The protein encoded by this gene belongs to the sulfotransferase 2 family. It is localized to the golgi membrane, and catalyzes the transfer of sulfate to the C4 hydroxyl of beta-1,4-linked N-acetylgalactosamine (GalNAc) flanked by glucuronic acid residue in chondroitin. Chondroitin sulfate constitutes the predominant proteoglycan present in cartilage and is distributed on the ... See more...

Aliases for CHST13 Gene

Aliases for CHST13 Gene

  • Carbohydrate Sulfotransferase 13 2 3 4 5
  • Chondroitin 4-Sulfotransferase 3 2 3 4
  • C4ST3 2 3 4
  • Carbohydrate (Chondroitin 4) Sulfotransferase 13 2 3
  • Chondroitin 4-O-Sulfotransferase 3 3 4
  • C4ST-3 3 4
  • EC 2.8.2.5 4
  • CHST13 5

External Ids for CHST13 Gene

Previous GeneCards Identifiers for CHST13 Gene

  • GC03P127525
  • GC03P127564
  • GC03P127725
  • GC03P126243
  • GC03P123622

Summaries for CHST13 Gene

Entrez Gene Summary for CHST13 Gene

  • The protein encoded by this gene belongs to the sulfotransferase 2 family. It is localized to the golgi membrane, and catalyzes the transfer of sulfate to the C4 hydroxyl of beta-1,4-linked N-acetylgalactosamine (GalNAc) flanked by glucuronic acid residue in chondroitin. Chondroitin sulfate constitutes the predominant proteoglycan present in cartilage and is distributed on the surfaces of many cells and extracellular matrices. [provided by RefSeq, Aug 2011]

GeneCards Summary for CHST13 Gene

CHST13 (Carbohydrate Sulfotransferase 13) is a Protein Coding gene. Diseases associated with CHST13 include Vitreoretinal Degeneration, Snowflake Type. Among its related pathways are Glycosaminoglycan metabolism and Chondroitin sulfate/dermatan sulfate metabolism. Gene Ontology (GO) annotations related to this gene include sulfotransferase activity and chondroitin 4-sulfotransferase activity. An important paralog of this gene is CHST11.

UniProtKB/Swiss-Prot Summary for CHST13 Gene

  • Catalyzes the transfer of sulfate to position 4 of the N-acetylgalactosamine (GalNAc) residue of chondroitin. Chondroitin sulfate constitutes the predominant proteoglycan present in cartilage and is distributed on the surfaces of many cells and extracellular matrices. Transfers sulfate to the C4 hydroxyl of beta1,4-linked GalNAc that is substituted with a beta-linked glucuronic acid at the C-3 hydroxyl. No activity toward dermatan.

Additional gene information for CHST13 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CHST13 Gene

Genomics for CHST13 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CHST13 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J126522 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 659.5 +3.0 2961 8.6 HNRNPL GATAD2A CTCF ATF7 TEAD4 PRDM10 TFE3 SOX13 NFKBIZ RCOR2 CHST13 TXNRD3 NUP210P1 OR7E29P C3orf22 ZXDC UROC1 lnc-CHST13-1
GH03J126524 Promoter/Enhancer 1 Ensembl dbSUPER 600.7 -1.5 -1454 0.2 GATAD2A CTCF TEAD4 IKZF1 ZNF143 RXRB SOX13 RAD21 YY1 TEAD1 CHST13 UROC1
GH03J126523 Enhancer 0.8 ENCODE dbSUPER 600.7 -1.6 -1644 0.1 GATAD2A CTCF TEAD4 IKZF1 ZNF143 RXRB REST RAD21 SOX13 YY1 CHST13 UROC1
GH03J126547 Enhancer 0.8 FANTOM5 Ensembl dbSUPER 62.8 +24.6 24645 3.6 ZIC2 CTCF RAD21 NANOG HLF CHST13 UROC1 TXNRD3 NUP210P1 ZXDC lnc-CHST13-1 C3orf22
GH03J126539 Enhancer 1.1 FANTOM5 ENCODE dbSUPER 32.4 +16.4 16410 2.2 HNRNPL LEF1 RBFOX2 EP300 MGA CBX3 ZNF184 JUND CEBPB NFE2 CHST13 ZXDC lnc-CHST13-1 C3orf22
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CHST13 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CHST13

Top Transcription factor binding sites by QIAGEN in the CHST13 gene promoter:
  • AML1a
  • ATF6
  • E47
  • MIF-1
  • Pax-4a
  • Pax-5
  • RP58
  • USF-1
  • USF1
  • Zic3

Genomic Locations for CHST13 Gene

Genomic Locations for CHST13 Gene
chr3:126,524,155-126,543,291
(GRCh38/hg38)
Size:
19,137 bases
Orientation:
Plus strand
chr3:126,243,126-126,262,134
(GRCh37/hg19)
Size:
19,009 bases
Orientation:
Plus strand

Genomic View for CHST13 Gene

Genes around CHST13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHST13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHST13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHST13 Gene

