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Aliases for VCAN Gene

Aliases for VCAN Gene

  • Versican 2 3 5
  • Chondroitin Sulfate Proteoglycan Core Protein 2 3 4
  • Chondroitin Sulfate Proteoglycan 2 2 4
  • Glial Hyaluronate-Binding Protein 3 4
  • Large Fibroblast Proteoglycan 3 4
  • Versican Proteoglycan 2 3
  • CSPG2 3 4
  • GHAP 3 4
  • PG-M 3 4
  • Versican Core Protein 3
  • ERVR 3
  • WGN1 3
  • WGN 3

External Ids for VCAN Gene

Previous HGNC Symbols for VCAN Gene

  • CSPG2

Previous GeneCards Identifiers for VCAN Gene

  • GC05P082804
  • GC05P077975

Summaries for VCAN Gene

Entrez Gene Summary for VCAN Gene

  • This gene is a member of the aggrecan/versican proteoglycan family. The protein encoded is a large chondroitin sulfate proteoglycan and is a major component of the extracellular matrix. This protein is involved in cell adhesion, proliferation, proliferation, migration and angiogenesis and plays a central role in tissue morphogenesis and maintenance. Mutations in this gene are the cause of Wagner syndrome type 1. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2009]

GeneCards Summary for VCAN Gene

VCAN (Versican) is a Protein Coding gene. Diseases associated with VCAN include Wagner Vitreoretinopathy and Wagner Syndrome. Among its related pathways are Glycosaminoglycan metabolism and Integrin Pathway. Gene Ontology (GO) annotations related to this gene include calcium ion binding and extracellular matrix structural constituent. An important paralog of this gene is ACAN.

UniProtKB/Swiss-Prot for VCAN Gene

  • May play a role in intercellular signaling and in connecting cells with the extracellular matrix. May take part in the regulation of cell motility, growth and differentiation. Binds hyaluronic acid.

Gene Wiki entry for VCAN Gene

Additional gene information for VCAN Gene

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

Genomics for VCAN Gene

GeneHancer (GH) Regulatory Elements for VCAN Gene

Promoters and enhancers for VCAN 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
GH05I083470 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 559.9 +2.3 2288 6.4 PKNOX1 FOXA2 SIN3A FEZF1 ZNF2 ZNF213 ZNF143 ZNF263 SP3 REST VCAN TMEM167A VCAN-AS1
GH05I083368 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 15.7 -102.7 -102653 1.6 ZNF146 PKNOX1 CEBPB JUNB BATF ATF2 ZNF217 IKZF1 HMBOX1 RUNX3 VCAN TMEM167A XRCC4 LOC105379053 GC05P083318
GH05I083306 Enhancer 1.2 FANTOM5 Ensembl ENCODE 13.1 -164.5 -164489 1.4 BACH1 EBF1 BMI1 BATF IRF4 RELA POLR2A NFATC1 ATF7 ETV6 VCAN LOC105379052 TMEM167A XRCC4 GC05P083318 GC05M083273
GH05I083376 Enhancer 1.1 FANTOM5 Ensembl ENCODE dbSUPER 11.4 -94.0 -94001 2.3 CEBPB FOS EP300 VCAN TMEM167A XRCC4 LOC105379053 GC05P083318
GH05I083374 Enhancer 0.8 FANTOM5 Ensembl dbSUPER 9.6 -96.5 -96464 0.8 CEBPB VCAN TMEM167A LOC105379053 GC05P083318
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around VCAN on UCSC Golden Path with GeneCards custom track

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

Genomic Locations for VCAN Gene

Genomic Locations for VCAN Gene
chr5:83,471,465-83,582,303
(GRCh38/hg38)
Size:
110,839 bases
Orientation:
Plus strand
chr5:82,767,284-82,878,122
(GRCh37/hg19)

Genomic View for VCAN Gene

Genes around VCAN on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for VCAN Gene

Proteins for VCAN Gene

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

    Protein Symbol:
    P13611-CSPG2_HUMAN
    Recommended name:
    Versican core protein
    Protein Accession:
    P13611
    Secondary Accessions:
    • P20754
    • Q13010
    • Q13189
    • Q15123
    • Q9UCL9
    • Q9UNW5

    Protein attributes for VCAN Gene

    Size:
    3396 amino acids
    Molecular mass:
    372820 Da
    Quaternary structure:
    • Interacts with FBLN1.

