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Gene

HOXD13

homeobox D13

Summary

Cytogenetic location
2q31.1
Coordinates
Chromosome 2: 176,092,721–176,095,944 (GRCh38)
Exons
2 exons across 3.2 kb
Protein
343 amino acids
Previous symbols
HOX4I, SPD
MANE Select transcript
ENST00000392539.4NM_000523.4
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 HOXD13 yet. The test sequences your whole genome, so your data includes it all the same.

How HOXD13 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
Chromosome 2, with a bracket where HOXD13 sits. HOXD13 and 11 genes near it on chromosome 2, from 175,594,333 to 176,594,332.Chromosome 22q31.1p25.3p25.2p25.1p24.3p24.2p24.1p23.3p23.2p23.1p22.3p22.2p22.1p21p16.3p16.2p16.1p15p14p13.3p13.2p13.1p12p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13q14.1q14.2q14.3q21.1q21.2q21.3q22.1q22.2q22.3q23.1q23.2q23.3q24.1q24.2q24.3q31.1q31.2q31.3q32.1q32.2q32.3q33.1q33.2q33.3q34q35q36.1q36.2q36.3q37.1q37.2q37.3175.6 Mb175.8 Mb176 Mb176.2 Mb176.4 MbLNPK: 175,923,863–176,002,839, reverse strandLNPKEVX2: 176,077,472–176,083,962, reverse strandEVX2HOXD13: 176,092,721–176,095,944, forward strandHOXD13HOXD12: 176,099,795–176,102,489, forward strandHOXD12HOXD11: 176,104,216–176,109,754, forward strandHOXD11HOXD10: 176,108,790–176,119,937, forward strandHOXD9: 176,121,229–176,127,570, forward strandHOXD8: 176,129,328–176,132,695, forward strandHOXD3: 176,136,078–176,174,483, forward strandHOXD4: 176,151,545–176,156,078, forward strandHOXD4HOXD1: 176,188,659–176,190,926, forward strandHOXD1MTX2: 176,269,395–176,338,025, forward strandMTX2Diagram of HOXD13: 2 exons on the forward strand of chromosome 2Exon 1: 8 known disease-causing sitesExon 2: 3 known disease-causing sitesExon 1: 176,092,721–176,093,671, 951 basesExon 2: 176,094,480–176,095,944, 1,465 bases125′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 2.4 kb of the gene's 3.2 kb; 1,032 of those bases code for the protein.

How a genome test reads HOXD13

11

positions in HOXD13 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 3.2 kb of HOXD13, introns included, not only the 2.4 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.). HOXD13 gene: homeobox D13. Retrieved 17 October 2026, from https://dantelabs.com/genes/hoxd13

Vancouver

Dante Labs. HOXD13 gene: homeobox D13 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/hoxd13

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