Proteins for CHST13 Gene

  • Protein details for CHST13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NET6-CHSTD_HUMAN
    Recommended name:
    Carbohydrate sulfotransferase 13
    Protein Accession:
    Q8NET6
    Secondary Accessions:
    • Q3SYA3
    • Q3SYA5

    Protein attributes for CHST13 Gene

    Size:
    341 amino acids
    Molecular mass:
    38920 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for CHST13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHST13 Gene

Post-translational modifications for CHST13 Gene

  • Glycosylation at Asn331
  • Modification sites at PhosphoSitePlus

Other Protein References for CHST13 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CHST13 Gene

Domains & Families for CHST13 Gene

Gene Families for CHST13 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for CHST13 Gene

Suggested Antigen Peptide Sequences for CHST13 Gene

GenScript: Design optimal peptide antigens:
  • Chondroitin 4-sulfotransferase 3 (CHSTD_HUMAN)
  • Carbohydrate (Chondroitin 4) sulfotransferase 13 (Q3SYA5_HUMAN)
  • CHST13 protein (Q3ZCR4_HUMAN)
  • CHST13 protein (Q3ZCU8_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NET6

UniProtKB/Swiss-Prot:

CHSTD_HUMAN :
  • Belongs to the sulfotransferase 2 family.
Family:
  • Belongs to the sulfotransferase 2 family.
genes like me logo Genes that share domains with CHST13: view

Function for CHST13 Gene

Molecular function for CHST13 Gene

UniProtKB/Swiss-Prot Function:
Catalyzes the transfer of sulfate to position 4 of the N-acetylgalactosamine (GalNAc) residue of chondroitin. Chondroitin sulfate constitutes the predominant proteoglycan present in cartilage and is distributed on the surfaces of many cells and extracellular matrices. Transfers sulfate to the C4 hydroxyl of beta1,4-linked GalNAc that is substituted with a beta-linked glucuronic acid at the C-3 hydroxyl. No activity toward dermatan.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=n 3'-phosphoadenylyl sulfate + chondroitin beta-D-glucuronate = n adenosine 3',5'-bisphosphate + chondroitin 4'-sulfate + n H(+); Xref=Rhea:RHEA:16101, Rhea:RHEA-COMP:9827, Rhea:RHEA-COMP:9829, ChEBI:CHEBI:15378, ChEBI:CHEBI:57652, ChEBI:CHEBI:58339, ChEBI:CHEBI:58343, ChEBI:CHEBI:58422; EC=2.8.2.5; Evidence={ECO:0000269|PubMed:12080076};.

Enzyme Numbers (IUBMB) for CHST13 Gene

Phenotypes From GWAS Catalog for CHST13 Gene

Gene Ontology (GO) - Molecular Function for CHST13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001537 N-acetylgalactosamine 4-O-sulfotransferase activity IDA 12080076
GO:0008146 sulfotransferase activity IEA,IBA 21873635
GO:0016740 transferase activity IEA --
GO:0047756 chondroitin 4-sulfotransferase activity IEA,IDA 12080076
genes like me logo Genes that share ontologies with CHST13: view
genes like me logo Genes that share phenotypes with CHST13: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CHST13

No data available for Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CHST13 Gene

Localization for CHST13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHST13 Gene

Golgi apparatus 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 CHST13 gene
Compartment Confidence
golgi apparatus 4
extracellular 2
mitochondrion 2
endoplasmic reticulum 1
lysosome 0

Gene Ontology (GO) - Cellular Components for CHST13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA,TAS --
GO:0005794 Golgi apparatus IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA,NAS 12080076
genes like me logo Genes that share ontologies with CHST13: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CHST13 Gene

Pathways & Interactions for CHST13 Gene

genes like me logo Genes that share pathways with CHST13: view

Gene Ontology (GO) - Biological Process for CHST13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005975 carbohydrate metabolic process IEA --
GO:0016051 carbohydrate biosynthetic process IEA --
GO:0030166 proteoglycan biosynthetic process IBA 21873635
GO:0030206 chondroitin sulfate biosynthetic process IDA,TAS --
genes like me logo Genes that share ontologies with CHST13: view

No data available for SIGNOR curated interactions for CHST13 Gene

Drugs & Compounds for CHST13 Gene

(3) Drugs for CHST13 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
3'-phospho-5'-adenylyl sulfate Experimental Pharma 0
Adenosine 3',5'-diphosphate Experimental Pharma 0
Chondroitin Pharma 74

(1) Additional Compounds for CHST13 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Chondroitin 4-sulfate
  • Chondroitin 4-sulfuric acid
  • Chondroitin 4-sulphate
  • Chondroitin 4-sulphuric acid
  • Chondroitin 4'-sulfate
  • Chondroitin 4'-sulphate
genes like me logo Genes that share compounds with CHST13: view

Transcripts for CHST13 Gene

mRNA/cDNA for CHST13 Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CHST13

Alternative Splicing Database (ASD) splice patterns (SP) for CHST13 Gene

No ASD Table

Relevant External Links for CHST13 Gene

GeneLoc Exon Structure for
CHST13

Expression for CHST13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CHST13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CHST13 Gene

This gene is overexpressed in Liver (x24.4), Testis (x10.2), and Whole Blood (x8.7).