    Alternative splice isoforms for VCAN Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VCAN Gene

Post-translational modifications for VCAN Gene

  • Phosphorylated by FAM20C in the extracellular medium.
  • Glycosylation at isoforms=2, 3, 4, 557, isoforms=2, 3, 4, 5330, isoforms=3, 5518, posLast=615615, posLast=632632, isoforms=3, 5642, isoforms=3, 5687, isoforms=3, 5716, isoforms=3, 5751, isoforms=3, 5782, isoforms=3, 5799, isoforms=3, 5801, posLast=809809, posLast=869869, posLast=886886, posLast=981981, isoforms=3, 51092, isoforms=3, 51103, isoforms=3, 51110, posLast=11161116, isoforms=3, 51133, posLast=11911191, isoforms=3, 51221, posLast=13321332, posLast=13981398, isoforms=2, 51418, isoforms=2, 51419, isoforms=2, 51442, isoforms=2, 51468, posLast=15661566, posLast=15691569, posLast=16631663, isoforms=2, 51719, posLast=17311731, posLast=17341734, posLast=17421742, posLast=17431743, posLast=17441744, posLast=17631763, isoforms=2, 51769, posLast=17721772, isoforms=2, 51777, posLast=18981898, posLast=19091909, posLast=19171917, posLast=19261926, isoforms=2, 51942, posLast=20362036, isoforms=2, 52058, posLast=20592059, posLast=20632063, posLast=20852085, posLast=21522152, posLast=21532153, posLast=21792179, posLast=21942194, isoforms=2, 52203, posLast=22722272, posLast=22802280, isoforms=2, 52360, isoforms=2, 52385, isoforms=2, 52392, posLast=24162416, posLast=24482448, posLast=24552455, posLast=24562456, posLast=24572457, isoforms=2, 52458, posLast=24732473, isoforms=2, 52496, isoforms=2, 52503, isoforms=2, 52515, posLast=25162516, isoforms=2, 52530, posLast=25312531, isoforms=2, 52540, posLast=26282628, isoforms=2, 52656, posLast=26612661, isoforms=2, 52699, isoforms=2, 52701, posLast=27842784, posLast=29342934, posLast=30253025, isoforms=2, 53029, posLast=30673067, posLast=33693369, and posLast=33793379

No data available for DME Specific Peptides for VCAN Gene

Domains & Families for VCAN Gene

Gene Families for VCAN Gene

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

Suggested Antigen Peptide Sequences for VCAN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P13611

UniProtKB/Swiss-Prot:

CSPG2_HUMAN :
  • Belongs to the aggrecan/versican proteoglycan family.
Family:
  • Belongs to the aggrecan/versican proteoglycan family.
genes like me logo Genes that share domains with VCAN: view

Function for VCAN Gene

Molecular function for VCAN Gene

UniProtKB/Swiss-Prot Function:
May play a role in intercellular signaling and in connecting cells with the extracellular matrix. May take part in the regulation of cell motility, growth and differentiation. Binds hyaluronic acid.

Phenotypes From GWAS Catalog for VCAN Gene

Gene Ontology (GO) - Molecular Function for VCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005201 extracellular matrix structural constituent IBA --
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IPI 23601700
GO:0005539 glycosaminoglycan binding TAS 7528742
GO:0005540 hyaluronic acid binding TAS,IBA --
genes like me logo Genes that share ontologies with VCAN: view
genes like me logo Genes that share phenotypes with VCAN: view

Human Phenotype Ontology for VCAN Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for VCAN Gene

MGI Knock Outs for VCAN:

Animal Model Products

CRISPR Products

Clone Products

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

Localization for VCAN Gene

Subcellular locations from UniProtKB/Swiss-Prot for VCAN Gene

Secreted, extracellular space, extracellular matrix.

