Skip to content
Use your HSA or FSA funds

Gene

PPP3CA

protein phosphatase 3 catalytic subunit alpha

Summary

Cytogenetic location
4q24
Coordinates
Chromosome 4: 101,023,418–101,347,526 (GRCh38)
Exons
14 exons across 324.1 kb
Protein
521 amino acids
Also known as
CNA1, PPP2B
Previous symbols
CALN, CALNA
MANE Select transcript
ENST00000394854.8NM_000944.5
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 report relevant to this gene

    • Epilepsy (Full Panel)

      • Epilepsy

        One of 171 genes linked to it

        A brain disorder characterized by episodes of abnormally increased neuronal discharge resulting in transient episodes of sensory or motor neurological dysfunction, or psychic dysfunction. These episodes may or may not be associated with loss of consciousness or convulsions.

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

    How PPP3CA is laid out

    • Coding sequence
    • Untranslated region
    • Intron
    • Direction of transcription
    • Known disease-causing sites
    • Stretches short reads find hard
    Chromosome 4, with a bracket where PPP3CA sits. PPP3CA and 2 genes near it on chromosome 4, from 100,685,472 to 101,685,471.Chromosome 44q24p16.3p16.2p16.1p15.33p15.32p15.31p15.2p15.1p14p13p12p11q11q12q13.1q13.2q13.3q21.1q21.21q21.22q21.23q21.3q22.1q22.2q22.3q23q24q25q26q27q28.1q28.2q28.3q31.1q31.21q31.22q31.23q31.3q32.1q32.2q32.3q33q34.1q34.2q34.3q35.1q35.2100.8 Mb101 Mb101.2 Mb101.4 Mb101.6 MbEMCN: 100,364,873–100,880,126, reverse strandEMCNPPP3CA: 101,023,418–101,347,526, reverse strandPPP3CABANK1: 101,411,286–102,074,904, forward strandBANK1Diagram of PPP3CA: 14 exons on the reverse strand of chromosome 4Exon 14: 4 known disease-causing sitesExon 13: 1 known disease-causing siteExon 12: 11 known disease-causing sitesExon 7: 2 known disease-causing sitesExon 6: 2 known disease-causing sitesExon 5: 1 known disease-causing siteExon 3: 2 known disease-causing sitesExon 1: 1 known disease-causing siteExon 14: 101,023,418–101,026,061, 2,644 basesExon 13: 101,029,166–101,029,195, 30 basesExon 12: 101,032,267–101,032,364, 98 basesExon 11: 101,040,482–101,040,566, 85 basesExon 10: 101,061,087–101,061,161, 75 basesExon 9: 101,063,232–101,063,357, 126 basesExon 8: 101,080,532–101,080,626, 95 basesExon 7: 101,083,186–101,083,263, 78 basesExon 6: 101,093,776–101,093,915, 140 basesExon 5: 101,098,367–101,098,512, 146 basesExon 4: 101,099,611–101,099,722, 112 basesExon 3: 101,108,954–101,109,078, 125 basesExon 2: 101,195,916–101,196,116, 201 basesExon 1: 101,346,739–101,347,526, 788 bases141210864215′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 4.7 kb of the gene's 324.1 kb; 1,566 of those bases code for the protein.

    How a genome test reads PPP3CA

    25

    positions in PPP3CA 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 324.1 kb of PPP3CA, introns included, not only the 4.7 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.). PPP3CA gene: protein phosphatase 3 catalytic subunit alpha. Retrieved 16 October 2026, from https://dantelabs.com/genes/ppp3ca

    Vancouver

    Dante Labs. PPP3CA gene: protein phosphatase 3 catalytic subunit alpha [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/ppp3ca

    One test. A lifetime of answers.

    From $449Free shipping · Results in 6–8 weeks

    Get my Genome Test