U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Chsy1 chondroitin sulfate synthase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292999, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Chsy1provided by RGD
    Official Full Name
    chondroitin sulfate synthase 1provided by RGD
    Primary source
    RGD:1311904
    See related
    EnsemblRapid:ENSRNOG00000012698 AllianceGenome:RGD:1311904
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity and glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. Involved in response to nutrient levels. Predicted to be located in extracellular region. Predicted to be active in Golgi apparatus. 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, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 144.7), Heart (RPKM 113.6) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Chsy1 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (129100088..129161167)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (119689626..119750711)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (127010587..127071570)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene small nuclear ribonucleoprotein polypeptide A' Neighboring gene selenoprotein S Neighboring gene uncharacterized LOC102549532 Neighboring gene uncharacterized LOC134485128

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Glycosaminoglycan polymerization may enable osmotically inactive Na+ storage in the skin. Titze J, et al. Am J Physiol Heart Circ Physiol, 2004 Jul. PMID 14975935
    2. TGF-β Induces Up-Regulation of Chondroitin Sulfate Synthase 1 (CHSY1) in Nucleus Pulposus Cells Through MAPK Signaling. Hu B, et al. Cell Physiol Biochem, 2015. PMID 26356269
    3. Chondroitin sulfate synthase-2 is necessary for chain extension of chondroitin sulfate but not critical for skeletal development. Ogawa H, et al. PLoS One, 2012. PMID 22952769, Free PMC Article
    4. Molecular cloning and expression of a human chondroitin synthase. Kitagawa H, et al. J Biol Chem, 2001 Oct 19. PMID 11514575
    5. Loss of CHSY1, a secreted FRINGE enzyme, causes syndromic brachydactyly in humans via increased NOTCH signaling. Tian J, et al. Am J Hum Genet, 2010 Dec 10. PMID 21129727, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Results suggest that TGF-beta (specifically TGF-beta3) induced CHSY1 expression in the nucleus pulposus through the activation of MAPK signaling.
      Title: TGF-β Induces Up-Regulation of Chondroitin Sulfate Synthase 1 (CHSY1) in Nucleus Pulposus Cells Through MAPK Signaling.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables glycosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within bone morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cartilage development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within chondrocyte development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondroitin sulfate biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within chondroitin sulfate biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondroitin sulfate biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of ossification ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within proximal/distal pattern formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to nutrient levels IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within sulfation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi cisterna membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    chondroitin sulfate synthase 1
    Names
    carbohydrate (chondroitin) synthase 1
    NP_001099738.1
    XP_038961302.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001106268.1 → NP_001099738.1  chondroitin sulfate synthase 1 precursor

      See identical proteins and their annotated locations for NP_001099738.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473980
      UniProtKB/TrEMBL
      A6JBQ0, D3ZRM3
      Related
      ENSRNOP00000016939.6, ENSRNOT00000016939.8
      Conserved Domains (2) summary
      pfam05679
      Location:226 → 765
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
      cl21608
      Location:75 → 296
      Galactosyl_T; Galactosyltransferase

    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
      129100088..129161167
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105374.2 → XP_038961302.1  chondroitin sulfate synthase 1 isoform X1

      Conserved Domains (1) summary
      pfam05679
      Location:1 → 505
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools