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Aliases for GPC4 Gene

Aliases for GPC4 Gene

  • Glypican 4 2 3 5
  • Glypican Proteoglycan 4 2 3
  • K-Glypican 3 4
  • DJ900E8.1 (Glypican 4) 3
  • Glypican-4 3

External Ids for GPC4 Gene

Previous GeneCards Identifiers for GPC4 Gene

  • GC0XM127080
  • GC0XM129280
  • GC0XM130380
  • GC0XM131140
  • GC0XM132160
  • GC0XM132261
  • GC0XM132434
  • GC0XM121838

Summaries for GPC4 Gene

Entrez Gene Summary for GPC4 Gene

  • Cell surface heparan sulfate proteoglycans are composed of a membrane-associated protein core substituted with a variable number of heparan sulfate chains. Members of the glypican-related integral membrane proteoglycan family (GRIPS) contain a core protein anchored to the cytoplasmic membrane via a glycosyl phosphatidylinositol linkage. These proteins may play a role in the control of cell division and growth regulation. The GPC4 gene is adjacent to the 3' end of GPC3 and may also play a role in Simpson-Golabi-Behmel syndrome. [provided by RefSeq, Jul 2008]

GeneCards Summary for GPC4 Gene

GPC4 (Glypican 4) is a Protein Coding gene. Diseases associated with GPC4 include Simpson-Golabi-Behmel Syndrome and Wilms Tumor 1. Among its related pathways are Glycosaminoglycan metabolism and Chondroitin sulfate/dermatan sulfate metabolism. Gene Ontology (GO) annotations related to this gene include heparan sulfate proteoglycan binding. An important paralog of this gene is GPC6.

UniProtKB/Swiss-Prot for GPC4 Gene

  • Cell surface proteoglycan that bears heparan sulfate. May be involved in the development of kidney tubules and of the central nervous system (By similarity).

Gene Wiki entry for GPC4 Gene

Additional gene information for GPC4 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GPC4 Gene

Genomics for GPC4 Gene

GeneHancer (GH) Regulatory Elements for GPC4 Gene

Promoters and enhancers for GPC4 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
GH0XI133411 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 557.4 +1.3 1282 4.7 PKNOX1 ZNF2 ZNF335 GLIS2 SCRT2 SP3 ZBTB11 ZEB2 ELF1 ZNF217 GPC4 GC0XM133239 RNU1-115P
GH0XI133416 Enhancer 0.3 Ensembl 550.8 -1.4 -1411 0.2 SP7 GPC4 GC0XM133529
GH0XI133444 Enhancer 1.2 Ensembl ENCODE dbSUPER 12.5 -30.0 -29955 1.1 ZBTB6 NFIB ZSCAN4 ZNF76 ZKSCAN1 HIC1 ZNF335 GLIS2 ZNF366 SCRT2 GPC4 PHF6 GC0XM133529
GH0XI133375 Enhancer 0.4 ENCODE 13.2 +39.5 39510 0.3 NFIC ZBTB8A GPC4 RNU1-115P GC0XM133239
GH0XI133436 Enhancer 0.3 dbSUPER 12.9 -21.9 -21942 0.9 GATA3 GPC4 GC0XM133529
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around GPC4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the GPC4 gene promoter:

Genomic Locations for GPC4 Gene

Genomic Locations for GPC4 Gene
chrX:133,300,103-133,415,490
(GRCh38/hg38)
Size:
115,388 bases
Orientation:
Minus strand
chrX:132,434,131-132,549,518
(GRCh37/hg19)

Genomic View for GPC4 Gene

Genes around GPC4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GPC4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GPC4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GPC4 Gene

Proteins for GPC4 Gene

  • Protein details for GPC4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75487-GPC4_HUMAN
    Recommended name:
    Glypican-4
    Protein Accession:
    O75487
    Secondary Accessions:
    • B2R6J7
    • B4E2C0
    • Q6ZMA6
    • Q96L43
    • Q9NU08
    • Q9UJN1
    • Q9UPD9

    Protein attributes for GPC4 Gene

    Size:
    556 amino acids
    Molecular mass:
    62412 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for GPC4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for GPC4 Gene

