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CHSY3 Gene(Protein Coding)

Chondroitin Sulfate Synthase 3

GCID:
GC05P129904
GIFtS:
49
Genes Participants
UDN Logo

Aliases for CHSY3 Gene

Aliases for CHSY3 Gene

  • Chondroitin Sulfate Synthase 3 2 3 5
  • Glucuronosyl-N-Acetylgalactosaminyl-Proteoglycan 4-Beta-N-Acetylgalactosaminyltransferase II 3 4
  • N-Acetylgalactosaminyl-Proteoglycan 3-Beta-Glucuronosyltransferase 3 3 4
  • Chondroitin Glucuronyltransferase 3 3 4
  • N-Acetylgalactosaminyltransferase 3 3 4
  • Carbohydrate Synthase 2 3 4
  • ChSy-2 3 4
  • CHSY2 3 4
  • CSS3 3 4
  • Chondroitin Synthase-2 3
  • Chondroitin Synthase 2 4
  • EC 2.4.1.175 4
  • EC 2.4.1.226 4

External Ids for CHSY3 Gene

Previous GeneCards Identifiers for CHSY3 Gene

  • GC05P129273
  • GC05P124432

Summaries for CHSY3 Gene

Entrez Gene Summary for CHSY3 Gene

  • CSS3 is a glycosyltransferase that has both glucuronyltransferase and N-acetylgalactosaminyltransferase activities (Yada et al., 2003 [PubMed 12907687]).[supplied by OMIM, Mar 2008]

GeneCards Summary for CHSY3 Gene

CHSY3 (Chondroitin Sulfate Synthase 3) is a Protein Coding gene. Among its related pathways are Chondroitin sulfate/dermatan sulfate metabolism and Glycosaminoglycan metabolism. GO annotations related to this gene include transferase activity, transferring glycosyl groups and glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. An important paralog of this gene is CHSY1.

UniProtKB/Swiss-Prot for CHSY3 Gene

  • Has both beta-1,3-glucuronic acid and beta-1,4-N-acetylgalactosamine transferase activity. Transfers glucuronic acid (GlcUA) from UDP-GlcUA and N-acetylgalactosamine (GalNAc) from UDP-GalNAc to the non-reducing end of the elongating chondroitin polymer. Specific activity is much reduced compared to CHSY1.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHSY3 Gene

Genomics for CHSY3 Gene

Products:

  1. Regulatory Element

Regulatory Elements for CHSY3 Gene

Enhancers for CHSY3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05G129903 0.9 ENCODE 15.3 +1.0 1010 2.1 SIN3A ZNF76 KLF17 FEZF1 ZNF2 ETS1 ZNF121 GLIS2 ZNF366 SCRT2 CHSY3 ENSG00000251680
GH05G129716 0.5 ENCODE 13.1 -185.1 -185141 3.5 CTCF CEBPB RAD21 CHSY3 ENSG00000251680 KIAA1024L PIR62990
GH05G129723 0.5 ENCODE 10.3 -178.8 -178835 3.0 FOXA2 TEAD4 CHD7 ATF2 CHSY3 HSPA8P4 ENSG00000251680 KIAA1024L PIR62990
GH05G129944 0.4 ENCODE 12.5 +41.9 41926 0.7 FOXA1 CHSY3 GC05P129975 ENSG00000251680
GH05G129962 0.4 ENCODE 12.4 +60.1 60141 1.3 FOS CHSY3 GC05P129975 ENSG00000251680
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CHSY3 on UCSC Golden Path with GeneCards custom track

Promoters for CHSY3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000186621 1193 2000 ZNF76 KLF17 FEZF1 ZNF2 ETS1 ZNF121 GLIS2 ZNF366 SCRT2 KLF7

Transcription factor binding sites by QIAGEN in the CHSY3 gene promoter:

Genomic Location for CHSY3 Gene

Chromosome:
5
Start:
129,903,408 bp from pter
End:
130,186,678 bp from pter
Size:
283,271 bases
Orientation:
Plus strand

