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Acan aggrecan [ Mus musculus (house mouse) ]

Gene ID: 11595, updated on 2-Oct-2018

Summary

Official Symbol
Acanprovided by MGI
Official Full Name
aggrecanprovided by MGI
Primary source
MGI:MGI:99602
See related
Ensembl:ENSMUSG00000030607 Vega:OTTMUSG00000058542
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
Agc; cmd; Agc1; CSPCP; Cspg1; b2b183Clo
Expression
Biased expression in limb E14.5 (RPKM 40.6) and CNS E14 (RPKM 4.1) See more
Orthologs

Genomic context

See Acan in Genome Data Viewer
Location:
7 D2; 7 44.88 cM
Exon count:
18
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 7 NC_000073.6 (79053202..79115099)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 7 NC_000073.5 (86198369..86259985)

Chromosome 7 - NC_000073.6Genomic Context describing neighboring genes Neighboring gene interferon-stimulated protein Neighboring gene predicted gene, 31213 Neighboring gene predicted gene, 26633 Neighboring gene hyaluronan and proteoglycan link protein 3 Neighboring gene milk fat globule-EGF factor 8 protein

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 FunctionsWhat's a GeneRIF?

Variation

Alleles

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

Pathways from BioSystems

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
calcium ion binding ISO
Inferred from Sequence Orthology
more info
 
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
hyaluronic acid binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cartilage condensation IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
central nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chondrocyte development IMP
Inferred from Mutant Phenotype
more info
PubMed 
collagen fibril organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
heart development IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
proteoglycan biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
GABA-ergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
basement membrane IDA
Inferred from Direct Assay
more info
PubMed 
extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 
extracellular region IEA
Inferred from Electronic Annotation
more info
 
extracellular space HDA PubMed 
extracellular space ISO
Inferred from Sequence Orthology
more info
 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
neuron projection ISO
Inferred from Sequence Orthology
more info
 
neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
perineuronal net ISO
Inferred from Sequence Orthology
more info
 
perisynaptic extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
aggrecan core protein
Names
aggrecan 1
cartilage-specific proteoglycan core protein

NCBI Reference Sequences (RefSeq)

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_001361500.1NP_001348429.1  aggrecan core protein isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC110520
    Conserved Domains (8) summary
    cd05900
    Location:43154
    Ig_Aggrecan; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan
    cd00033
    Location:20872143
    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:19602083
    CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
    cd00054
    Location:19181954
    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:153247
    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:254349
    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 ...
    cl25397
    Location:11711630
    AidA; Type V secretory pathway, adhesin AidA [Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport]
    cl28033
    Location:6891027
    Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region
  2. NM_007424.3NP_031450.2  aggrecan core protein isoform 2 precursor

    See identical proteins and their annotated locations for NP_031450.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC110520
    Consensus CDS
    CCDS21377.1
    UniProtKB/Swiss-Prot
    Q61282
    Related
    ENSMUSP00000032835.5, OTTMUSP00000074932, ENSMUST00000032835.6
    Conserved Domains (6) summary
    cd05900
    Location:43154
    Ig_Aggrecan; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan
    cd00033
    Location:20492105
    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:19222045
    CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
    smart00410
    Location:36150
    IG_like; Immunoglobulin like
    cd03517
    Location:153247
    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:254349
    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: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000073.6 Reference GRCm38.p4 C57BL/6J

    Range
    79053202..79115099
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006540566.1XP_006540629.1  aggrecan core protein isoform X1

    Conserved Domains (8) summary
    cd05900
    Location:43154
    Ig_Aggrecan; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan
    cd00033
    Location:20872143
    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:19602083
    CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
    cd00054
    Location:19181954
    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:153247
    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:254349
    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 ...
    cl25397
    Location:11711630
    AidA; Type V secretory pathway, adhesin AidA [Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport]
    cl28033
    Location:6891027
    Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region
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