Skip to content
Use your HSA or FSA funds

Gene

PTPN23

protein tyrosine phosphatase non-receptor type 23

Summary

Cytogenetic location
3p21.31
Coordinates
Chromosome 3: 47,381,021–47,413,435 (GRCh38)
Exons
25 exons across 32.4 kb
Protein
1,636 amino acids
Also known as
DKFZP564F0923, KIAA1471, HD-PTP
MANE Select transcript
ENST00000265562.5NM_015466.4
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 PTPN23 yet. The test sequences your whole genome, so your data includes it all the same.

How PTPN23 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 3, with a bracket where PTPN23 sits. PTPN23 and 12 genes near it on chromosome 3, from 46,897,228 to 47,897,227.Chromosome 33p21.31p26.3p26.2p26.1p25.3p25.2p25.1p24.3p24.2p24.1p23p22.3p22.2p22.1p21.33p21.32p21.31p21.2p21.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13.11q13.12q13.13q13.2q13.31q13.32q13.33q21.1q21.2q21.3q22.1q22.2q22.3q23q24q25.1q25.2q25.31q25.32q25.33q26.1q26.2q26.31q26.32q26.33q27.1q27.2q27.3q28q2947 Mb47.2 Mb47.4 Mb47.6 Mb47.8 MbPTH1R: 46,877,706–46,903,799, forward strandPTH1RCCDC12: 46,916,634–46,982,010, reverse strandCCDC12NBEAL2: 46,979,660–47,009,707, forward strandNBEAL2SETD2: 47,016,428–47,164,148, reverse strandSETD2KIF9: 47,227,426–47,283,451, reverse strandKIF9KLHL18: 47,282,628–47,346,819, forward strandKLHL18PTPN23: 47,381,021–47,413,435, forward strandPTPN23SCAP: 47,413,681–47,477,126, reverse strandSCAPELP6: 47,490,710–47,513,738, reverse strandELP6CSPG5: 47,562,238–47,580,792, reverse strandCSPG5SMARCC1: 47,585,269–47,782,106, reverse strandSMARCC1DHX30: 47,802,641–47,851,617, forward strandDHX30MAP4: 47,850,678–48,089,299, reverse strandMAP4Diagram of PTPN23: 25 exons on the forward strand of chromosome 3Exon 4: 1 known disease-causing siteExon 17: 2 known disease-causing sitesExon 20: 6 known disease-causing sitesExon 1: 47,381,021–47,381,180, 160 basesExon 2: 47,396,143–47,396,217, 75 basesExon 3: 47,404,652–47,404,779, 128 basesExon 4: 47,405,005–47,405,081, 77 basesExon 5: 47,405,749–47,405,798, 50 basesExon 6: 47,405,915–47,406,046, 132 basesExon 7: 47,406,325–47,406,405, 81 basesExon 8: 47,406,481–47,406,612, 132 basesExon 9: 47,406,703–47,406,750, 48 basesExon 10: 47,407,130–47,407,186, 57 basesExon 11: 47,407,309–47,407,367, 59 basesExon 12: 47,407,505–47,407,584, 80 basesExon 13: 47,407,697–47,407,811, 115 basesExon 14: 47,407,890–47,407,955, 66 basesExon 15: 47,408,345–47,408,490, 146 basesExon 16: 47,408,776–47,409,087, 312 basesExon 17: 47,409,163–47,409,317, 155 basesExon 18: 47,409,417–47,409,568, 152 basesExon 19: 47,409,655–47,409,834, 180 basesExon 20: 47,409,928–47,411,686, 1,759 basesExon 21: 47,411,783–47,411,967, 185 basesExon 22: 47,412,094–47,412,198, 105 basesExon 23: 47,412,283–47,412,421, 139 basesExon 24: 47,412,514–47,412,627, 114 basesExon 25: 47,412,706–47,413,435, 730 bases15101520255′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 5.2 kb of the gene's 32.4 kb; 4,911 of those bases code for the protein.

How a genome test reads PTPN23

9

positions in PTPN23 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 32.4 kb of PTPN23, introns included, not only the 5.2 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.). PTPN23 gene: protein tyrosine phosphatase non-receptor type 23. Retrieved 17 October 2026, from https://dantelabs.com/genes/ptpn23

Vancouver

Dante Labs. PTPN23 gene: protein tyrosine phosphatase non-receptor type 23 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/ptpn23

One test. A lifetime of answers.

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

Get my Genome Test