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Gene

GPC3

glypican 3

Summary

Cytogenetic location
Xq26.2
Coordinates
Chromosome X: 133,535,745–133,985,594 (GRCh38)
Exons
8 exons across 449.9 kb
Protein
580 amino acids
Also known as
OCI-5, SGBS, SGBS1, SGB, DGSX
Previous symbols
SDYS
MANE Select transcript
ENST00000370818.8NM_004484.4
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

No Genome Test report reads GPC3 yet. The test sequences your whole genome, so your data includes it all the same.

How GPC3 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome X, with a bracket where GPC3 sits. GPC3 and 5 genes near it on chromosome X, from 133,085,895 to 134,435,444.Chromosome XXq26.2p22.33p22.32p22.31p22.2p22.13p22.12p22.11p21.3p21.2p21.1p11.4p11.3p11.23p11.22p11.21p11.1q11.1q11.2q12q13.1q13.2q13.3q21.1q21.2q21.31q21.32q21.33q22.1q22.2q22.3q23q24q25q26.1q26.2q26.3q27.1q27.2q27.3q28133.2 Mb133.4 Mb133.6 Mb133.8 Mb134 Mb134.2 Mb134.4 MbUSP26: 133,023,168–133,097,109, reverse strandUSP26TFDP3: 133,216,662–133,218,354, reverse strandTFDP3GPC4: 133,298,158–133,416,214, reverse strandGPC4GPC3: 133,535,745–133,985,594, reverse strandGPC3CCDC160: 134,237,047–134,247,585, forward strandCCDC160PHF6: 134,373,284–134,428,792, forward strandPHF6Diagram of GPC3: 8 exons on the reverse strand of chromosome XExon 8: 2 known disease-causing sitesExon 7: 5 known disease-causing sitesExon 6: 5 known disease-causing sitesExon 5: 2 known disease-causing sitesExon 4: 2 known disease-causing sitesExon 3: 14 known disease-causing sitesExon 2: 6 known disease-causing sitesExon 1: 4 known disease-causing sitesExon 8: 133,535,745–133,536,293, 549 basesExon 7: 133,596,440–133,596,599, 160 basesExon 6: 133,661,730–133,661,850, 121 basesExon 5: 133,692,369–133,692,494, 126 basesExon 4: 133,699,895–133,700,028, 134 basesExon 3: 133,753,482–133,754,176, 695 basesExon 2: 133,953,050–133,953,211, 162 basesExon 1: 133,985,275–133,985,594, 320 bases876543215′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 2.3 kb of the gene's 449.9 kb; 1,743 of those bases code for the protein.

How a genome test reads GPC3

47

positions in GPC3 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 449.9 kb of GPC3, introns included, not only the 2.3 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.
  • 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.). GPC3 gene: glypican 3. Retrieved 16 October 2026, from https://dantelabs.com/genes/gpc3

Vancouver

Dante Labs. GPC3 gene: glypican 3 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/gpc3

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