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Gene

NKX3-2

NK3 homeobox 2

Summary

Cytogenetic location
4p15.33
Coordinates
Chromosome 4: 13,540,830–13,544,508 (GRCh38)
Exons
2 exons across 3.7 kb
Protein
333 amino acids
Also known as
NKX3B, NKX3.2
Previous symbols
BAPX1
MANE Select transcript
ENST00000382438.6NM_001189.4
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 NKX3-2 yet. The test sequences your whole genome, so your data includes it all the same.

How NKX3-2 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
Chromosome 4, with a bracket where NKX3-2 sits. NKX3-2 and 2 genes near it on chromosome 4, from 13,042,669 to 14,042,668.Chromosome 44p15.33p16.3p16.2p16.1p15.33p15.32p15.31p15.2p15.1p14p13p12p11q11q12q13.1q13.2q13.3q21.1q21.21q21.22q21.23q21.3q22.1q22.2q22.3q23q24q25q26q27q28.1q28.2q28.3q31.1q31.21q31.22q31.23q31.3q32.1q32.2q32.3q33q34.1q34.2q34.3q35.1q35.213.2 Mb13.4 Mb13.6 Mb13.8 Mb14 MbRAB28: 13,245,110–13,484,365, reverse strandRAB28NKX3-2: 13,540,830–13,544,508, reverse strandNKX3-2BOD1L1: 13,568,738–13,627,741, reverse strandBOD1L1Diagram of NKX3-2: 2 exons on the reverse strand of chromosome 4Exon 1: 1 known disease-causing siteExon 2: 13,540,830–13,542,528, 1,699 basesExon 1: 13,543,949–13,544,508, 560 bases215′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 3.7 kb; 1,002 of those bases code for the protein.

How a genome test reads NKX3-2

1

position in NKX3-2 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 3.7 kb of NKX3-2, 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.). NKX3-2 gene: NK3 homeobox 2. Retrieved 16 October 2026, from https://dantelabs.com/genes/nkx3-2

Vancouver

Dante Labs. NKX3-2 gene: NK3 homeobox 2 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/nkx3-2

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