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Gene

KDM1A

lysine demethylase 1A

Summary

Cytogenetic location
1p36.12
Coordinates
Chromosome 1: 23,019,468–23,083,689 (GRCh38)
Exons
21 exons across 64.2 kb
Protein
876 amino acids
Also known as
KIAA0601, BHC110, LSD1
Previous symbols
AOF2, KDM1
MANE Select transcript
ENST00000400181.9NM_001009999.3
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 KDM1A yet. The test sequences your whole genome, so your data includes it all the same.

How KDM1A is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 1, with a bracket where KDM1A sits. KDM1A and 16 genes near it on chromosome 1, from 22,551,579 to 23,551,578.Chromosome 11p36.12p36.33p36.32p36.31p36.23p36.22p36.21p36.13p36.12p36.11p35.3p35.2p35.1p34.3p34.2p34.1p33p32.3p32.2p32.1p31.3p31.2p31.1p22.3p22.2p22.1p21.3p21.2p21.1p13.3p13.2p13.1p12p11.2p11.1q11q12q21.1q21.2q21.3q22q23.1q23.2q23.3q24.1q24.2q24.3q25.1q25.2q25.3q31.1q31.2q31.3q32.1q32.2q32.3q41q42.11q42.12q42.13q42.2q42.3q43q4422.6 Mb22.8 Mb23 Mb23.2 Mb23.4 MbEPHA8: 22,563,461–22,603,595, forward strandEPHA8C1QA: 22,635,057–22,640,201, forward strandC1QA: 22,636,506–22,644,067, forward strandC1QC: 22,642,558–22,648,122, forward strandC1QCC1QB: 22,652,713–22,661,637, forward strandC1QBEPHB2: 22,710,798–22,921,500, forward strandEPHB2LACTBL1: 22,953,043–22,972,866, reverse strandLACTBL1TEX46: 23,010,833–23,019,100, reverse strandTEX46KDM1A: 23,019,468–23,083,689, forward strandKDM1ALUZP1: 23,084,030–23,178,152, reverse strandLUZP1: 23,094,326–23,094,376, reverse strandHTR1D: 23,190,178–23,217,547, reverse strandHTR1DHNRNPR: 23,303,771–23,344,658, reverse strandHNRNPRZNF436: 23,359,448–23,369,960, reverse strandZNF436TCEA3: 23,370,591–23,425,169, reverse strandTCEA3ASAP3: 23,428,560–23,484,637, reverse strandASAP3E2F2: 23,506,423–23,531,241, reverse strandE2F2Diagram of KDM1A: 21 exons on the forward strand of chromosome 1Exon 3: 1 known disease-causing siteExon 11: 1 known disease-causing siteExon 15: 1 known disease-causing siteExon 16: 1 known disease-causing siteExon 20: 1 known disease-causing siteExon 1: 23,019,468–23,019,947, 480 basesExon 2: 23,030,469–23,030,634, 166 basesExon 3: 23,044,427–23,044,486, 60 basesExon 4: 23,050,387–23,050,520, 134 basesExon 5: 23,053,761–23,053,839, 79 basesExon 6: 23,055,069–23,055,161, 93 basesExon 7: 23,055,932–23,056,038, 107 basesExon 8: 23,057,484–23,057,565, 82 basesExon 9: 23,059,073–23,059,167, 95 basesExon 10: 23,066,060–23,066,071, 12 basesExon 11: 23,068,539–23,068,681, 143 basesExon 12: 23,069,061–23,069,151, 91 basesExon 13: 23,071,225–23,071,359, 135 basesExon 14: 23,072,124–23,072,197, 74 basesExon 15: 23,073,292–23,073,403, 112 basesExon 16: 23,077,228–23,077,360, 133 basesExon 17: 23,078,990–23,079,177, 188 basesExon 18: 23,079,553–23,079,667, 115 basesExon 19: 23,081,446–23,081,573, 128 basesExon 20: 23,082,220–23,082,366, 147 basesExon 21: 23,083,179–23,083,689, 511 bases1215′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 3.1 kb of the gene's 64.2 kb; 2,631 of those bases code for the protein.

How a genome test reads KDM1A

5

positions in KDM1A 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 64.2 kb of KDM1A, introns included, not only the 3.1 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.). KDM1A gene: lysine demethylase 1A. Retrieved 17 October 2026, from https://dantelabs.com/genes/kdm1a

Vancouver

Dante Labs. KDM1A gene: lysine demethylase 1A [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/kdm1a

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