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Aliases for GCNT1 Gene

Aliases for GCNT1 Gene

  • Glucosaminyl (N-Acetyl) Transferase 1, Core 2 2 3 5
  • Glucosaminyl (N-Acetyl) Transferase 1, Core 2 (Beta-1,6-N-Acetylglucosaminyltransferase) 2 3
  • Core 2 Beta1,6 N-Acetylglucosaminyltransferase-I 2 3
  • Core2-GlcNAc-Transferase 3 4
  • NACGT2 3 4
  • C2GNT 3 4
  • Beta-1,3-Galactosyl-O-Glycosyl-Glycoprotein Beta-1,6-N--Acetylglucosaminyltransferase 2
  • Beta-1,3-Galactosyl-O-Glycosyl-Glycoprotein Beta-1,6-N-Acetylglucosaminyltransferase 3
  • Core 2 Beta-1,6-N-Acetylglucosaminyltransferase I 3
  • Beta-1,6-N-Acetylglucosaminyltransferase 3
  • Core 2 Branching Enzyme 3
  • Core 2-Branching Enzyme 4
  • EC 2.4.1.102 4
  • Core 2 GnT 3
  • Core 2 GNT 4
  • C2GNT-L 3
  • C2GNT1 3
  • NAGCT2 3
  • G6NT 3

External Ids for GCNT1 Gene

Previous HGNC Symbols for GCNT1 Gene

  • NACGT2

Previous GeneCards Identifiers for GCNT1 Gene

  • GC09P070160
  • GC09P070930
  • GC09P072644
  • GC09P074531
  • GC09P076303
  • GC09P078263
  • GC09P079035
  • GC09P048885
  • GC09P079036

Summaries for GCNT1 Gene

Entrez Gene Summary for GCNT1 Gene

  • This gene is a member of the beta-1,6-N-acetylglucosaminyltransferase gene family. It is essential to the formation of Gal beta 1-3(GlcNAc beta 1-6)GalNAc structures and the core 2 O-glycan branch. The gene coding this enzyme was originally mapped to 9q21, but was later localized to 9q13. Multiple alternatively spliced variants, encoding the same protein, have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for GCNT1 Gene

GCNT1 (Glucosaminyl (N-Acetyl) Transferase 1, Core 2) is a Protein Coding gene. Among its related pathways are Immune response_IL-12 signaling pathway and Metabolism of proteins. GO annotations related to this gene include acetylglucosaminyltransferase activity and beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity. An important paralog of this gene is GCNT3.

UniProtKB/Swiss-Prot for GCNT1 Gene

  • Glycosyltransferase that catalyzes the transfer of an N-acetylglucosamine moiety onto mucin-type core 1 O-glycan to form the branched mucin-type core 2 O-glycan. Mucin-type core 2 O-glycans play an important role in leukocyte extravasation as they serve as scaffolds for the display of the selectin ligand sialyl Lewis X by leukocytes.

Gene Wiki entry for GCNT1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GCNT1 Gene

Genomics for GCNT1 Gene

Regulatory Elements for GCNT1 Gene

Enhancers for GCNT1 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
GH09F076607 1.3 Ensembl ENCODE 15.2 +195.0 194973 14.0 ZFP64 NFRKB RAD21 SCRT2 ZNF548 FOS CEBPB REST ZNF518A ZNF623 GCNT1 RPSAP9 PRUNE2 LOC105376095 GC09P076757
GH09F076489 1.3 Ensembl ENCODE 9.9 +70.9 70937 2.0 ZNF316 MAFK GCNT1 RFK LOC105376093 ENSG00000233814
GH09F076488 0.2 Ensembl 9.9 +68.8 68751 0.4 GCNT1 RFK LOC105376093 ENSG00000233814
GH09F076422 0.7 ENCODE 9.5 +3.8 3848 1.5 ELF3 ZSCAN9 RARA GATA4 CREM MIXL1 THAP11 HMG20B SP5 CEBPB GCNT1 ENSG00000233814 LOC105376093
GH09F076414 1.1 Ensembl ENCODE 9.3 -4.5 -4543 2.3 JUN MNT CREM GABPA YY1 TRIM28 GCNT1 PIR58613
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around GCNT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for GCNT1 Gene

Chromosome:
9
Start:
76,419,850 bp from pter
End:
76,507,416 bp from pter
Size:
87,567 bases
Orientation:
Plus strand

Genomic View for GCNT1 Gene

Genes around GCNT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GCNT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GCNT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GCNT1 Gene

Proteins for GCNT1 Gene

  • Protein details for GCNT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q02742-GCNT1_HUMAN
    Recommended name:
    Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase
    Protein Accession:
    Q02742
    Secondary Accessions:
    • Q6DJZ4

    Protein attributes for GCNT1 Gene

    Size:
    428 amino acids
    Molecular mass:
    49799 Da
    Quaternary structure:
    • Interacts with GOLPH3; may control GCNT1 retention in the Golgi.