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 VCAN gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 4
lysosome 4
golgi apparatus 4
plasma membrane 2
cytoskeleton 2
nucleus 2
cytosol 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for VCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS,IDA --
GO:0005578 proteinaceous extracellular matrix TAS,IBA --
GO:0005615 extracellular space IDA 20551380
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0005796 Golgi lumen TAS --
genes like me logo Genes that share ontologies with VCAN: view

Pathways & Interactions for VCAN Gene

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

Gene Ontology (GO) - Biological Process for VCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system development IBA --
GO:0001649 osteoblast differentiation IDA,HDA 16210410
GO:0007155 cell adhesion IEA,TAS --
GO:0007275 multicellular organism development TAS 2583089
GO:0007417 central nervous system development IBA --
genes like me logo Genes that share ontologies with VCAN: view

No data available for SIGNOR curated interactions for VCAN Gene

Drugs & Compounds for VCAN Gene

(6) Drugs for VCAN Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Hyaluronic acid Approved, Vet_approved Pharma Target, binder 535

(16) Additional Compounds for VCAN Gene - From: Novoseek

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

Transcripts for VCAN Gene

Unigene Clusters for VCAN Gene

Versican:
Representative Sequences:

CRISPR Products

Clone Products

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

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^
SP1: - - - - - - -
SP2: - - - - - - - - -
SP3: - -
SP4: - - -
SP5:
SP6: -
SP7:
SP8:
SP9:

ExUns: 18a · 18b ^ 19a · 19b · 19c · 19d
SP1: -
SP2: -
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:

Relevant External Links for VCAN Gene

GeneLoc Exon Structure for
VCAN
ECgene alternative splicing isoforms for
VCAN

Expression for VCAN Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Artery - Aorta (x8.3), Artery - Coronary (x7.4), and Whole Blood (x6.5).

Protein differential expression in normal tissues from HIPED for VCAN Gene

This gene is overexpressed in Amniocyte (16.9), Spinal cord (10.1), Frontal cortex (8.4), and Brain (6.4).

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



NURSA nuclear receptor signaling pathways regulating expression of VCAN Gene:

VCAN

SOURCE GeneReport for Unigene cluster for VCAN Gene:

Hs.643801

mRNA Expression by UniProt/SwissProt for VCAN Gene:

P13611-CSPG2_HUMAN
Tissue specificity: Cerebral white matter and plasma. Isoform V0 and isoform V1 are expressed in normal brain, gliomas, medulloblastomas, schwannomas, neurofibromas, and meningiomas. Isoform V2 is restricted to normal brain and gliomas. Isoform V3 is found in all these tissues except medulloblastomas.

Evidence on tissue expression from TISSUES for VCAN Gene

  • Nervous system(4.9)
  • Lung(4.6)
  • Muscle(4.6)
  • Liver(4.2)
  • Heart(3.2)
  • Kidney(2.9)
  • Blood(2.5)
  • Intestine(2.5)
  • Spleen(2.5)
  • Skin(2.4)
  • Lymph node(2)

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

Germ Layers:
  • ectoderm
  • mesoderm
Systems:
  • nervous
  • skeletal muscle
Regions:
Head and neck:
  • brain
  • cranial nerve
  • eye
  • head
General:
  • peripheral nervous system
genes like me logo Genes that share expression patterns with VCAN: view

Primer Products

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

Orthologs for VCAN Gene

This gene was present in the common ancestor of animals.

Orthologs for VCAN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VCAN 33 34
  • 99.37 (n)
dog
(Canis familiaris)
Mammalia VCAN 33 34
  • 83.58 (n)
cow
(Bos Taurus)
Mammalia VCAN 33 34
  • 83.26 (n)
mouse
(Mus musculus)
Mammalia Vcan 33 16 34
  • 76.67 (n)
rat
(Rattus norvegicus)
Mammalia Vcan 33
  • 75.7 (n)
oppossum
(Monodelphis domestica)
Mammalia VCAN 34
  • 51 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia VCAN 34
  • 46 (a)
OneToOne
chicken
(Gallus gallus)
Aves VCAN 34
  • 28 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VCAN 34
  • 33 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.24776 33
zebrafish
(Danio rerio)
Actinopterygii vcanb 34
  • 42 (a)
OneToOne
-- 33
worm
(Caenorhabditis elegans)
Secernentea clec-149 34
  • 25 (a)
OneToMany
Species where no ortholog for VCAN was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for VCAN Gene

