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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

VCAN Gene

protein-coding GIFtS: 64
GCID: GC05P082804

versican

(Previous name: chondroitin sulfate proteoglycan 2 )
(Previous symbol: CSPG2)

Explore 76 diseases affiliated with
VCAN via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Versican¹		GHAP² ³
CSPG2¹ ² ³ ⁵		ERVR² ⁵
Chondroitin Sulfate Proteoglycan 2¹ ² ³		WGN² ⁵
PG-M¹ ² ³		WGN1² ⁵
Chondroitin Sulfate Proteoglycan Core Protein 2² ³		Versican Core Protein²
Glial Hyaluronate-Binding Protein² ³		Versican Proteoglycan²
Large Fibroblast Proteoglycan² ³

External Ids:	HGNC: 2464¹	Entrez Gene: 1462²	Ensembl: ENSG00000038427⁷	OMIM: 118661⁵	UniProtKB: P13611³

Export aliases for VCAN gene to outside databases

Previous GC identifer: GC05P077975

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for VCAN:

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)

UniProtKB/Swiss-Prot: CSPG2_HUMAN, P13611

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

Gene Wiki entry for VCAN (Versican)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000005.9 NC_018916.1 NT_006713.15

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the VCAN gene promoter:
Egr-3 AML1a GCNF MyoD HNF-3beta GATA-1 E47 GCNF-1 IRF-7A GCNF-2
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: VCAN promoter sequence

Search SABiosciences Chromatin IP Primers for VCAN

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat VCAN

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 5q14.3 Ensembl cytogenetic band: 5q14.2 HGNC cytogenetic band: 5q12-q14

VCAN Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
VCAN gene location

GeneLoc information about chromosome 5 GeneLoc Exon Structure

GeneLoc location for GC05P082804: view genomic region (about GC identifiers)

Start:	82,767,284 bp from pter	End:	82,878,122 bp from pter
Size:	110,839 bases	Orientation:	plus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CSPG2_HUMAN, P13611 (See protein sequence)

Recommended Name: Versican core protein precursor

Size: 3396 amino acids; 372820 Da

Subunit: Interacts with FBLN1 (By similarity)

Subcellular location: Secreted, extracellular space, extracellular matrix

Developmental stage: Disappears after the cartilage development

Secondary accessions: P20754 Q13010 Q13189 Q15123 Q9UCL9 Q9UNW5

Alternative splicing: 5 isoforms: P13611-1 P13611-2 P13611-3 P13611-4 P13611-5

Explore the universe of human proteins at neXtProt for VCAN: NX_P13611

Post-translational modifications:

Phosphorylation sites are present in the extracellular medium¹

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_P13611

VCAN Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins (4 alternative transcripts):

NP_001119808.1 NP_001157569.1 NP_001157570.1 NP_004376.2

ENSEMBL proteins:

ENSP00000265077 ENSP00000425959 ENSP00000426251 ENSP00000426715 ENSP00000421362

ENSP00000340062 ENSP00000342768

Reactome Protein details: P13611
Human Recombinant Protein Products for VCAN:

	Browse Purified and Recombinant Proteins at EMD Millipore
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	Browse recombinant and purified proteins available from Enzo Life Sciences
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	GenScript Custom Purified and Recombinant Proteins Services for VCAN
	Novus Biologicals VCAN Proteins Novus Biologicals VCAN Lysate
	Browse Sino Biological Recombinant Proteins
	Browse ProSpec Recombinant Proteins
	Browse Proteins at Uscn

Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005576	extracellular region	TAS	--
GO:0005578	proteinaceous extracellular matrix	IEA	--
GO:0005615	extracellular space	IDA	--
GO:0005796	Golgi lumen	TAS	--
GO:0031012	colocalizes with extracellular matrix	ISS	--

VCAN for ontologies About GeneDecksing

VCAN Antibody Products:

	EMD Millipore Mono- and Polyclonal Antibodies for the study of VCAN
	R&D Systems Antibodies for VCAN (Versican)
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	GenScript Custom Superior Antibodies Services for VCAN
	Novus Biologicals VCAN Antibodies
	Abcam antibodies for VCAN
	Browse Antibodies at Uscn
	ThermoFisher Antibody for VCAN

Assay Products for VCAN:

