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Gene

KDM5A

lysine demethylase 5A

Summary

Cytogenetic location
12p13.33
Coordinates
Chromosome 12: 280,057–389,320 (GRCh38)
Exons
28 exons across 109.3 kb
Protein
1,690 amino acids
Previous symbols
RBBP2, JARID1A
MANE Select transcript
ENST00000399788.7NM_001042603.3
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 KDM5A yet. The test sequences your whole genome, so your data includes it all the same.

How KDM5A is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 12, with a bracket where KDM5A sits. KDM5A and 7 genes near it on chromosome 12, from 1 to 834,688.Chromosome 1212p13.33p13.33p13.32p13.31p13.2p13.1p12.3p12.2p12.1p11.23p11.22p11.21p11.1q11q12q13.11q13.12q13.13q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.31q21.32q21.33q22q23.1q23.2q23.3q24.11q24.12q24.13q24.21q24.22q24.23q24.31q24.32q24.330.1 Mb0.2 Mb0.3 Mb0.4 Mb0.5 Mb0.6 Mb0.7 Mb0.8 MbIQSEC3: 66,756–178,455, forward strandIQSEC3SLC6A12: 190,069–220,144, reverse strandSLC6A12SLC6A13: 220,621–264,195, reverse strandSLC6A13KDM5A: 280,057–389,320, reverse strandKDM5ACCDC77: 389,273–442,645, forward strandCCDC77B4GALNT3: 459,923–563,509, forward strandB4GALNT3NINJ2: 562,852–663,753, reverse strandNINJ2WNK1: 752,536–911,452, forward strandWNK1Diagram of KDM5A: 28 exons on the reverse strand of chromosome 12Exon 18: 1 known disease-causing siteExon 2: 1 known disease-causing siteExon 1: 1 known disease-causing siteExon 28: 280,057–285,662, 5,606 basesExon 27: 292,759–293,169, 411 basesExon 26: 295,573–295,793, 221 basesExon 25: 297,041–297,200, 160 basesExon 24: 306,946–307,089, 144 basesExon 23: 307,454–308,005, 552 basesExon 22: 309,803–309,964, 162 basesExon 21: 310,885–311,064, 180 basesExon 20: 313,056–313,194, 139 basesExon 19: 318,106–318,461, 356 basesExon 18: 320,995–321,109, 115 basesExon 17: 322,417–322,567, 151 basesExon 16: 323,082–323,206, 125 basesExon 15: 323,600–323,781, 182 basesExon 14: 328,835–329,029, 195 basesExon 13: 331,819–331,938, 120 basesExon 12: 333,487–333,649, 163 basesExon 11: 334,241–334,422, 182 basesExon 10: 350,621–350,779, 159 basesExon 9: 352,205–352,324, 120 basesExon 8: 354,076–354,234, 159 basesExon 7: 355,158–355,249, 92 basesExon 6: 356,432–356,537, 106 basesExon 5: 362,963–363,097, 135 basesExon 4: 365,934–366,104, 171 basesExon 3: 384,031–384,153, 123 basesExon 2: 385,897–385,974, 78 basesExon 1: 388,927–389,320, 394 bases2825201510515′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 10.7 kb of the gene's 109.3 kb; 5,073 of those bases code for the protein.

How a genome test reads KDM5A

4

positions in KDM5A 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 109.3 kb of KDM5A, introns included, not only the 10.7 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.). KDM5A gene: lysine demethylase 5A. Retrieved 17 October 2026, from https://dantelabs.com/genes/kdm5a

Vancouver

Dante Labs. KDM5A gene: lysine demethylase 5A [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/kdm5a

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