neXtProt entry for GCNT1 Gene

Post-translational modifications for GCNT1 Gene

  • Glycosylation at Asn 58 and Asn 95
  • Modification sites at PhosphoSitePlus

Antibody Products

  • R&D Systems Antibodies for GCNT1 (Glucosaminyl (N-acetyl) Transferase 1/GCNT1)
  • Abcam antibodies for GCNT1

No data available for DME Specific Peptides for GCNT1 Gene

Domains & Families for GCNT1 Gene

Protein Domains for GCNT1 Gene

Suggested Antigen Peptide Sequences for GCNT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q02742

UniProtKB/Swiss-Prot:

GCNT1_HUMAN :
  • Belongs to the glycosyltransferase 14 family.
Family:
  • Belongs to the glycosyltransferase 14 family.
genes like me logo Genes that share domains with GCNT1: view

Function for GCNT1 Gene

Molecular function for GCNT1 Gene

GENATLAS Biochemistry:
beta-1,6-N-acetyl-glucosaminyl transferase 1,leukocyte type core 2 branching enzyme in O-glycans,widely expressed,including lymph node and bone marrow
UniProtKB/Swiss-Prot CatalyticActivity:
UDP-N-acetyl-D-glucosamine + beta-D-galactosyl-1,3-N-acetyl-D-galactosaminyl-R = UDP + beta-D-galactosyl-1,3-(N-acetyl-beta-D-glucosaminyl-1,6)-N-acetyl-D-galactosaminyl-R.
UniProtKB/Swiss-Prot Function:
Glycosyltransferase that catalyzes the transfer of an N-acetylglucosamine moiety onto mucin-type core 1 O-glycan to form the branched mucin-type core 2 O-glycan. Mucin-type core 2 O-glycans play an important role in leukocyte extravasation as they serve as scaffolds for the display of the selectin ligand sialyl Lewis X by leukocytes.

Enzyme Numbers (IUBMB) for GCNT1 Gene

Gene Ontology (GO) - Molecular Function for GCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003829 beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity TAS --
GO:0005515 protein binding IPI 23027862
GO:0008375 acetylglucosaminyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0016757 transferase activity, transferring glycosyl groups IEA --
genes like me logo Genes that share ontologies with GCNT1: view
genes like me logo Genes that share phenotypes with GCNT1: view

Animal Models for GCNT1 Gene

MGI Knock Outs for GCNT1:

Animal Model Products

  • Taconic Biosciences Mouse Models for GCNT1

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for GCNT1 Gene

Localization for GCNT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GCNT1 Gene

Golgi apparatus membrane; Single-pass type II membrane protein. Note=Also detected in the trans-Golgi network.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for GCNT1 Gene COMPARTMENTS Subcellular localization image for GCNT1 gene
Compartment Confidence
golgi apparatus 5
extracellular 3
endoplasmic reticulum 2
plasma membrane 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for GCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005615 extracellular space IEA --
GO:0005794 Golgi apparatus IEA --
GO:0005802 trans-Golgi network IDA 23027862
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with GCNT1: view

Pathways & Interactions for GCNT1 Gene

genes like me logo Genes that share pathways with GCNT1: view

Pathways by source for GCNT1 Gene

UniProtKB/Swiss-Prot Q02742-GCNT1_HUMAN

  • Pathway: Protein modification; protein glycosylation.

Gene Ontology (GO) - Biological Process for GCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006486 protein glycosylation IEA --
GO:0009101 glycoprotein biosynthetic process IMP 23027862
GO:0016266 O-glycan processing TAS --
GO:0032868 response to insulin IEA --
GO:0048729 tissue morphogenesis IEA --
genes like me logo Genes that share ontologies with GCNT1: view

No data available for SIGNOR curated interactions for GCNT1 Gene

Drugs & Compounds for GCNT1 Gene

(2) Drugs for GCNT1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Uridine-5'-Diphosphate Experimental Pharma 0

(5) Additional Compounds for GCNT1 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Uridine diphosphate-N-acetylglucosamine
  • N-[2-[[[5-[(2,4-Dioxo-1H-pyrimidin-1-yl)]-3,4-dihydroxy-tetrahydrofuran-2-yl]methoxy-hydroxy-phosphinoyl]oxy-hydroxy-phosphinoyl]oxy-4,5-dihydroxy-6-(hydroxymethyl)tetrahydropyran-3-yl]acetamide
  • UDP-a-D-N-Acetylglucosamine
  • UDP-Acetyl-D-glucosamine
  • UDP-Acetyl-delta-glucosamine
  • UDP-Acetylglucosamine
528-04-1
genes like me logo Genes that share compounds with GCNT1: view

Transcripts for GCNT1 Gene

Unigene Clusters for GCNT1 Gene

Glucosaminyl (N-acetyl) transferase 1, core 2:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for GCNT1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e
SP1: - - - -
SP2: - - - -
SP3: -
SP4: - - - - -
SP5:
SP6:

Relevant External Links for GCNT1 Gene

GeneLoc Exon Structure for
GCNT1
ECgene alternative splicing isoforms for
GCNT1

Expression for GCNT1 Gene

mRNA expression in normal human tissues for GCNT1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for GCNT1 Gene

This gene is overexpressed in Stomach (x4.3).