	Browse Kits and Assays available from EMD Millipore
	OriGene Custom Immunoassay Development Browse OriGene Fluorogenic Cell Assay Kits
	Browse R&D Systems for biochemical assays
	GenScript Custom Assay Services for VCAN
	Browse Enzo Life Sciences for kits & assays
	Browse ELISAs and CLIAs at Uscn

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

VCAN for domains About GeneDecksing

5/15 InterPro domains/families (see all 15):

IPR007110 Ig-like_dom

IPR016187 C-type_lectin_fold

IPR001881 EGF-like_Ca-bd

IPR003599 Ig_sub

IPR000742 EG-like_dom

Graphical View of Domain Structure for InterPro Entry P13611

ProtoNet protein and cluster: P13611

5/8 Blocks protein families (see all 8):

IPB000152 Aspartic acid and asparagine hydroxylation site

IPB000436 Sushi domain/SCR domain/CCP module

IPB000538 Link domain

IPB001438 Type II EGF-like signature

IPB001881 EGF-like calcium-binding

UniProtKB/Swiss-Prot: CSPG2_HUMAN, P13611

Similarity: Belongs to the aggrecan/versican proteoglycan family

Similarity: Contains 1 C-type lectin domain

Similarity: Contains 2 EGF-like domains

Similarity: Contains 1 Ig-like V-type (immunoglobulin-like) domain

Similarity: Contains 2 Link domains

Similarity: Contains 1 Sushi (CCP/SCR) domain

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Molecular Function:

UniProtKB/Swiss-Prot Summary: CSPG2_HUMAN, P13611

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

Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005509	calcium ion binding	IEA	--
GO:0005539	glycosaminoglycan binding	TAS	7528742
GO:0005540	hyaluronic acid binding	IEA	--
GO:0030246	carbohydrate binding	IEA	--

VCAN for ontologies About GeneDecksing

Phenotypes:
1 GenomeRNAi human phenotype for VCAN:

Decreased number of cells in m

4 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Vcan):

limbs/digits/tail

nervous system

normal

skeleton

VCAN for phenotypes About GeneDecksing

Animal Models:
Mouse knock-out Vcan^tm1.1Dzim for VCAN

inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for VCAN

miRNA Products:		OriGene 3'-UTR Clone (see all 4): VCAN Browse MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat VCAN
		8/40 QIAGEN miScript miRNA Assays for microRNAs that regulate VCAN (see all 40):
		hsa-miR-579 hsa-miR-3164 hsa-miR-200a hsa-miR-485-3p hsa-miR-141 hsa-miR-9 hsa-miR-1184 hsa-miR-124

		SwitchGear 3'UTR luciferase reporter plasmid: VCAN 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for VCAN (see all 4) OriGene shRNA RFP: VCAN OriGene siRNA: VCAN
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat VCAN
		Sirion Biotech Custom design and validation of potent shRNA sequences against VCAN

Gene Editing Products:			DNA2.0 Custom Protein Engineering Service for VCAN
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Clone Products:		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VCAN (see all 8) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VCAN (see all 4) OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 4): VCAN (NM_004385)
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		DNA2.0 Custom Codon Optimized Gene Synthesis Service for VCAN
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VCAN

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for VCAN
		LifeMap BioReagents: cell lines associated with VCAN: PureStem 4D20.8, NCr-fac Progenitor, PureStem E15, Meso-prx/latp Progenitor, PureStem SK11, NCr-fac & Meso-prx Progenitor
		Sirion Biotech Customized stable knockdown cell line services for VCAN Sirion Biotech Customized inducible knockdown cell line services for VCAN

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for VCAN

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways - 5/12 super-pathways (see all 12) About this table

See pathways by source

Super-pathway

contained gene-specific pathways

MPS IIIC - Sanfilippo syndrome C

8/15 pathways (see all 15)
MPS IIIC - Sanfilippo syndrome C	1.00	MPS IIID - Sanfilippo syndrome D	1.00
MPS I - Hurler syndrome	1.00	MPS IX - Natowicz syndrome	1.00
Mucopolysaccharidoses	1.00	MPS II - Hunter syndrome	1.00
MPS IV - Morquio syndrome A	1.00	Glycosaminoglycan metabolism	1.00