Post-translational modifications for GPC4 Gene

  • Glycosylation at isoforms=2375, posLast=494494, posLast=498498, posLast=500500, and isoforms=2514

Other Protein References for GPC4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for GPC4 Gene

Domains & Families for GPC4 Gene

Gene Families for GPC4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted membrane proteins

Protein Domains for GPC4 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for GPC4 Gene

Graphical View of Domain Structure for InterPro Entry

O75487

UniProtKB/Swiss-Prot:

GPC4_HUMAN :
  • Belongs to the glypican family.
Family:
  • Belongs to the glypican family.
genes like me logo Genes that share domains with GPC4: view

Function for GPC4 Gene

Molecular function for GPC4 Gene

GENATLAS Biochemistry:
glypican 4,K glypican,60kDa,putative extracellular proteoglycan,ubiquitously expressed,predominantly in fetal lung and kidney,involved in the control of cell division and growth regulation,juxtaposed to GPC3
UniProtKB/Swiss-Prot Function:
Cell surface proteoglycan that bears heparan sulfate. May be involved in the development of kidney tubules and of the central nervous system (By similarity).

Gene Ontology (GO) - Molecular Function for GPC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
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 GPC4: view
genes like me logo Genes that share phenotypes with GPC4: view

Human Phenotype Ontology for GPC4 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for GPC4 Gene

MGI Knock Outs for GPC4:

miRNA for GPC4 Gene

miRTarBase miRNAs that target GPC4

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Transcription Factor Targets and HOMER Transcription for GPC4 Gene

Localization for GPC4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GPC4 Gene

Cell membrane; Lipid-anchor, GPI-anchor; Extracellular side.
Secreted glypican-4: 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 GPC4 gene
Compartment Confidence
plasma membrane 5
extracellular 5
nucleus 5
golgi apparatus 5
lysosome 4
peroxisome 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for GPC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005615 extracellular space IEA --
GO:0005634 nucleus IDA,HDA 21630459
GO:0005796 Golgi lumen TAS --
genes like me logo Genes that share ontologies with GPC4: view

Pathways & Interactions for GPC4 Gene

genes like me logo Genes that share pathways with GPC4: view

SIGNOR curated interactions for GPC4 Gene

Activates:

Gene Ontology (GO) - Biological Process for GPC4 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:0008283 cell proliferation TAS 9787072
GO:0009653 anatomical structure morphogenesis TAS 9787072
genes like me logo Genes that share ontologies with GPC4: view

Drugs & Compounds for GPC4 Gene

(1) Additional Compounds for GPC4 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with GPC4: view

Transcripts for GPC4 Gene

mRNA/cDNA for GPC4 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(91) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for GPC4 Gene

Glypican 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for GPC4 Gene

No ASD Table

Relevant External Links for GPC4 Gene

GeneLoc Exon Structure for
GPC4
ECgene alternative splicing isoforms for
GPC4

Expression for GPC4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GPC4 Gene

mRNA differential expression in normal tissues according to GTEx for GPC4 Gene

This gene is overexpressed in Esophagus - Muscularis (x4.0).

Protein differential expression in normal tissues from HIPED for GPC4 Gene

This gene is overexpressed in Placenta (12.0) and Pancreas (9.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for GPC4 Gene



Protein tissue co-expression partners for GPC4 Gene

NURSA nuclear receptor signaling pathways regulating expression of GPC4 Gene:

GPC4

SOURCE GeneReport for Unigene cluster for GPC4 Gene:

Hs.58367

Evidence on tissue expression from TISSUES for GPC4 Gene

  • Nervous system(4.7)
  • Skin(4)