Genomic View for CHSY3 Gene

Genes around CHSY3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHSY3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHSY3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CHSY3 Gene

Proteins for CHSY3 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for CHSY3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q70JA7-CHSS3_HUMAN
    Recommended name:
    Chondroitin sulfate synthase 3
    Protein Accession:
    Q70JA7
    Secondary Accessions:
    • B2RP97
    • Q76L22
    • Q86Y52

    Protein attributes for CHSY3 Gene

    Size:
    882 amino acids
    Molecular mass:
    100284 Da
    Cofactor:
    Name=Co(2+); Xref=ChEBI:CHEBI:48828; Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Name=Cd(2+); Xref=ChEBI:CHEBI:48775;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=CAD43233.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for CHSY3 Gene

Protein Expression for CHSY3 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for CHSY3 Gene

  • Glycosylation at posLast=100100, Asn155, posLast=279279, posLast=710710, and posLast=878878
  • Modification sites at PhosphoSitePlus

Other Protein References for CHSY3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CHSY3 Gene

Domains & Families for CHSY3 Gene

Gene Families for CHSY3 Gene

HGNC:

Protein Domains for CHSY3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CHSY3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q70JA7

UniProtKB/Swiss-Prot:

CHSS3_HUMAN :
  • Belongs to the chondroitin N-acetylgalactosaminyltransferase family.
Family:
  • Belongs to the chondroitin N-acetylgalactosaminyltransferase family.
genes like me logo Genes that share domains with CHSY3: view

Function for CHSY3 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for CHSY3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
UDP-N-acetyl-alpha-D-galactosamine + beta-D-glucuronosyl-(1->3)-N-acetyl-beta-D-galactosaminyl-proteoglycan = UDP + N-acetyl-beta-D-galactosaminyl-(1->4)-beta-D-glucuronosyl-(1->3)-N-acetyl-beta-D-galactosaminyl-proteoglycan.
UniProtKB/Swiss-Prot CatalyticActivity:
UDP-alpha-D-glucuronate + N-acetyl-beta-D-galactosaminyl-(1->4)-beta-D-glucuronosyl-proteoglycan = UDP + beta-D-glucuronosyl-(1->3)-N-acetyl-beta-D-galactosaminyl-(1->4)-beta-D-glucuronosyl-proteoglycan.
UniProtKB/Swiss-Prot Function:
Has both beta-1,3-glucuronic acid and beta-1,4-N-acetylgalactosamine transferase activity. Transfers glucuronic acid (GlcUA) from UDP-GlcUA and N-acetylgalactosamine (GalNAc) from UDP-GalNAc to the non-reducing end of the elongating chondroitin polymer. Specific activity is much reduced compared to CHSY1.

Enzyme Numbers (IUBMB) for CHSY3 Gene

Gene Ontology (GO) - Molecular Function for CHSY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008376 acetylgalactosaminyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0047238 glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity TAS --
GO:0050510 N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity TAS --
genes like me logo Genes that share ontologies with CHSY3: view
genes like me logo Genes that share phenotypes with CHSY3: view

Animal Model Products

CRISPR Products

miRNA for CHSY3 Gene

miRTarBase miRNAs that target CHSY3

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CHSY3

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CHSY3 Gene

Localization for CHSY3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHSY3 Gene

Golgi apparatus, Golgi stack membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CHSY3 gene
Compartment Confidence
golgi apparatus 5
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
lysosome 1

Gene Ontology (GO) - Cellular Components for CHSY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005794 Golgi apparatus IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0032580 Golgi cisterna membrane IEA --
genes like me logo Genes that share ontologies with CHSY3: view

Pathways & Interactions for CHSY3 Gene

genes like me logo Genes that share pathways with CHSY3: view

Gene Ontology (GO) - Biological Process for CHSY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030206 chondroitin sulfate biosynthetic process TAS --
genes like me logo Genes that share ontologies with CHSY3: view