DSPGs are secreted

DSPG and CSPG translocate to the lysosome for degradation	1.00	CSPG is secreted	1.00
DSPGs are secreted	1.00	Dermatan sulfate biosynthesis	0.70
CS is cleaved from its proteoglycan	1.00	CS/DS degradation	0.54
DS is cleaved from its proteoglycan	1.00

Cell adhesion_Cell-matrix glycoconjugates

Cell adhesion_Cell-matrix glycoconjugates

1.00

Cell adhesion Cell-matrix glycoconjugates

0.97

A tetrasaccharide linker sequence is required for GAG synthesis

A tetrasaccharide linker sequence is required for GAG synthesis

1.00

Chondroitin sulfate/dermatan sulfate metabolism

0.54

Cell adhesion_ECM remodeling

Cell adhesion ECM remodeling

1.00

Cell adhesion_ECM remodeling

1.00

Pathway sources
See GeneCards unified pathways
Show all pathways

2 EMD Millipore Pathways for VCAN

	Cell adhesion Cell-matrix glycoconjugates
	Cell adhesion ECM remodeling

2 GeneGo (Thomson Reuters) Pathways for VCAN

	Cell adhesion Cell-matrix glycoconjugates
	Cell adhesion ECM remodeling

4 BioSystems Pathways for VCAN

	Regulation of Wnt-mediated beta catenin signaling and target gene transcription
	glycolysis I
	Direct p53 effectors
	gluconeogenesis I

5/27 Reactome Pathways for VCAN (see all 27)

	Chondroitin sulfate/dermatan sulfate metabolism
	MPS VI - Maroteaux-Lamy syndrome
	Metabolism
	DSPG and CSPG translocate to the lysosome for degradation
	Disease

1 Kegg Pathway (Kegg details for VCAN):

Cell adhesion molecules (CAMs)

VCAN for pathways About GeneDecksing

Interactions:

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for VCAN

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

5/71 Interacting proteins for VCAN (P13611^{2, 3} ENSP00000265077⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 71)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
CCL2	P13500³, ENSP00000225831⁴	I2D: score=4 STRING: ENSP00000225831
CXCL12	P48061³, ENSP00000363548⁴	I2D: score=2 STRING: ENSP00000363548
HAPLN1	P10915³, ENSP00000274341⁴	I2D: score=2 STRING: ENSP00000274341
PF4	P02776³, ENSP00000296029⁴	I2D: score=2 STRING: ENSP00000296029
PLA2G2A	P14555³, ENSP00000364252⁴	I2D: score=2 STRING: ENSP00000364252

About this table

Gene Ontology (GO): 5/14 biological process terms (GO ID links to tree view) (see all 14): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005975	carbohydrate metabolic process	TAS	--
GO:0007155	cell adhesion	IEA	--
GO:0007275	multicellular organismal development	TAS	2583089
GO:0007507	heart development	IEA	--
GO:0008037	cell recognition	TAS	2583089

VCAN for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

VCAN for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for VCAN

1 HMDB Compound for VCAN About this table

Compound	Synonyms	CAS #	PubMed Ids
Hyaluronic acid	hyaluronic acid	9004-61-9	--

10/22 Novoseek chemical compound relationships for VCAN gene (see all 22) About this table

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
neurocan	80	10	11038354 (2), 20420122 (2), 10400671 (2), 15590670 (1) (see all 7)
dermatan sulfate	74.6	14	12530013 (1), 12844226 (1), 18442658 (1), 19479939 (1) (see all 12)
glycosaminoglycan	74.4	13	8970376 (1), 7921538 (1), 16636652 (1), 11918305 (1) (see all 9)
chondroitin sulfate	73.2	36	10950950 (5), 12530013 (2), 7822336 (2), 16730906 (2) (see all 15)
keratan sulfate	67	6	10399179 (2), 11918305 (1), 16151708 (1), 11980843 (1)
chondroitin	65.7	6	10950950 (1), 19479939 (1), 9474087 (1), 11474365 (1) (see all 6)
dermatan	64	1	11474365 (1)
hyaluronic acid	55.4	19	1720020 (4), 10399179 (3), 7921538 (1), 12844226 (1) (see all 8)
iduronic acid	54	2	12530013 (1), 16118286 (1)
tgf beta1	36.1	6	15599946 (3), 15302416 (2), 15336555 (1)

