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chsy1 chondroitin sulfate synthase 1 [ Danio rerio (zebrafish) ]

Gene ID: 324407, updated on 9-Sep-2025
Official Symbol
chsy1provided by ZNC
Official Full Name
chondroitin sulfate synthase 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-3127
See related
Ensembl:ENSDARG00000079027 AllianceGenome:ZFIN:ZDB-GENE-030131-3127
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
chys1; zgc:64191; wu:fc27h05; wu:fc27h06
Summary
Predicted to enable glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. Acts upstream of or within several processes, including chondroitin sulfate proteoglycan biosynthetic process; pectoral fin development; and sensory organ morphogenesis. Predicted to be located in Golgi cisterna membrane. Is expressed in several structures, including central nervous system; cranium; inner ear; pectoral fin bud; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in temtamy preaxial brachydactyly syndrome. Orthologous to human CHSY1 (chondroitin sulfate synthase 1). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs
human mouse all
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See chsy1 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2025_04 current GRCz12tu (GCF_049306965.1) 7 NC_133182.1 (9158889..9344258)
RS_2024_08 previous assembly GRCz11 (GCF_000002035.6) 7 NC_007118.7 (9326234..9511298)

Chromosome 7 - NC_133182.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC141375294 Neighboring gene small nuclear ribonucleoprotein polypeptide A' Neighboring gene selenoprotein S Neighboring gene uncharacterized LOC141375296 Neighboring gene uncharacterized LOC141375303 Neighboring gene leucine-rich repeat kinase 1 Neighboring gene aldehyde dehydrogenase 1 family, member A3 Neighboring gene uncharacterized LOC141375297

Go to nucleotide: Graphics FASTA GenBank

  • 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

Related articles in PubMed

  1. Embryonic exposure to an aqueous coal dust extract results in gene expression alterations associated with the development and function of connective tissue and the hematological system, immunological and inflammatory disease, and cancer in zebrafish. Caballero-Gallardo K, et al. Metallomics, 2018 Mar 1. PMID 29485154
  2. Temtamy preaxial brachydactyly syndrome is caused by loss-of-function mutations in chondroitin synthase 1, a potential target of BMP signaling. Li Y, et al. Am J Hum Genet, 2010 Dec 10. PMID 21129728, Free PMC Article
  3. Chondroitin sulfate expression is required for cardiac atrioventricular canal formation. Peal DS, et al. Dev Dyn, 2009 Dec. PMID 19890913, Free PMC Article
  4. Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development. Habicher J, et al. PLoS Genet, 2022 Feb. PMID 35192612, Free PMC Article
  5. Expression of chondroitin/dermatan sulfate glycosyltransferases during early zebrafish development. Filipek-Górniok B, et al. Dev Dyn, 2013 Aug. PMID 23703795

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Chondroitin sulfate expression is required for cardiac atrioventricular canal formation.
    Title: Chondroitin sulfate expression is required for cardiac atrioventricular canal formation.
Submit: New GeneRIF Correction

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables acetylgalactosaminyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hexosyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cartilage morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in chondroitin sulfate proteoglycan biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within chondroitin sulfate proteoglycan biosynthetic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within heart morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within pectoral fin development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of Notch signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retina development in camera-type eye IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retina morphogenesis in camera-type eye IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within semicircular canal formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi cisterna membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
Preferred Names
chondroitin sulfate synthase 1
Names
carbohydrate (chondroitin) synthase 1
NP_997843.1
XP_073762294.1

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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_212678.1 → NP_997843.1  chondroitin sulfate synthase 1

    See identical proteins and their annotated locations for NP_997843.1

    Status: PROVISIONAL

    Source sequence(s)
    BC064670
    UniProtKB/TrEMBL
    A0A8M1PHH7, Q6P296
    Related
    ENSDARP00000095309.3, ENSDART00000104536.5
    Conserved Domains (2) summary
    pfam05679
    Location:236 → 775
    CHGN; Chondroitin N-acetylgalactosaminyltransferase
    cl21608
    Location:85 → 306
    Galactosyl_T; Galactosyltransferase

RefSeqs of Annotated Genomes: GCF_049306965.1-RS_2025_04

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

Reference GRCz12tu Primary Assembly

Genomic

  1. NC_133182.1 Reference GRCz12tu Primary Assembly

    Range
    9158889..9344258
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_073906193.1 → XP_073762294.1  chondroitin sulfate synthase 1 isoform X1

Nucleotide Protein Strain
Heading Accession and Version

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