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    acanb aggrecan b [ Danio rerio (zebrafish) ]

    Gene ID: 559593, updated on 14-Nov-2024

    Summary

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    Official Symbol
    acanbprovided by ZNC
    Official Full Name
    aggrecan bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-100422-16
    See related
    Ensembl:ENSDARG00000045799 AllianceGenome:ZFIN:ZDB-GENE-100422-16
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to enable carbohydrate binding activity and hyaluronic acid binding activity. Acts upstream of or within fin regeneration. Predicted to be located in extracellular region and plasma membrane. Predicted to be active in extracellular space; perineuronal net; and synapse. Human ortholog(s) of this gene implicated in spondyloepiphyseal dysplasia Kimberley type. Orthologous to human ACAN (aggrecan). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
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    Genomic context

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    See acanb in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (19209610..19224310, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (19113168..19126343, complement)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene milk fat globule EGF and factor V/VIII domain containing b Neighboring gene hyaluronan and proteoglycan link protein 3 Neighboring gene diphosphoinositol pentakisphosphate kinase 1b Neighboring gene microtubule-associated protein 1Ab

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Identification of proteoglycan from salmon nasal cartilage. Kakizaki I, et al. Arch Biochem Biophys, 2011 Feb 1. PMID 21056541
    2. Reduced aggrecan expression affects cardiac outflow tract development in zebrafish and is associated with bicuspid aortic valve disease in humans. Rambeau P, et al. Int J Cardiol, 2017 Dec 15. PMID 28986054
    3. Cx43-Dependent Skeletal Phenotypes Are Mediated by Interactions between the Hapln1a-ECM and Sema3d during Fin Regeneration. Govindan J, et al. PLoS One, 2016. PMID 26828861, Free PMC Article
    4. Asymmetric Hapln1a drives regionalized cardiac ECM expansion and promotes heart morphogenesis in zebrafish development. Derrick CJ, et al. Cardiovasc Res, 2022 Jan 7. PMID 33616638, Free PMC Article
    5. Wilms Tumor 1b defines a wound-specific sheath cell subpopulation associated with notochord repair. Lopez-Baez JC, et al. Elife, 2018 Feb 6. PMID 29405914, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hyaluronic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within fin regeneration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    aggrecan core protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007136.7 Reference GRCz11 Primary Assembly

      Range
      19209610..19224310 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068217527.1 → XP_068073628.1  aggrecan core protein

      Related
      ENSDARP00000124852.1, ENSDART00000149917.3

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395197.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      139949..156812 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021473853.2 → XP_021329528.1  aggrecan core protein

      UniProtKB/TrEMBL
      A0A8M9PR78
      Conserved Domains (6) summary
      cd00033
      Location:1287 → 1344
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      cd03517
      Location:158 → 252
      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:560 → 655
      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 ...
      pfam00193
      Location:459 → 553
      Xlink; Extracellular link domain
      cl02432
      Location:1160 → 1283
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cl11960
      Location:45 → 159
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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