Search CenterWatch for drugs/clinical trials and news about VCAN / CSPG2

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for VCAN gene (4 alternative transcripts):

NM_001126336.2 NM_001164097.1 NM_001164098.1 NM_004385.4

Unigene Cluster for VCAN:

Versican

Hs.643801 [show with all ESTs]

Unigene Representative Sequence: NM_004385

12 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000265077(uc003kii.3) ENST00000503923 ENST00000512590 ENST00000513960

ENST00000513984(uc003kih.4) ENST00000502527 ENST00000515397 ENST00000513016(uc003kil.3)

ENST00000507162 ENST00000505615 ENST00000343200(uc003kij.3) ENST00000342785(uc010jau.2 uc003kik.3)

miRNA Products:		OriGene 3'-UTR Clone (see all 4): VCAN Browse OriGene MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat VCAN
		8/40 QIAGEN miScript miRNA Assays for microRNAs that regulate VCAN (see all 40):
		hsa-miR-579 hsa-miR-3164 hsa-miR-200a hsa-miR-485-3p hsa-miR-141 hsa-miR-9 hsa-miR-1184 hsa-miR-124

		SwitchGear 3'UTR luciferase reporter plasmid: VCAN 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for VCAN (see all 4) OriGene shRNA RFP: VCAN OriGene siRNA: VCAN
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat VCAN
		Sirion Biotech Custom design and validation of potent shRNA sequences against VCAN

Clone Products:		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VCAN (see all 8) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VCAN (see all 4) OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 4): VCAN (NM_004385)
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for VCAN
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VCAN

Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for VCAN Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat VCAN
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat VCAN
		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat VCAN

Additional cDNA sequence:

AB209491.1 AF084545.1 AK296285.1 AK299770.1 AK307642.1 BC050524.1 BX641036.1 D32039.1

J02814.1 U16306.1 U26555.1 X15998.1

17 DOTS entries:

DT.92004195 DT.97816723 DT.102833978 DT.449140 DT.92450898 DT.97772672 DT.100827289 DT.100827290

DT.120890777 DT.95080321 DT.95309059 DT.100827284 DT.100827292 DT.100827297 DT.120890730 DT.120890748

DT.100728649

24/485 AceView cDNA sequences (see all 485):

AI755000 BI494397 AI094425 AA722599 NM_004385 CA447917 AU117861 AA665903

AU118963 AW519174 BQ673328 AW074103 AA256999 BP344959 AW475068 AI913191

CA445098 AI916347 AA478645 AI174666 BC050524 AW069627 CA414846 AU118073

GeneLoc Exon Structure

5/9 Alternative Splicing Database (ASD) splice patterns (SP) for VCAN (see all 9) About this scheme

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:

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

ECgene alternative splicing isoforms for VCAN

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

VCAN expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TATGAATGCT

About this image

VCAN expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

10/18 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 18)

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Cartilage

Cervical Intervertebral Disc

Intervertebral Disc Annulus Fibrosus Cells

Selective marker (cell-identifying gene)

Cartilage

Lumbar Intervertebral Disc

Intervertebral Disc Annulus Fibrosus Cells

Cartilage

Sacral Intervertebral Disc

Intervertebral Disc Annulus Fibrosus Cells

Cartilage

Thoracic Intervertebral Disc

Intervertebral Disc Annulus Fibrosus Cells

Cartilage

Heart

Atrioventricular Valves

Atrioventricular Valve Cells

Endocardium, Myocardium

Myocardium

Pericytes

Myocardium

Myocardium

Early Embryo (Zygote)

Zygote

2-Cell Embryo

Early Embryo

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Stem Cell Differentiation: 10/15 LifeMap Cells (see all 15)

Name

Category

PureStem™ mesenchymal Progenitor SK11 (Embryonic Progenitor Cell)

Adipose, Bone, Cartilage

PureStem™ mesenchymal progenitor E15 (Embryonic Progenitor Cell)

Adipose, Bone, Cartilage

PureStem™ progenitor E68 (Embryonic Progenitor Cell)

PureStem™ epithelial progenitor E164 (Embryonic Progenitor Cell)

Intermediate Mesoderm, Kidney

PureStem™ progenitor T42 (Embryonic Progenitor Cell)

