Seroatlas · Human Serome Atlas

GCNT1

Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase

Also known as: C2GNT, GCNT1_HUMAN, NACGT2, NAGCT2

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q02742
Gene
GCNT1
Ensembl
ENSG00000187210
Chromosome
9
Canonical length
428 aa
Protein class
Enzymes, Metabolic proteins, Predicted intracellular proteins
Subcellular location
Nuclear speckles

OverviewNCBI 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]

Canonical amino-acid sequenceUniProt

428 residues, UniProt reviewed canonical sequence.

>Q02742|GCNT1
     1  MLRTLLRRRL FSYPTKYYFM VLVLSLITFS VLRIHQKPEF VSVRHLELAG ENPSSDINCT
    61  KVLQGDVNEI QKVKLEILTV KFKKRPRWTP DDYINMTSDC SSFIKRRKYI VEPLSKEEAE
   121  FPIAYSIVVH HKIEMLDRLL RAIYMPQNFY CIHVDTKSED SYLAAVMGIA SCFSNVFVAS
   181  RLESVVYASW SRVQADLNCM KDLYAMSANW KYLINLCGMD FPIKTNLEIV RKLKLLMGEN
   241  NLETERMPSH KEERWKKRYE VVNGKLTNTG TVKMLPPLET PLFSGSAYFV VSREYVGYVL
   301  QNEKIQKLME WAQDTYSPDE YLWATIQRIP EVPGSLPASH KYDLSDMQAV ARFVKWQYFE
   361  GDVSKGAPYP PCDGVHVRSV CIFGAGDLNW MLRKHHLFAN KFDVDVDLFA IQCLDEHLRH
   421  KALETLKH

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against GCNT1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Other membrane
Secreted
No
Transmembrane segments
1
Mean surface accessibility (rSASA)
0.26
Highest tissue expression
79 nTPM

Expression across tissuesHPA

Tissue

  • parathyroid gland: 79 nTPM
  • duodenum: 47 nTPM
  • stomach: 37 nTPM
  • small intestine: 30 nTPM
  • thyroid gland: 20 nTPM
  • cervix: 10 nTPM

Single-cell type

  • foveolar cells: 478 nCPM
  • neutrophil progenitors: 303 nCPM
  • colonocytes: 283 nCPM
  • tuft cells: 254 nCPM
  • corticotrophs: 235 nCPM
  • mucous neck cells: 226 nCPM

Immune cell

  • eosinophil: 22 nTPM
  • naive B-cell: 10 nTPM
  • intermediate monocyte: 7.8 nTPM
  • non-classical monocyte: 7.3 nTPM
  • basophil: 6.2 nTPM
  • myeloid DC: 5.8 nTPM

Brain region

  • cerebellum: 9.8 nTPM
  • basal ganglia: 4.5 nTPM
  • cerebral cortex: 3.9 nTPM
  • hippocampal formation: 3.4 nTPM
  • thalamus: 3.1 nTPM
  • white matter: 2.7 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.92
gnomAD pLI
0
gnomAD missense Z
0.79
DepMap mean gene effect
0.14
DepMap dependency class
none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of GCNT1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads GCNT1 as an antibody target. Whether an autoantibody or antibody against GCNT1 could matter depends on whether native GCNT1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

GCNT1 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label GCNT1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/GCNT1. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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