Phenotype-based relationships between genes and organs from Gene ORGANizer for GPC4 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • digestive
  • endocrine
  • integumentary
  • lymphatic
  • nervous
  • reproductive
  • respiratory
  • skeletal muscle
  • skeleton
  • urinary
Organs:
Head and neck:
  • brain
  • cerebellum
  • cerebrospinal fluid
  • ear
  • eye
  • eyelid
  • face
  • head
  • jaw
  • lip
  • mandible
  • maxilla
  • meninges
  • mouth
  • neck
  • nose
  • outer ear
  • skull
  • tongue
  • tooth
Thorax:
  • breast
  • chest wall
  • clavicle
  • diaphragm
  • esophagus
  • heart
  • heart valve
  • lung
  • rib
  • rib cage
  • scapula
  • sternum
Abdomen:
  • abdominal wall
  • adrenal gland
  • appendix
  • biliary tract
  • duodenum
  • intestine
  • kidney
  • large intestine
  • liver
  • pancreas
  • small intestine
  • spleen
  • stomach
Pelvis:
  • pelvis
  • penis
  • placenta
  • testicle
  • ureter
  • urethra
  • uterus
Limb:
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • nail
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
General:
  • blood
  • blood vessel
  • peripheral nerve
  • peripheral nervous system
  • skin
  • spinal column
  • sweat gland
  • vertebrae
genes like me logo Genes that share expression patterns with GPC4: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for GPC4 Gene

Orthologs for GPC4 Gene

This gene was present in the common ancestor of animals.

Orthologs for GPC4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GPC4 33 34
  • 99.94 (n)
dog
(Canis familiaris)
Mammalia GPC4 33 34
  • 91.25 (n)
mouse
(Mus musculus)
Mammalia Gpc4 33 16 34
  • 90.83 (n)
cow
(Bos Taurus)
Mammalia GPC4 33 34
  • 89.93 (n)
rat
(Rattus norvegicus)
Mammalia Gpc4 33
  • 89.75 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia GPC4 34
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia GPC4 34
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves GPC4 33 34
  • 74.9 (n)
lizard
(Anolis carolinensis)
Reptilia GPC4 34
  • 69 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia gpc4 33
  • 72.13 (n)
Str.10144 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.4720 33
zebrafish
(Danio rerio)
Actinopterygii gpc4 33 34
  • 62.45 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003559 33
  • 51.68 (n)
fruit fly
(Drosophila melanogaster)
Insecta dlp 35 33 34
  • 50.86 (n)
worm
(Caenorhabditis elegans)
Secernentea gpn-1 33 34
  • 43.03 (n)
Species where no ortholog for GPC4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 GPC4 Gene

ENSEMBL:
Gene Tree for GPC4 (if available)
TreeFam:
Gene Tree for GPC4 (if available)

Paralogs for GPC4 Gene

Paralogs for GPC4 Gene

(4) SIMAP similar genes for GPC4 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with GPC4: view

Variants for GPC4 Gene

Sequence variations from dbSNP and Humsavar for GPC4 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000090591 -- 133,362,554(-) T/C intron_variant
rs1000102601 -- 133,310,762(-) G/A intron_variant
rs1000128392 -- 133,408,740(-) AAAAAAAAA/AAAAAAAAAA intron_variant
rs1000157034 -- 133,373,166(-) A/G intron_variant
rs1000264687 -- 133,316,814(-) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for GPC4 Gene

Variant ID Type Subtype PubMed ID
dgv2429e212 CNV gain 25503493
esv3574591 CNV loss 25503493
nsv477749 CNV novel sequence insertion 20440878
nsv7100 CNV insertion 18451855

Variation tolerance for GPC4 Gene

Residual Variation Intolerance Score: 22.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 16.05; 97.52% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GPC4 Gene

Human Gene Mutation Database (HGMD)
GPC4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
GPC4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GPC4 Gene

Disorders for GPC4 Gene

MalaCards: The human disease database

(3) MalaCards diseases for GPC4 Gene - From: HGMD, GTR, Orphanet, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search GPC4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for GPC4

genes like me logo Genes that share disorders with GPC4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for GPC4 Gene

Publications for GPC4 Gene

  1. GPC4, the gene for human K-glypican, flanks GPC3 on xq26: deletion of the GPC3-GPC4 gene cluster in one family with Simpson-Golabi-Behmel syndrome. (PMID: 9787072) Veugelers M … David G (Genomics 1998) 2 3 4 22 58
  2. Mutational analysis of the GPC3/GPC4 glypican gene cluster on Xq26 in patients with Simpson-Golabi-Behmel syndrome: identification of loss-of-function mutations in the GPC3 gene. (PMID: 10814714) Veugelers M … David G (Human molecular genetics 2000) 3 4 22 58
  3. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 3 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58

Products for GPC4 Gene

Sources for GPC4 Gene

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