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    VCAN versican [ Homo sapiens (human) ]

    Gene ID: 1462, updated on 22-Apr-2017
    Official Symbol
    VCANprovided by HGNC
    Official Full Name
    versicanprovided by HGNC
    Primary source
    HGNC:HGNC:2464
    See related
    Ensembl:ENSG00000038427 MIM:118661; Vega:OTTHUMG00000131321
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    WGN; ERVR; GHAP; PG-M; WGN1; CSPG2
    Summary
    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]
    Orthologs
    Location:
    5q14.2-q14.3
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 5 NC_000005.10 (83471674..83582303)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (82767493..82878122)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105379053 Neighboring gene ferritin heavy chain 1 pseudogene 9 Neighboring gene uncharacterized LOC107986431 Neighboring gene VCAN antisense RNA 1 Neighboring gene hyaluronan and proteoglycan link protein 1 Neighboring gene RNA, 7SK small nuclear pseudogene 295 Neighboring gene RNA, U6 small nuclear 620, pseudogene

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Associated conditions

    Description Tests
    Wagner syndrome
    MedGen: C0339540 OMIM: 143200 GeneReviews: VCAN-Related Vitreoretinopathy
    Compare labs

    NHGRI GWAS Catalog

    Description
    Genome-wide association study identifies three susceptibility loci for laryngeal squamous cell carcinoma in the Chinese population.
    NHGRI GWA Catalog
    Genome-wide association study of major recurrent depression in the U.K. population.
    NHGRI GWA Catalog

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 upregulates the expression of versican (VCAN) in peptide-treated PBMCs PubMed