No data available for SIGNOR curated interactions for CHSY3 Gene

Drugs & Compounds for CHSY3 Gene

Products:

  1. Drug

(4) Drugs for CHSY3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Manganese Approved Nutra 34
UDP-alpha-D-glucuronic acid Experimental Pharma 0
Uridine-5'-Diphosphate Experimental Pharma 0
Cobalt Pharma 167

(4) Additional Compounds for CHSY3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
cadmium
  • Cadmium atom
  • Cadmium elemental
  • Cadmium metallicum
  • Cd
  • Colloidal cadmium
 7440-43-9
Lactosamine
  • 2-Amino-2-deoxy-4-O-beta-D-galactopyranosyl-D-glucose
  • 2-Amino-2-deoxy-4-O-beta-delta-galactopyranosyl-delta-glucose
  • beta-D-Galactopyranosyl-(1->4)-2-amino-2-deoxy-D-glucose
  • beta-D-Galactopyranosyl-(1->4)-D-glucosamine
  • beta-delta-Galactopyranosyl-(1->4)-2-amino-2-deoxy-delta-glucose
 13000-25-4
UDP-N-acetyl-alpha-D-galactosamine
Uridine diphosphate-N-acetylgalactosamine
  • UDP-N-Acetyl-D-galactosamine
  • UDP-N-Acetyl-delta-galactosamine
  • UDP-N-Acetylgalactosamine
  • Uridine 5'-diphospho-N-acetylgalactosamine
  • Uridine diphosphate-N-acetyl-D-galactosamine
 7277-98-7
genes like me logo Genes that share compounds with CHSY3: view

Transcripts for CHSY3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for CHSY3 Gene

(8) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(9) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CHSY3 Gene

Chondroitin sulfate synthase 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CHSY3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHSY3 Gene

No ASD Table

Relevant External Links for CHSY3 Gene

GeneLoc Exon Structure for
CHSY3
ECgene alternative splicing isoforms for
CHSY3

Expression for CHSY3 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CHSY3 Gene

mRNA expression in normal human tissues for CHSY3 Gene
mRNA expression by BioGPS for CHSY3 GenemRNA expression by GTEx for CHSY3 Gene

mRNA differential expression in normal tissues according to GTEx for CHSY3 Gene

This gene is overexpressed in Artery - Tibial (x6.5) and Artery - Aorta (x6.1).

Protein differential expression in normal tissues from HIPED for CHSY3 Gene

This gene is overexpressed in Breast (24.1), Heart (21.9), Esophagus (12.2), and Peripheral blood mononuclear cells (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CHSY3 Gene



Protein tissue co-expression partners for CHSY3 Gene

NURSA nuclear receptor signaling pathways regulating expression of CHSY3 Gene:

CHSY3

SOURCE GeneReport for Unigene cluster for CHSY3 Gene:

Hs.213137

mRNA Expression by UniProt/SwissProt for CHSY3 Gene:

Q70JA7-CHSS3_HUMAN
Tissue specificity: Detected at low levels in brain, cerebral cortex, uterus and small intestine.

Evidence on tissue expression from TISSUES for CHSY3 Gene

  • Pancreas(4.1)
genes like me logo Genes that share expression patterns with CHSY3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for CHSY3 Gene