Protein differential expression in normal tissues from HIPED for GCNT1 Gene

This gene is overexpressed in Stomach (64.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for GCNT1 Gene



Protein tissue co-expression partners for GCNT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of GCNT1 Gene:

GCNT1

SOURCE GeneReport for Unigene cluster for GCNT1 Gene:

Hs.521568

mRNA Expression by UniProt/SwissProt for GCNT1 Gene:

Q02742-GCNT1_HUMAN
Tissue specificity: Highly expressed in activated T-lymphocytes and myeloid cells.
genes like me logo Genes that share expression patterns with GCNT1: view

Primer Products

Orthologs for GCNT1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for GCNT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GCNT1 34 35
  • 98.99 (n)
dog
(Canis familiaris)
Mammalia GCNT1 34 35
  • 85.57 (n)
cow
(Bos Taurus)
Mammalia GCNT1 34 35
  • 84.27 (n)
rat
(Rattus norvegicus)
Mammalia Gcnt1 34
  • 83.85 (n)
mouse
(Mus musculus)
Mammalia Gcnt1 34 16 35
  • 83.49 (n)
oppossum
(Monodelphis domestica)
Mammalia GCNT1 35
  • 72 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia GCNT1 35
  • 72 (a)
OneToOne
chicken
(Gallus gallus)
Aves GCNT1 34 35
  • 71.85 (n)
lizard
(Anolis carolinensis)
Reptilia GCNT1 35
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia gcnt1 34
  • 67.41 (n)
African clawed frog
(Xenopus laevis)
Amphibia gcnt1-prov 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 45 (a)
OneToMany
Species where no ortholog for GCNT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for GCNT1 Gene

ENSEMBL:
Gene Tree for GCNT1 (if available)
TreeFam:
Gene Tree for GCNT1 (if available)

Paralogs for GCNT1 Gene

Paralogs for GCNT1 Gene

(8) SIMAP similar genes for GCNT1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with GCNT1: view

Variants for GCNT1 Gene

Sequence variations from dbSNP and Humsavar for GCNT1 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs10114028 -- 76,501,358(+) CATTT(C/T)ATATA intron-variant
rs10114264 -- 76,453,711(+) TGCCT(A/G)AAACA intron-variant
rs10114810 -- 76,502,105(+) CTAAC(C/T)TCATA intron-variant
rs10116826 -- 76,499,443(+) ctgcg(C/T)gttga intron-variant, upstream-variant-2KB
rs10116860 -- 76,469,508(+) cccct(C/T)ccttt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for GCNT1 Gene

Variant ID Type Subtype PubMed ID
esv2304624 CNV deletion 18987734
esv2738598 CNV deletion 23290073
nsv1132207 CNV deletion 24896259
nsv437089 CNV loss 16327808
nsv515152 CNV loss 21397061
nsv520423 CNV loss 19592680

Variation tolerance for GCNT1 Gene

Residual Variation Intolerance Score: 22.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.10; 80.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for GCNT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GCNT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GCNT1 Gene

Disorders for GCNT1 Gene

Relevant External Links for GCNT1

Genetic Association Database (GAD)
GCNT1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
GCNT1

No disorders were found for GCNT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GCNT1 Gene

Publications for GCNT1 Gene

  1. Molecular cloning and expression of a novel beta-1, 6-N- acetylglucosaminyltransferase that forms core 2, core 4, and I branches. (PMID: 9915862) Yeh J.-C. … Fukuda M. (J. Biol. Chem. 1999) 2 3 22 64
  2. Genomic organization of core 2 and I branching beta-1,6-N- acetylglucosaminyltransferases. Implication for evolution of the beta- 1,6-N-acetylglucosaminyltransferase gene family. (PMID: 7579796) Bierhuizen M.F.A. … Fukuda M. (Glycobiology 1995) 3 4 22 64
  3. Golgi phosphoprotein 3 determines cell binding properties under dynamic flow by controlling Golgi localization of core 2 N-acetylglucosaminyltransferase 1. (PMID: 23027862) Ali M.F. … Cheng P.W. (J. Biol. Chem. 2012) 3 4 64
  4. Site directed processing: role of amino acid sequences and glycosylation of acceptor glycopeptides in the assembly of extended mucin type O-glycan core 2. (PMID: 19524017) Brockhausen I. … Paulsen H. (Biochim. Biophys. Acta 2009) 3 22 64
  5. The high affinity selectin glycan ligand C2-O-sLex and mRNA transcripts of the core 2 beta-1,6-N-acetylglucosaminyltransferase (C2GnT1) gene are highly expressed in human colorectal adenocarcinomas. (PMID: 19267921) St Hill C.A. … Walcheck B. (BMC Cancer 2009) 3 22 64

Products for GCNT1 Gene

Sources for GCNT1 Gene

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