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

Paralogs for VCAN Gene

Paralogs for VCAN Gene

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

Variants for VCAN Gene

Sequence variations from dbSNP and Humsavar for VCAN Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs10233 benign, Wagner syndrome, Vitreoretinopathy 83,582,037(+) T/C 3_prime_UTR_variant
rs1039368689 uncertain-significance, Vitreoretinopathy, Wagner syndrome 83,581,842(+) G/A 3_prime_UTR_variant
rs10411 benign, Wagner syndrome, Vitreoretinopathy 83,582,112(+) G/T 3_prime_UTR_variant
rs1046691278 uncertain-significance, Vitreoretinopathy, Wagner syndrome 83,471,955(+) A/G 5_prime_UTR_variant
rs1050948 benign, Wagner syndrome, Vitreoretinopathy 83,582,035(+) T/A 3_prime_UTR_variant

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

Variant ID Type Subtype PubMed ID
nsv830367 CNV gain+loss 17160897
nsv830366 CNV gain 17160897
nsv598785 CNV loss 21841781
nsv598784 CNV loss 21841781
nsv4903 CNV insertion 18451855
nsv462227 CNV loss 19166990
nsv1015852 CNV gain 25217958
esv7817 CNV gain 19470904

Variation tolerance for VCAN Gene

Residual Variation Intolerance Score: 70.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 14.03; 96.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VCAN Gene

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

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

Disorders for VCAN Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
wagner vitreoretinopathy
  • wgvrp
wagner syndrome
  • wagner vitreoretinopathy
vitreous syneresis
  • vitreous degeneration
tendinopathy
odontogenic myxoma
- elite association - COSMIC cancer census association via MalaCards
Search VCAN in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

CSPG2_HUMAN
  • Wagner vitreoretinopathy (WGVRP) [MIM:143200]: A rare vitreoretinopathy characterized by an optically empty vitreous cavity with fibrillary condensations and a preretinal avascular membrane. Other optical features include progressive chorioretinal atrophy, perivascular sheating, subcapsular cataract and myopia. {ECO:0000269 PubMed:16043844, ECO:0000269 PubMed:22739342}. Note=The disease is caused by mutations affecting the gene represented in this entry. The pathological mechanism involves a quantitave imbalance of the normally occurring splice variants (PubMed:22739342). {ECO:0000269 PubMed:22739342}.

Additional Disease Information for VCAN

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with VCAN: view

No data available for Genatlas for VCAN Gene

Publications for VCAN Gene

  1. Mapping of the versican proteoglycan gene (CSPG2) to the long arm of human chromosome 5 (5q12-5q14). (PMID: 1478664) Iozzo RV … McPherson JD (Genomics 1992) 2 3 4 22 58
  2. Chondroitin sulfate proteoglycan 2 (CSPG2) gene polymorphisms rs173686 and rs251124 are not associated with intracranial aneurysms in Chinese Han nationality. (PMID: 18484070) Sun H … Zhao J (Upsala journal of medical sciences 2007) 3 22 44 58
  3. Identification of a novel splice site mutation of the CSPG2 gene in a Japanese family with Wagner syndrome. (PMID: 16043844) Miyamoto T … Itakura M (Investigative ophthalmology & visual science 2005) 3 4 22 58
  4. Versican/PG-M isoforms in vascular smooth muscle cells. (PMID: 10397680) Lemire JM … Wight TN (Arteriosclerosis, thrombosis, and vascular biology 1999) 3 4 22 58
  5. Differential expression of versican isoforms in brain tumors. (PMID: 8627343) Paulus W … Zimmermann DR (Journal of neuropathology and experimental neurology 1996) 3 4 22 58

Products for VCAN Gene

Sources for VCAN Gene

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