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acanb aggrecan b [ Danio rerio (zebrafish) ]

Gene ID: 559593, updated on 9-Dec-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, Dec 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
  • 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

    UniProtKB/TrEMBL
    A0A8M9P6I2
    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
    A0A8M9P6I2, 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
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