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Gene

ST3GAL5

ST3 beta-galactoside alpha-2,3-sialyltransferase 5

Summary

Cytogenetic location
2p11.2
Coordinates
Chromosome 2: 85,837,120–85,888,990 (GRCh38)
Exons
7 exons across 51.9 kb
Protein
418 amino acids
Also known as
ST3GalV, SIATGM3S
Previous symbols
SIAT9
MANE Select transcript
ENST00000638572.2NM_003896.4
Locus type
gene with protein product
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated reports relevant to this gene

  • GPI Anchor Biosynthesis Defects

    • Disorders of GPI Anchor Biosynthesis

      A group of inherited conditions caused by variants in the PIG, PGAP and related genes needed to make and attach the GPI anchor, typically causing developmental delay, low muscle tone and epilepsy.

      • ClinGen rates the link definitive
      • 4 GenCC submitters rate it definitive or strong

Broader groupings

  • Congenital Disorders of Glycosylation

    • Congenital Disorders of Glycosylation (CDG)

      One of 98 genes linked to it

      A large group of inherited conditions in which sugar chains (glycans) are not correctly built or attached to proteins and lipids, often affecting the brain, liver, blood clotting, growth and many other body systems. Most are autosomal recessive, but some are X-linked or autosomal dominant.

      • ClinGen rates the link definitive
      • 4 GenCC submitters rate it definitive or strong

How ST3GAL5 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 2, with a bracket where ST3GAL5 sits. ST3GAL5 and 19 genes near it on chromosome 2, from 85,363,055 to 86,363,054.Chromosome 22p11.2p25.3p25.2p25.1p24.3p24.2p24.1p23.3p23.2p23.1p22.3p22.2p22.1p21p16.3p16.2p16.1p15p14p13.3p13.2p13.1p12p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13q14.1q14.2q14.3q21.1q21.2q21.3q22.1q22.2q22.3q23.1q23.2q23.3q24.1q24.2q24.3q31.1q31.2q31.3q32.1q32.2q32.3q33.1q33.2q33.3q34q35q36.1q36.2q36.3q37.1q37.2q37.385.4 Mb85.6 Mb85.8 Mb86 Mb86.2 MbELMOD3: 85,354,394–85,391,752, forward strandELMOD3CAPG: 85,388,144–85,422,017, reverse strandCAPGSH2D6: 85,418,714–85,437,029, forward strandSH2D6MAT2A: 85,539,163–85,545,281, forward strandMAT2AGGCX: 85,544,720–85,561,838, reverse strandVAMP8: 85,561,562–85,582,032, forward strandVAMP5: 85,584,397–85,593,421, forward strandRNF181: 85,595,620–85,598,589, forward strandRNF181TMEM150A: 85,598,547–85,603,201, reverse strandTMEM150AUSP39: 85,602,856–85,657,710, forward strandUSP39C2orf68: 85,605,254–85,612,066, reverse strandC2orf68SFTPB: 85,655,154–85,668,741, reverse strandSFTPBGNLY: 85,685,175–85,698,854, forward strandGNLYATOH8: 85,751,344–85,794,266, forward strandATOH8ST3GAL5: 85,837,120–85,888,990, reverse strandST3GAL5POLR1A: 86,020,216–86,106,155, reverse strandPOLR1APTCD3: 86,106,223–86,142,157, forward strandPTCD3IMMT: 86,142,798–86,195,631, reverse strandIMMTMRPL35: 86,199,355–86,222,540, forward strandMRPL35REEP1: 86,210,522–86,338,083, reverse strandREEP1Diagram of ST3GAL5: 7 exons on the reverse strand of chromosome 2Exon 7: 2 known disease-causing sitesExon 6: 6 known disease-causing sitesExon 5: 4 known disease-causing sitesExon 4: 12 known disease-causing sitesExon 3: 5 known disease-causing sitesExon 2: 3 known disease-causing sitesExon 1: 6 known disease-causing sitesExon 7: 85,837,120–85,840,392, 3,273 basesExon 6: 85,844,396–85,844,554, 159 basesExon 5: 85,846,377–85,846,563, 187 basesExon 4: 85,847,861–85,848,204, 344 basesExon 3: 85,861,181–85,861,292, 112 basesExon 2: 85,863,362–85,863,485, 124 basesExon 1: 85,888,824–85,888,990, 167 bases76543215′3′

Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.

Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).

Nearby genes from Ensembl release 116, on GRCh38.

Exons make up 4.4 kb of the gene's 51.9 kb; 1,257 of those bases code for the protein.

How a genome test reads ST3GAL5

48

positions in ST3GAL5 where ClinVar classes a change as pathogenic or likely pathogenic

None of them falls in a region short reads find hard.

A whole genome covers all 51.9 kb of ST3GAL5, introns included, not only the 4.4 kb of exons.

Where this comes from

  • HGNC: the gene's symbol, name, other symbols and location.
  • MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
  • GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
  • The ACMG secondary findings list, SF v3.2.
  • ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
  • The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). ST3GAL5 gene: ST3 beta-galactoside alpha-2,3-sialyltransferase 5. Retrieved 16 October 2026, from https://dantelabs.com/genes/st3gal5

Vancouver

Dante Labs. ST3GAL5 gene: ST3 beta-galactoside alpha-2,3-sialyltransferase 5 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/st3gal5

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