PureStem™ mesenchymal progenitor SM30 (Embryonic Progenitor Cell)

Adipose, Bone, Cartilage

PureStem™ mesenchymal progenitor MEL2 (Embryonic Progenitor Cell)

Adipose, Bone, Cartilage

PureStem™ mesenchymal progenitor 4D20.8 (Embryonic Progenitor Cell)

Lateral Plate Mesoderm, Neural Crest

PureStem™ progenitor E69 (Embryonic Progenitor Cell)

PureStem™ progenitor EN13 (Embryonic Progenitor Cell)

See VCAN Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for VCAN

SOURCE GeneReport for Unigene cluster: Hs.643801

UniProtKB/Swiss-Prot: CSPG2_HUMAN, P13611

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

SABiosciences Expression via Pathway-Focused PCR Arrays including VCAN:

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Cardiotoxicity in human mouse rat

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(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of chordates.

Orthologs for VCAN gene from 4/11 species (see all 11) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	VCAN¹	versican	53.86(n) 40.12(a)		395565 NM_204787.1 NP_990118.1
lizard (Anolis carolinensis)	Reptilia	VCAN⁶	--	28(a)	1 ↔ 1	2(18585597-18724285)
African clawed frog (Xenopus laevis)	Amphibia	Xl.24776²	Xenopus laevis transcribed sequence with moderate similarity more	79.6(n)		CA988094.1
zebrafish (Danio rerio)	Actinopterygii	57051980²	--	72.32(n)		322700 57051980

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

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for VCAN gene

HAPLN1² HAPLN4² HAPLN3² ACAN² BCAN² NCAN² HAPLN2²

18/19 SIMAP similar genes for VCAN using alignment to 4 protein entries: CSPG2_HUMAN (see all proteins) (see all similar genes):

DKFZp686K06110 DKFZp761L191 BCAN ACAN NOTCH3 PROS1

CLEC4E F9 HAPLN1 HAPLN3 CSPG3 variant protein HAPLN2

CLEC1B REG1A CLEC4C CLEC4D SNED1 HAPLN4

VCAN for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

SNP ID	Valid	Clinical significance	Chr 5 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs80356556^1,2	C	pathogenic	78041097(+)	`TTTTTA/C/TTCAGG`	4	--	int¹		0	--	--	--	--
rs59948995^1,2	C	unknown	78045151(+)	`TAGACA/GTTTTA`	6	I V	int¹ mis¹		0	--	--	--	--
rs3756651^1,2	C,F,H	--	77974516(-)	`GCCAAT/GTTTTC`	4	--	us2k¹ trp³		17		EA NA NS WA	3646
rs73146662^1,2	C	--	77974537(+)	`AATCAC/TTACTG`	4	--	us2k¹		1		WA	2
rs3756650^1,2	C	--	77974608(-)	`GAAAGT/AATCCT`	4	--	us2k¹		5		EA NA WA	1530
rs78938292^1,2	F	--	77974613(+)	`ACTTTC/AATATT`	4	--	us2k¹		1		WA	118
rs11955739^1,2	C,H	--	77975557(+)	`GTGAGA/TCCGTG`	4	--	us2k¹ tfbs³		0	--	--	--	--
rs73146665^1,2	C	--	77975579(+)	`CTGCTG/CTCCCC`	4	--	us2k¹		1		WA	2
rs201831816^1,2	C	--	77977249(-)	`GGCGCC/TCCAGC`	4	--	int¹		0	--	--	--	--
rs11949286^1,2	C,H	--	77977758(+)	`CGGATA/CTGCCC`	4	--	int¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for VCAN (82767284 - 82878122 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for VCAN
1 Indel: 60539
Human Gene Mutation Database (HGMD): VCAN

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

VCAN for disorders           About GeneDecksing

OMIM gene information: 118661
OMIM disorders: 143200
UniProtKB/Swiss-Prot: CSPG2_HUMAN, P13611

Defects in VCAN are the cause of Wagner syndrome type 1 (WGN1) [MIM:143200]. WGN is a dominantly inherited

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. Systemic manifestations are absent in WGN

