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    Acan aggrecan [ Rattus norvegicus (Norway rat) ]

    Gene ID: 58968, updated on 9-Dec-2024

    Summary

    Official Symbol
    Acanprovided by RGD
    Official Full Name
    aggrecanprovided by RGD
    Primary source
    RGD:68358
    See related
    EnsemblRapid:ENSRNOG00000028992 AllianceGenome:RGD:68358
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Agc; Agc1
    Summary
    Enables calcium ion binding activity. Involved in several processes, including chondroblast differentiation; response to acidic pH; and response to glucose. Located in extracellular space; neuronal cell body; and perineuronal net. Used to study degenerative disc disease. Biomarker of congestive heart failure; degenerative disc disease; osteoarthritis; and status epilepticus. Human ortholog(s) of this gene implicated in spondyloepiphyseal dysplasia Kimberley type. Orthologous to human ACAN (aggrecan). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 13.1), Thymus (RPKM 12.1) and 4 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Acan in Genome Data Viewer
    Location:
    1q31
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (142390951..142453779)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (132981582..133044416)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (140762758..140824441)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120097803 Neighboring gene uncharacterized LOC120099864 Neighboring gene hyaluronan and proteoglycan link protein 3 Neighboring gene milk fat globule EGF and factor V/VIII domain containing

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding PubMed 
    enables calcium ion binding  
    enables carbohydrate binding  
    enables hyaluronic acid binding  
    Process Evidence Code Pubs
    involved_in cartilage condensation  
    acts_upstream_of_or_within cartilage condensation  
    involved_in cell adhesion  
    involved_in cellular response to growth factor stimulus PubMed 
    involved_in central nervous system development  
    involved_in chondroblast differentiation PubMed 
    involved_in chondrocyte development  
    acts_upstream_of_or_within chondrocyte development  
    involved_in collagen fibril organization  
    acts_upstream_of_or_within collagen fibril organization  
    involved_in heart development  
    acts_upstream_of_or_within heart development  
    involved_in negative regulation of cell migration PubMed 
    involved_in ossification PubMed 
    involved_in proteoglycan biosynthetic process  
    acts_upstream_of_or_within proteoglycan biosynthetic process  
    involved_in response to acidic pH PubMed 
    involved_in response to glucose PubMed 
    involved_in response to gravity PubMed 
    involved_in response to mechanical stimulus PubMed 
    involved_in response to organic cyclic compound PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in skeletal system development  
    involved_in spinal cord development PubMed 
    Component Evidence Code Pubs
    located_in GABA-ergic synapse  
    is_active_in GABA-ergic synapse  
    located_in basement membrane  
    located_in basement membrane  
    located_in extracellular matrix  
    located_in extracellular matrix  
    located_in extracellular region  
    is_active_in extracellular space  
    located_in extracellular space PubMed 
    located_in glutamatergic synapse  
    is_active_in glutamatergic synapse  
    located_in neuronal cell body PubMed 
    is_active_in perineuronal net  
    located_in perineuronal net PubMed 
    located_in perisynaptic extracellular matrix  
    is_active_in perisynaptic extracellular matrix  
    is_active_in synapse  

    General protein information

    Preferred Names
    aggrecan core protein
    Names
    CSPCP
    aggrecan 1
    aggrecan, structural proteoglycan of cartilage
    cartilage-specific proteoglycan core protein

    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_022190.2NP_071526.2  aggrecan core protein precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JC41, D4A7Y1
      Related
      ENSRNOP00000042691.5, ENSRNOT00000047848.6

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      142390951..142453779
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039101035.2XP_038956963.1  aggrecan core protein isoform X1

      UniProtKB/TrEMBL
      A6JC42, F1LQI4
      Related
      ENSRNOP00000044130.5, ENSRNOT00000049681.8
      Conserved Domains (8) summary
      cd00033
      Location:20412097
      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:19142037
      CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins
      PRK15319
      Location:11961597
      PRK15319; fibronectin-binding autotransporter adhesin ShdA
      PLN02217
      Location:15911753
      PLN02217; probable pectinesterase/pectinesterase inhibitor
      PHA03307
      Location:687998
      PHA03307; transcriptional regulator ICP4; Provisional
      cd03517
      Location:153247
      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: versican, neurocan, and brevican. ...
      cd03520
      Location:254349
      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 link domain is a hyaluronan ...
      cd05900
      Location:33155
      Ig_Aggrecan; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan
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