis refers to the premature closure of the cranial sutures. Primary craniosynostosis refers to the closure of one or more sutures due to abnormalities in skull development, and secondary craniosynostosis results from failure of brain growth." [HPO:curators]
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 HP:0001537 Umbilical hernia "Protrusion of abdominal contents through a defect in the abdominal wall musculature around the umbilicus. Skin and subcutaneous tissue overlie the defect." [HPO:curators]
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 HP:0001629 Ventricular septal defect "A hole between the two bottom chambers (ventricles) of the heart. The defect is centered around the most superior aspect of the ventricular septum." [HPO:curators]
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 HP:0001631 Atrial septal defect "Atrial septal defect (ASD) is a congenital heart defect that enables blood flow between the left and right atria via the interatrial septum. The three common types of ASD are sinus venosus defects, ostium secundum defects, and ostium primum defects." [HPO:curators]
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 HP:0002007 Frontal bossing "The presence of an unusually prominent forehead." [HPO:curators]
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 HP:0002818 Abnormality of the radius 
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 HP:0002823 Abnormality of the femur "Abnormality of the femur (i.e., the thigh bone)." [HPO:curators]
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 HP:0002983 Micromelia 
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 HP:0003027 Mesomelia "Shortening of the middle parts of the limbs (forearm and lower leg) in relation to the upper and terminal segments." [HPO:sdoelken]
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 HP:0003038 Fibular hypoplasia "Underdevelopment of the fibula." [HPO:curators]
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 HP:0003042 Elbow dislocation "A dislocation affecting the elbow joint, where the radius, ulna, and humerus meet." [HPO:curators]
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 HP:0003196 Nasal hypoplasia "Underdevelopment of the `nose` (FMA:46472)." [HPO:probinson]
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 HP:0004415 Pulmonary artery stenosis 
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 HP:0005025 hypoplastic distal humerii 
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 HP:0005050 anterior/lateral radial head dislocation 
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 HP:0005060 limited elbow flexion/extension 
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 HP:0005085 limited knee flexion/extension "A limited ability of the knee joint extension and flexion." [HPO:curators]
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 HP:0005280 Depressed nasal root and bridge 
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 HP:0005736 Hypoplastic tibia 
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 HP:0005792 Humeral hypoplasia 
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 HP:0008800 Limited hip movement 
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 HP:0008873 Short stature, disproportionate short-limbed "A type of short stature characterized by a short limbs but an average-sized trunk." [HPO:curators]
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 HP:0008905 Rhizomelic short stature 
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 HP:0009756 Popliteal pterygium "A pterygium (or pterygia) occuring in the popliteal region (the back of the knee)." [HPO:curators]
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 HP:0010880 Increased nuchal translucency "The presence of an abnormally large hypoechoic space in the posterior fetal neck (usually detected on prenatal ultrasound examination)." [HPO:probinson, pmid:12751779]
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 HP:0012107 Increased fibular diameter "Increased width of the cross sectional diameter of the fibula." [HPO:probinson, MP:0008159]
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 HP:0012368 Flat face "Absence of concavity or convexity of the face when viewed in profile." [pmid:19125436]
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 HP:0030680 Abnormality of cardiovascular system morphology "Any structural anomaly of the heart and great vessels." []
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 HP:0100790 Hernia 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

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