20/76 diseases for VCAN (see all 76): About MalaCards

wagner syndrome carpal tunnel syndrome odontogenic myxoma pre-eclampsia

abdominal aortic aneurysm erosive vitreoretinopathy traumatic brain injury aortic aneurysm

lichen sclerosus gastrointestinal stromal tumor chorioretinal atrophy brain injury

crescentic glomerulonephritis chorioretinitis chronic obstructive pulmonary disease cutaneous malignant melanoma

intracranial aneurysm oral squamous cell carcinoma myxoma costello syndrome

10/22 Novoseek disease relationships for VCAN gene (see all 22) About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
solar elastosis	55.3	2	7783424 (1), 10504457 (1)
vascular stenosis	46.8	1	16493581 (1)
aggressiveness	24.5	4	18383852 (1), 12534600 (1), 19269971 (1), 16730906 (1)
atherosclerosis	19.5	3	16845893 (1), 10397680 (1), 15539621 (1)
tumors	17.2	30	19160015 (3), 19608024 (3), 20420122 (2), 15073129 (2) (see all 19)
metastasis	14.2	18	19608024 (4), 17065588 (2), 17446061 (2), 17163843 (1) (see all 9)
medulloblastoma	12.1	1	8627343 (1)
melanoma	9.94	18	19269971 (6), 15645431 (3), 12972299 (2), 16847433 (2) (see all 6)
cancer	8.55	23	19160015 (5), 19608024 (3), 16730906 (2), 12530013 (1) (see all 12)
inflammation	3.51	5	19608024 (2), 15694131 (1), 2222452 (1), 9493652 (1)

GeneTests: VCAN

VCAN-Related Retinopathy

Human Genome Epidemiology (HuGE) Navigator: VCAN (11 documents)

Export disorders for VCAN gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for VCAN gene, integrated from 9 sources (see all 265):
(articles sorted by number of sources associating them with VCAN)

Utopia: connect your pdf to the dynamic
world of online information

Mapping of the versican proteoglycan gene (CSPG2) to the long arm of human chromosome 5 (5q12-5q14). (PubMed id 1478664)^{1, 2, 3, 9} Iozzo R.V.... McPherson J.D. (1992)
Isolation of a large aggregating proteoglycan from human brain. (PubMed id 1429726)^{1, 2, 9} Perides G.... Bignami A. (1992)
Versican/PG-M isoforms in vascular smooth muscle cells. (PubMed id 10397680)^{1, 2, 9} Lemire J.M....Wight T.N. (1999)
Identification of the proteoglycan versican in aorta and smooth muscle cells by DNA sequence analysis, in situ hybridization and immunohistochemistry. (PubMed id 7921538)^{1, 2, 9} Yao L.Y.... Sandell L.J. (1994)
Identification of a novel splice site mutation of the CSPG2 gene in a Japanese family with Wagner syndrome. (PubMed id 16043844)^{1, 2, 9} Miyamoto T.... Itakura M. (2005)
Differential expression of versican isoforms in brain tumors. (PubMed id 8627343)^{1, 2, 9} Paulus W.... Zimmermann D.R. (1996)
Characterization of the complete genomic structure of the human versican gene and functional analysis of its promoter. (PubMed id 7528742)^{1, 2, 9} Naso M.F.... Iozzo R.V. (1994)
Molecular evidence for differences in endometrium in severe versus mild endometriosis. (PubMed id 21063030)^{1, 3} Aghajanova L. and Giudice L.C. (2011)
Expression of PG-M(V3), an alternatively spliced form of PG-M without a chondroitin sulfate attachment in region in mouse and human tissues. (PubMed id 7876137)^{1, 2} Zako M.... Kimata K. (1995)
A novel glycosaminoglycan attachment domain identified in two alternative splice variants of human versican. (PubMed id 7806529)^{1, 2} Dours-Zimmermann M.T. and Zimmermann D.R. (1994)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
Disorders
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 1462	HGNC: 2464	AceView: CSPG2	Ensembl:ENSG00000038427	euGenes: HUgn1462
ECgene: VCAN	Kegg: 1462	H-InvDB: VCAN

(According to HUGE)
About This Section

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
PharmGKB entry for VCAN	Pharmacogenomics, SNPs, Pathways
Functional Glycomics Gateway - Glycan Binding	http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Ctlect_214

Intellectual Property for VCAN gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for VCAN gene:
Search GeneIP for patents involving VCAN

GeneCards and IP:
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