    Go to the HIV-1, Human Interaction Database

    • A tetrasaccharide linker sequence is required for GAG synthesis, organism-specific biosystem (from REACTOME)
      A tetrasaccharide linker sequence is required for GAG synthesis, organism-specific biosystemThe biosynthesis of dermatan sulfate/chondroitin sulfate and heparin/heparan sulfate glycosaminoglycans (GAGs) starts with the formation of a tetrasaccharide linker sequence to the core protein. The ...
    • CS/DS degradation, organism-specific biosystem (from REACTOME)
      CS/DS degradation, organism-specific biosystemLysosomal degradation of glycoproteins is part of the cellular homeostasis of glycosylation (Winchester 2005). The steps outlined below describe the degradation of chondroitin sulfate and dermatan su...
    • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
      Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
      Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
    • Chondroitin sulfate biosynthesis, organism-specific biosystem (from REACTOME)
      Chondroitin sulfate biosynthesis, organism-specific biosystemChondroitin sulfate (CS) glycosaminoglycan consists of N-acetylgalactosamine (GalNAc) residues alternating in glycosidic linkages with glucuronic acid (GlcA). GalNAc residues are sulfated to varying ...
    • Chondroitin sulfate/dermatan sulfate metabolism, organism-specific biosystem (from REACTOME)
      Chondroitin sulfate/dermatan sulfate metabolism, organism-specific biosystemChondroitin sulfate (CS) is a sulfated glycosaminoglycan (GAG). CS chains are unbranched polysaccharides of varying length containing two alternating monosaccharides: D-glucuronic acid (GlcA) and N-a...
    • Defective B3GALT6 causes EDSP2 and SEMDJL1, organism-specific biosystem (from REACTOME)
      Defective B3GALT6 causes EDSP2 and SEMDJL1, organism-specific biosystemThe biosynthesis of dermatan sulfate/chondroitin sulfate and heparin/heparan sulfate glycosaminoglycans (GAGs) starts with the formation of a tetrasaccharide linker sequence attached to the core prot...
    • Defective B3GAT3 causes JDSSDHD, organism-specific biosystem (from REACTOME)
      Defective B3GAT3 causes JDSSDHD, organism-specific biosystemGalactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferases1, 2 and 3 (B3GAT1-3) are involved in forming the linker tetrasaccharide present in heparan sulfate and chondroitin sulfate. Defects ...
    • Defective B4GALT7 causes EDS, progeroid type, organism-specific biosystem (from REACTOME)
      Defective B4GALT7 causes EDS, progeroid type, organism-specific biosystemEhlers?Danlos syndrome (EDS) is a group of inherited connective tissue disorders, caused by a defect in the synthesis of collagen types I or III. Abnormal collagen renders connective tissues more ela...
    • Defective CHST14 causes EDS, musculocontractural type, organism-specific biosystem (from REACTOME)
      Defective CHST14 causes EDS, musculocontractural type, organism-specific biosystemCarbohydrate sulfotransferase 14 (CHST14 also known as D4ST-1) mediates the transfer of sulfate to position 4 of further N-acetylgalactosamine (GalNAc) residues of dermatan sulfate (DS). Defects in C...
    • Defective CHST3 causes SEDCJD, organism-specific biosystem (from REACTOME)
      Defective CHST3 causes SEDCJD, organism-specific biosystemCarbohydrate sulfotransferase 3 (CHST3) transfers sulfate (SO4(2-)) to position 6 of N-acetylgalactosamine (GalNAc) residues of chondroitin-containg proteins resulting in chondroitin sulfate (CS), th...
    • Defective CHSY1 causes TPBS, organism-specific biosystem (from REACTOME)
      Defective CHSY1 causes TPBS, organism-specific biosystemChondroitin sulfate synthases (CHSY) are involved in the synthesis of chondroitin sulfate, adding alternatingly glucuronate (GlcA) and N-acetylgalactosamine (GalNAc) to the growing chondroitin polyme...
    • Dermatan sulfate biosynthesis, organism-specific biosystem (from REACTOME)
      Dermatan sulfate biosynthesis, organism-specific biosystemDermatan sulfate (DS) consists of N-acetylgalactosamine (GalNAc) residues alternating in glycosidic linkages with glucuronic acid (GlcA) or iduronic acid (IdoA) residues. As with CS, GalNAc residues ...
    • Direct p53 effectors, organism-specific biosystem (from Pathway Interaction Database)
      Direct p53 effectors, organism-specific biosystem
      Direct p53 effectors
    • Disease, organism-specific biosystem (from REACTOME)
      Disease, organism-specific biosystemBiological processes are captured in Reactome by identifying the molecules (DNA, RNA, protein, small molecules) involved in them and describing the details of their interactions. From this molecular ...
    • Diseases associated with glycosaminoglycan metabolism, organism-specific biosystem (from REACTOME)
      Diseases associated with glycosaminoglycan metabolism, organism-specific biosystemA number of genetic disorders are caused by mutations in the genes encoding glycosyltransferases and sulfotransferases, enzymes responsible for the synthesis of glycosaminoglycans (GAGs) as well as ...
    • Diseases of glycosylation, organism-specific biosystem (from REACTOME)
      Diseases of glycosylation, organism-specific biosystemDiseases of glycosylation, usually referred to as congenital disorders of glycosylation (CDG), are rare inherited disorders ascribing defects of nucleotide-sugar biosynthesis and transport, glycosylt...
    • ECM proteoglycans, organism-specific biosystem (from REACTOME)
      ECM proteoglycans, organism-specific biosystemProteoglycans are major components of the extracellular matrix. In cartilage the matrix constitutes more than 90% of tissue dry weight. Proteoglycans are proteins substituted with glycosaminoglycans ...
    • Extracellular matrix organization, organism-specific biosystem (from REACTOME)
      Extracellular matrix organization, organism-specific biosystemThe extracellular matrix is a component of all mammalian tissues, a network consisting largely of the fibrous proteins collagen, elastin and associated-microfibrils, fibronectin and laminins embedded...
    • Glycosaminoglycan metabolism, organism-specific biosystem (from REACTOME)
      Glycosaminoglycan metabolism, organism-specific biosystemGlycosaminoglycans (GAGs) are long, unbranched polysaccharides containing a repeating disaccharide unit composed of a hexosamine (either N-acetylgalactosamine (GalNAc) or N-acetylglucosamine (GlcNAc)...
    • Heparan sulfate/heparin (HS-GAG) metabolism, organism-specific biosystem (from REACTOME)
      Heparan sulfate/heparin (HS-GAG) metabolism, organism-specific biosystemThe acronym HS-GAG is used to describe both heparin and heparan sulfate. HS-GAG is a member of the glycosaminoglycan family and consists of a variably sulfated repeating disaccharide unit, the most ...
    • Metabolism, organism-specific biosystem (from REACTOME)
      Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
    • Metabolism of carbohydrates, organism-specific biosystem (from REACTOME)
      Metabolism of carbohydrates, organism-specific biosystemThese pathways together are responsible for: 1) the extraction of energy and carbon skeletons for biosyntheses from dietary sugars and related molecules; 2) the short-term storage of glucose in the b...
    • Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem (from Pathway Interaction Database)
      Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem
      Regulation of Wnt-mediated beta catenin signaling and target gene transcription
    • Spinal Cord Injury, organism-specific biosystem (from WikiPathways)
      Spinal Cord Injury, organism-specific biosystemThis pathway provides an overview of cell types, therapeutic targets, drugs, new proposed targets and pathways implicated in spinal cord injury. Spinal cord injury is a complex multistep process that...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • DKFZp686K06110

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular matrix structural constituent IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    glycosaminoglycan binding TAS
    Traceable Author Statement
    more info
    PubMed 
    hyaluronic acid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    cell recognition TAS
    Traceable Author Statement
    more info
    PubMed 
    central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    chondroitin sulfate biosynthetic process TAS
    Traceable Author Statement
    more info
     
    chondroitin sulfate catabolic process TAS
    Traceable Author Statement
    more info
     
    dermatan sulfate biosynthetic process TAS
    Traceable Author Statement
    more info
     
    extracellular matrix organization TAS
    Traceable Author Statement
    more info
     
    glycosaminoglycan metabolic process TAS
    Traceable Author Statement
    more info
     
    multicellular organism development TAS
    Traceable Author Statement
    more info
    PubMed 
    osteoblast differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    skeletal system development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    Golgi lumen TAS
    Traceable Author Statement
    more info
     
    extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with extracellular matrix ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    extracellular region TAS
    Traceable Author Statement
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lysosomal lumen TAS
    Traceable Author Statement
    more info
     
    membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proteinaceous extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Preferred Names
    versican core protein
    Names
    chondroitin sulfate proteoglycan core protein 2
    glial hyaluronate-binding protein
    large fibroblast proteoglycan
    versican proteoglycan