Orthologs for CHSY3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CHSY3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia CHSY3 34 35
  • 99.58 (n)
dog
(Canis familiaris)
 Mammalia CHSY3 34 35
  • 91.8 (n)
cow
(Bos Taurus)
 Mammalia CHSY3 34 35
  • 91.78 (n)
mouse
(Mus musculus)
 Mammalia Chsy3 34 16 35
  • 86.85 (n)
rat
(Rattus norvegicus)
 Mammalia Chsy3 34
  • 86.58 (n)
chicken
(Gallus gallus)
 Aves CHSY3 34 35
  • 76.99 (n)
lizard
(Anolis carolinensis)
 Reptilia CHSY3 35
  • 77 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia chsy3 34
  • 71.82 (n)
zebrafish
(Danio rerio)
 Actinopterygii chsy3 35
  • 70 (a)
 OneToOne
rainbow trout
(Oncorhynchus mykiss)
 Actinopterygii Omy.984 34
fruit fly
(Drosophila melanogaster)
 Insecta CG9220 35
  • 38 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea sqv-5 34 35
  • 49.28 (n)
sea squirt
(Ciona savignyi)
 Ascidiacea -- 35
  • 45 (a)
 OneToMany
Species where no ortholog for CHSY3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CHSY3 Gene

ENSEMBL:
Gene Tree for CHSY3 (if available)
TreeFam:
Gene Tree for CHSY3 (if available)

Paralogs for CHSY3 Gene

Paralogs for CHSY3 Gene

(3) SIMAP similar genes for CHSY3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CHSY3: view

Variants for CHSY3 Gene

Sequence variations from dbSNP and Humsavar for CHSY3 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1000000041 -- 130,132,535(+) AGCCA(C/T)AGTGA intron-variant
rs1000017732 -- 130,096,326(+) GCTAC(C/G)ATACC intron-variant
rs1000029362 -- 129,923,938(+) ATGTA(C/T)TTGTT intron-variant
rs1000030013 -- 129,952,595(+) CCATT(C/T)GATTC intron-variant
rs1000036900 -- 130,174,826(+) AAAGG(A/T)TTTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHSY3 Gene

Variant ID Type Subtype PubMed ID
dgv1136e214 CNV loss 21293372
esv2663844 CNV deletion 23128226
esv2668447 CNV deletion 23128226
esv2671963 CNV deletion 23128226
esv2730772 CNV deletion 23290073
esv2763498 CNV gain 21179565
esv3606767 CNV loss 21293372
esv3606768 CNV loss 21293372
esv3606769 CNV loss 21293372
esv3606771 CNV gain 21293372
esv3606773 CNV loss 21293372
esv3890736 CNV gain 25118596
nsv1028296 CNV gain 25217958
nsv327235 CNV deletion 16902084
nsv462445 CNV loss 19166990
nsv471046 CNV loss 18288195
nsv472757 CNV novel sequence insertion 20440878
nsv477664 CNV novel sequence insertion 20440878
nsv599704 CNV gain 21841781
nsv599706 CNV loss 21841781
nsv830488 CNV gain 17160897
nsv950389 CNV deletion 24416366
nsv980724 CNV duplication 23825009

Variation tolerance for CHSY3 Gene

Residual Variation Intolerance Score: 13.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.19; 61.89% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CHSY3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CHSY3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHSY3 Gene

Disorders for CHSY3 Gene

Relevant External Links for CHSY3

Genetic Association Database (GAD)
CHSY3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CHSY3

No disorders were found for CHSY3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CHSY3 Gene

Publications for CHSY3 Gene

  1. Chondroitin sulfate synthase-3. Molecular cloning and characterization. (PMID: 12907687) Yada T. … Kimata K. (J. Biol. Chem. 2003) 2 3 4 22 64
  2. Involvement of chondroitin sulfate synthase-3 (chondroitin synthase- 2) in chondroitin polymerization through its interaction with chondroitin synthase-1 or chondroitin-polymerizing factor. (PMID: 17253960) Izumikawa T. … Kitagawa H. (Biochem. J. 2007) 3 22 64
  3. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. (PMID: 25609649) Li X. … Chen J. (Mol. Syst. Biol. 2015) 3 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Chondroitin synthases I, II, III and chondroitin sulfate glucuronyltransferase expression in colorectal cancer. (PMID: 21468578) Kalathas D. … Vynios D.H. (Mol Med Rep 2011) 3 64

Products for CHSY3 Gene

  • Addgene plasmids for CHSY3

Sources for CHSY3 Gene

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