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Vcan versican [ Mus musculus (house mouse) ]

Gene ID: 13003, updated on 31-Mar-2024

Summary

Official Symbol
Vcanprovided by MGI
Official Full Name
versicanprovided by MGI
Primary source
MGI:MGI:102889
See related
Ensembl:ENSMUSG00000021614 AllianceGenome:MGI:102889
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
NG2; hdf; PG-M; Cspg2; DPEAAE; PG-M(V0); PG-M(V1); 9430051N09; 5430420N07Rik
Summary
Enables protein phosphatase binding activity. Acts upstream of or within heart development and ureteric bud development. Located in extracellular matrix. Is expressed in several structures, including central nervous system; embryo mesenchyme; genitourinary system; heart; and jaw. Human ortholog(s) of this gene implicated in intracranial aneurysm. Orthologous to human VCAN (versican). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in limb E14.5 (RPKM 25.2), CNS E11.5 (RPKM 14.1) and 9 other tissues See more
Orthologs
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Genomic context

Location:
13 C3; 13 45.5 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (89803429..89891146, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (89655309..89743027, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene hyaluronan and proteoglycan link protein 1 Neighboring gene predicted gene, 53805 Neighboring gene acylglycerol kinase pseudogene Neighboring gene STARR-seq mESC enhancer starr_35223 Neighboring gene STARR-seq mESC enhancer starr_35224 Neighboring gene high mobility group box 1 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E8538 Neighboring gene predicted gene 4117 Neighboring gene predicted gene, 50611 Neighboring gene STARR-seq mESC enhancer starr_35226 Neighboring gene X-ray repair complementing defective repair in Chinese hamster cells 4 Neighboring gene STARR-seq mESC enhancer starr_35227 Neighboring gene STARR-seq mESC enhancer starr_35228 Neighboring gene STARR-seq mESC enhancer starr_35229 Neighboring gene STARR-positive B cell enhancer mm9_chr13:90229070-90229371

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables extracellular matrix structural constituent conferring compression resistance RCA
inferred from Reviewed Computational Analysis
more info
PubMed 
enables hyaluronic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables protein phosphatase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in central nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in glial cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in glial cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within heart development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of neuroblast proliferation IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within regulation of phosphoprotein phosphatase activity ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in skeletal system development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in ureteric bud development IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in collagen-containing extracellular matrix HDA PubMed 
located_in collagen-containing extracellular matrix ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular region ISO
Inferred from Sequence Orthology
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in perineuronal net IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in perineuronal net ISO
Inferred from Sequence Orthology
more info
 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
versican core protein
Names
PG-M core protein
chondroitin sulfate proteoglycan core protein 2
large fibroblast proteoglycan

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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.

mRNA and Protein(s)

  1. NM_001081249.1NP_001074718.1  versican core protein isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1, also referred to as V0).
    Source sequence(s)
    AC134397, AC154460
    Consensus CDS
    CCDS36740.1
    UniProtKB/Swiss-Prot
    Q62058, Q62059, Q9CUU0
    UniProtKB/TrEMBL
    E9PYH0
    Related
    ENSMUSP00000105173.3, ENSMUST00000109546.9
    Conserved Domains (7) summary
    cd05901
    Location:36151
    Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
    cd00033
    Location:32543310
    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:31273250
    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:30853121
    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 ...
  2. NM_001134474.1NP_001127946.1  versican core protein isoform 3 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 3, also referred to as V2), compared to isoform 1.
    Source sequence(s)
    AC134397, AC154460
    Consensus CDS
    CCDS49324.1
    UniProtKB/TrEMBL
    E9QMK2
    Related
    ENSMUSP00000105171.3, ENSMUST00000109544.9
    Conserved Domains (7) summary
    cd05901
    Location:36151
    Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
    cd00033
    Location:15151571
    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:13881511
    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:13461382
    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_001134475.1NP_001127947.1  versican core protein isoform 4 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate in-frame exons, compared to variant 1, resulting in a shorter protein (isoform 4, also referred to as V3), compared to isoform 1.
    Source sequence(s)
    AC134397, AC154460
    Consensus CDS
    CCDS49322.1
    UniProtKB/TrEMBL
    E9QMK3
    Related
    ENSMUSP00000105170.3, ENSMUST00000109543.9
    Conserved Domains (7) summary
    cd05901
    Location:36151
    Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
    cd00033
    Location: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
  4. NM_019389.2NP_062262.2  versican core protein isoform 2 precursor

    See identical proteins and their annotated locations for NP_062262.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 2, also referred to as V1), compared to isoform 1.
    Source sequence(s)
    AC134397, AC154460
    Consensus CDS
    CCDS49323.1
    UniProtKB/TrEMBL
    G3XA35
    Related
    ENSMUSP00000125446.2, ENSMUST00000159910.8
    Conserved Domains (7) summary
    cd05901
    Location:36151
    Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
    cd00033
    Location:22942350
    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:21672290
    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:21252161
    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 ...
  5. NM_172955.1NP_766543.1  versican core protein isoform 5 precursor

    See identical proteins and their annotated locations for NP_766543.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 3' coding region and UTR, compared to variant 1. The resulting protein (isoform 5) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC134397, AK034871
    Consensus CDS
    CCDS49321.1
    UniProtKB/TrEMBL
    Q4VA91, Q8BS97
    Related
    ENSMUSP00000125432.2, ENSMUST00000159337.8
    Conserved Domains (4) summary
    cd05901
    Location:36151
    Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican
    smart00410
    Location:29147
    IG_like; Immunoglobulin like
    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: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000079.7 Reference GRCm39 C57BL/6J

    Range
    89803429..89891146 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011244471.4XP_011242773.2  versican core protein isoform X1

    Conserved Domains (3) summary
    cd00033
    Location:19702026
    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:18431966
    CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
    cd00054
    Location:18011837
    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 ...

RNA

  1. XR_004937935.1 RNA Sequence