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_012682.1 RefSeqGene

      Range
      4964..115593
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001126336.2NP_001119808.1  versican core protein isoform 2 precursor

      See identical proteins and their annotated locations for NP_001119808.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2), also known as PG-M(V3), omits two coding exons, compared to variant 1. This results in a shorter protein (isoform 2) with no chondroitin sulfate attachment domain.
      Source sequence(s)
      AC026696, BC050524, D32039, DA361670, DT217515
      Consensus CDS
      CCDS47242.1
      UniProtKB/Swiss-Prot
      P13611
      UniProtKB/TrEMBL
      Q86W61
      Related
      ENSP00000421362.2, OTTHUMP00000222358, ENST00000502527.2, OTTHUMT00000369622
      Conserved Domains (7) summary
      cd05901
      Location:36151
      Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
      cd00033
      Location:555611
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00410
      Location:29147
      IG_like; Immunoglobulin like
      cd00054
      Location:386422
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd03517
      Location:150244
      Link_domain_CSPGs_modules_1_3; Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: ...
      cd03520
      Location:251346
      Link_domain_CSPGs_modules_2_4; Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The ...
      cl02432
      Location:428551
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    2. NM_001164097.1NP_001157569.1  versican core protein isoform 3 precursor

      See identical proteins and their annotated locations for NP_001157569.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3), also known as PG-M(V1), lacks an exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
      Source sequence(s)
      AA320958, AC026696, BX641036, DA361670, X15998
      Consensus CDS
      CCDS54876.1
      UniProtKB/Swiss-Prot
      P13611
      UniProtKB/TrEMBL
      A0A024RAL1, Q6MZK8
      Related
      ENSP00000340062.5, ENST00000343200.9
      Conserved Domains (7) summary
      cd05901
      Location:36151
      Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
      cd00033
      Location:23092365
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      cd03588
      Location:21822305
      CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
      smart00410
      Location:29147
      IG_like; Immunoglobulin like
      cd00054
      Location:21402176
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd03517
      Location:150244
      Link_domain_CSPGs_modules_1_3; Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: ...
      cd03520
      Location:251346
      Link_domain_CSPGs_modules_2_4; Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The ...
    3. NM_001164098.1NP_001157570.1  versican core protein isoform 4 precursor

      See identical proteins and their annotated locations for NP_001157570.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4), also known as PG-M(V2), lacks an exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 4), compared to isoform 1.
      Source sequence(s)
      AA320958, AC026696, DA361670, U26555
      Consensus CDS
      CCDS54875.1
      UniProtKB/Swiss-Prot
      P13611
      UniProtKB/TrEMBL
      A0A024RAP3
      Related
      ENSP00000342768.4, ENST00000342785.8
      Conserved Domains (7) summary
      cd05901
      Location:36151
      Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
      cd00033
      Location:15421598
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      cd03588
      Location:14151538
      CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
      smart00410
      Location:29147
      IG_like; Immunoglobulin like
      cd00054
      Location:13731409
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd03517
      Location:150244
      Link_domain_CSPGs_modules_1_3; Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: ...
      cd03520
      Location:251346
      Link_domain_CSPGs_modules_2_4; Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The ...
    4. NM_004385.4NP_004376.2  versican core protein isoform 1 precursor

      See identical proteins and their annotated locations for NP_004376.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1), also known as PG-M(V0), encodes the longest isoform (1).
      Source sequence(s)
      AB209491, AC026696, DA361670, DT217515, U16306
      Consensus CDS
      CCDS4060.1
      UniProtKB/Swiss-Prot
      P13611
      UniProtKB/TrEMBL
      A0A024RAQ9, Q59FG9
      Related
      ENSP00000265077.3, OTTHUMP00000161998, ENST00000265077.7, OTTHUMT00000254092
      Conserved Domains (7) summary
      cd05901
      Location:36151
      Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
      cd00033
      Location:32963352
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      cd03588
      Location:31693292
      CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
      smart00410
      Location:29147
      IG_like; Immunoglobulin like
      cd00054
      Location:31273163
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd03517
      Location:150244
      Link_domain_CSPGs_modules_1_3; Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: ...
      cd03520
      Location:251346
      Link_domain_CSPGs_modules_2_4; Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The ...

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p7 Primary Assembly

      Range
      83471674..83582303
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.1

    Genomic

    1. NC_018916.2 Alternate CHM1_1.1

      Range
      82200193..82311247
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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