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Gene

PTPN2

protein tyrosine phosphatase non-receptor type 2

Summary

Cytogenetic location
18p11.21
Coordinates
Chromosome 18: 12,792,152–12,884,237 (GRCh38)
Exons
9 exons across 92.1 kb
Protein
415 amino acids
Inheritance
Autosomal dominant
Also known as
TCELLPTP, TC-PTP, TCPTP, TC45, TC48
Previous symbols
PTPT
MANE Select transcript
ENST00000309660.10NM_002828.4
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 report relevant to this gene

  • Rare Monogenic Autoinflammatory Diseases

    • PTPN2-related autoinflammation and autoimmunityAutosomal dominant

      Early-onset inflammatory and autoimmune disease, including colitis and arthritis, caused by variants in PTPN2.

      • 1 GenCC submitter rates it definitive or strong

Inheritance

Autosomal dominant
One changed copy, from either parent, is enough. A parent who has one passes it on to each child with a one-in-two chance.

How PTPN2 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Stretches short reads find hard
Chromosome 18, with a bracket where PTPN2 sits. PTPN2 and 9 genes near it on chromosome 18, from 12,338,195 to 13,338,194.Chromosome 1818p11.21p11.32p11.31p11.23p11.22p11.21p11.1q11.1q11.2q12.1q12.2q12.3q21.1q21.2q21.31q21.32q21.33q22.1q22.2q22.3q2312.4 Mb12.6 Mb12.8 Mb13 Mb13.2 MbTUBB6: 12,307,287–12,345,784, forward strandTUBB6AFG3L2: 12,328,871–12,377,473, reverse strandAFG3L2PRELID3A: 12,407,896–12,432,254, forward strandPRELID3ASPIRE1: 12,446,512–12,658,129, reverse strandSPIRE1PSMG2: 12,658,043–12,728,945, forward strandPSMG2CEP76: 12,660,738–12,702,777, reverse strandCEP76PTPN2: 12,792,152–12,884,237, reverse strandPTPN2SEH1L: 12,947,133–12,987,713, forward strandSEH1LCEP192: 12,991,283–13,125,053, forward strandCEP192LDLRAD4: 13,216,173–13,652,755, forward strandLDLRAD4Diagram of PTPN2: 9 exons on the reverse strand of chromosome 18Exon 9: 12,792,152–12,794,485, 2,334 basesExon 8: 12,801,970–12,802,151, 182 basesExon 7: 12,814,203–12,814,355, 153 basesExon 6: 12,817,156–12,817,365, 210 basesExon 5: 12,825,810–12,825,944, 135 basesExon 4: 12,830,943–12,831,041, 99 basesExon 3: 12,836,791–12,836,891, 101 basesExon 2: 12,859,164–12,859,254, 91 basesExon 1: 12,884,073–12,884,237, 165 bases9876543215′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 3.5 kb of the gene's 92.1 kb; 1,248 of those bases code for the protein.

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.
  • 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.). PTPN2 gene: protein tyrosine phosphatase non-receptor type 2. Retrieved 16 October 2026, from https://dantelabs.com/genes/ptpn2

Vancouver

Dante Labs. PTPN2 gene: protein tyrosine phosphatase non-receptor type 2 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/ptpn2

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