Protein differential expression in normal tissues from HIPED for CHST13 Gene

This gene is overexpressed in Platelet (46.8), Fetal Liver (12.4), and Testis (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CHST13 Gene



Protein tissue co-expression partners for CHST13 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CHST13

SOURCE GeneReport for Unigene cluster for CHST13 Gene:

Hs.292375

mRNA Expression by UniProt/SwissProt for CHST13 Gene:

Q8NET6-CHSTD_HUMAN
Tissue specificity: Highly expressed in adult liver. Expressed at lower level in kidney, lymph nodes and fetal kidney.

Evidence on tissue expression from TISSUES for CHST13 Gene

  • Liver(4.3)
genes like me logo Genes that share expression patterns with CHST13: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CHST13 Gene

Orthologs for CHST13 Gene

This gene was present in the common ancestor of animals.

Orthologs for CHST13 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CHST13 30 31
  • 96.96 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CHST13 30
  • 87.77 (n)
Cow
(Bos Taurus)
Mammalia CHST13 30 31
  • 86.92 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Chst13 30
  • 80.37 (n)
Mouse
(Mus musculus)
Mammalia Chst13 30 17 31
  • 80.34 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CHST13 31
  • 66 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia CHST13 31
  • 60 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CHST13 31
  • 58 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CHST13 31
  • 56 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii CHST13 31
  • 51 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta CG31743 31
  • 36 (a)
OneToMany
Species where no ortholog for CHST13 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for CHST13 Gene

ENSEMBL:
Gene Tree for CHST13 (if available)
TreeFam:
Gene Tree for CHST13 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CHST13: view image

Paralogs for CHST13 Gene

Paralogs for CHST13 Gene

(6) SIMAP similar genes for CHST13 Gene using alignment to 5 proteins:

  • CHSTD_HUMAN
  • Q3SYA3_HUMAN
  • Q3SYA5_HUMAN
  • Q3ZCR4_HUMAN
  • Q3ZCU8_HUMAN
genes like me logo Genes that share paralogs with CHST13: view

Variants for CHST13 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CHST13 Gene

SNP ID Clinical significance and condition Chr 03 pos Variation AA Info Type
rs1056522 - p.Arg317Gln
rs1056523 - p.Ala271Val
rs34311016 - p.Pro146Ser

Additional dbSNP identifiers (rs#s) for CHST13 Gene

Structural Variations from Database of Genomic Variants (DGV) for CHST13 Gene

Variant ID Type Subtype PubMed ID
dgv2591n106 CNV tandem duplication 24896259
esv2435482 CNV insertion 19546169
esv2667811 CNV deletion 23128226
esv2725870 CNV deletion 23290073
esv2725871 CNV deletion 23290073
esv3426789 CNV duplication 20981092
nsv1137754 CNV deletion 24896259
nsv1145446 CNV deletion 24896259
nsv1149564 CNV deletion 26484159
nsv1151449 CNV insertion 26484159
nsv1153775 CNV deletion 26484159
nsv822240 CNV gain 20364138
nsv822241 CNV gain 20364138
nsv829717 CNV loss 17160897
nsv955338 CNV deletion 24416366

Variation tolerance for CHST13 Gene

Gene Damage Index Score: 10.89; 91.84% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CHST13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CHST13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHST13 Gene

Disorders for CHST13 Gene

MalaCards: The human disease database

(1) MalaCards diseases for CHST13 Gene - From: DISEASES

Disorder Aliases PubMed IDs
vitreoretinal degeneration, snowflake type
  • svd
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for CHST13

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with CHST13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CHST13 Gene

Publications for CHST13 Gene

  1. Molecular cloning and characterization of chondroitin-4-O-sulfotransferase-3. A novel member of the HNK-1 family of sulfotransferases. (PMID: 12080076) Kang HG … Schachner M (The Journal of biological chemistry 2002) 2 3 4 23
  2. Natural frequency of polymorphisms linked to the chondroitin 4-sulfotransferase genes and its association with placental malaria. (PMID: 20580388) Valente B … Silveira H (Transactions of the Royal Society of Tropical Medicine and Hygiene 2010) 3 41
  3. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  4. Gain of Additional BIRC3 Protein Functions through 3'-UTR-Mediated Protein Complex Formation. (PMID: 30948266) Lee SH … Mayr C (Molecular cell 2019) 3
  5. CHST3 and CHST13 polymorphisms as predictors of bosentan-induced liver toxicity in Japanese patients with pulmonary arterial hypertension. (PMID: 30118797) Yorifuji K … Emoto N (Pharmacological research 2018) 3

Products for CHST13 Gene

Sources for CHST13 Gene