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Gene

SATB1

SATB homeobox 1

Summary

Cytogenetic location
3p24.3
Coordinates
Chromosome 3: 18,345,377–18,425,339 (GRCh38)
Exons
11 exons across 80 kb
Protein
763 amino acids
MANE Select transcript
ENST00000338745.11NM_002971.6
Locus type
Protein-coding
  • Very high
  • Confident
  • Low
  • Very low

Curated reports relevant to this gene

No Genome Test report reads SATB1 yet. The test sequences your whole genome, so your data includes it all the same.

How SATB1 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 SATB1 sits. SATB1 and 1 gene near it on chromosome 3, from 17,885,358 to 18,885,357.Chromosome 33p24.3p26.3p26.2p26.1p25.3p25.2p25.1p24.3p24.2p24.1p23p22.3p22.2p22.1p21.33p21.32p21.31p21.2p21.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13.11q13.12q13.13q13.2q13.31q13.32q13.33q21.1q21.2q21.3q22.1q22.2q22.3q23q24q25.1q25.2q25.31q25.32q25.33q26.1q26.2q26.31q26.32q26.33q27.1q27.2q27.3q28q2918 Mb18.2 Mb18.4 Mb18.6 Mb18.8 MbTBC1D5: 17,157,162–18,444,817, reverse strandTBC1D5SATB1: 18,345,377–18,425,339, reverse strandSATB1Diagram of SATB1: 11 exons on the reverse strand of chromosome 3Exon 11: 4 known disease-causing sitesExon 10: 5 known disease-causing sitesExon 8: 3 known disease-causing sitesExon 7: 5 known disease-causing sitesExon 5: 1 known disease-causing siteExon 4: 1 known disease-causing siteExon 2: 1 known disease-causing siteExon 11: 18,345,377–18,349,682, 4,306 basesExon 10: 18,351,992–18,352,195, 204 basesExon 9: 18,378,170–18,378,325, 156 basesExon 8: 18,386,399–18,386,611, 213 basesExon 7: 18,394,462–18,394,916, 455 basesExon 6: 18,397,179–18,397,290, 112 basesExon 5: 18,415,111–18,415,234, 124 basesExon 4: 18,416,007–18,416,133, 127 basesExon 3: 18,416,902–18,417,078, 177 basesExon 2: 18,420,757–18,420,991, 235 basesExon 1: 18,423,627–18,425,339, 1,713 bases1110864215′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 7.8 kb of the gene's 80 kb; 2,292 of those bases code for the protein.

Sequencing SATB1

21

positions in SATB1 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 80 kb of SATB1, introns included, not only the 7.8 kb of exons.

Traits linked to SATB1

The Human Phenotype Ontology lists these as features of the rare conditions SATB1 can cause. Each trait's page lists the other genes linked to it.

Abnormality of the nervous system

Show 30 more traits

External links

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.). SATB1 gene: SATB homeobox 1. Retrieved 17 October 2026, from https://dantelabs.com/genes/satb1

Vancouver

Dante Labs. SATB1 gene: SATB homeobox 1 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/satb1

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