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Gene

KDM2B

lysine demethylase 2B

Summary

Cytogenetic location
12q24.31
Coordinates
Chromosome 12: 121,429,096–121,581,023 (GRCh38)
Exons
23 exons across 151.9 kb
Protein
1,336 amino acids
Also known as
PCCX2, CXXC2, Fbl10, JHDM1B
Previous symbols
FBXL10
MANE Select transcript
ENST00000377071.9NM_032590.5
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 KDM2B yet. The test sequences your whole genome, so your data includes it all the same.

How KDM2B 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 KDM2B sits. KDM2B and 16 genes near it on chromosome 12, from 121,005,060 to 122,005,059.Chromosome 1212q24.31p13.33p13.32p13.31p13.2p13.1p12.3p12.2p12.1p11.23p11.22p11.21p11.1q11q12q13.11q13.12q13.13q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.31q21.32q21.33q22q23.1q23.2q23.3q24.11q24.12q24.13q24.21q24.22q24.23q24.31q24.32q24.33121.2 Mb121.4 Mb121.6 Mb121.8 Mb122 MbC12orf43: 121,000,486–121,016,504, reverse strandC12orf43OASL: 121,017,763–121,039,246, reverse strandOASLP2RX7: 121,132,785–121,188,032, forward strandP2RX7P2RX4: 121,209,961–121,234,112, forward strandP2RX4CAMKK2: 121,217,103–121,298,308, reverse strandCAMKK2ANAPC5: 121,308,243–121,399,896, reverse strandANAPC5RNF34: 121,400,078–121,446,466, forward strandRNF34KDM2B: 121,429,096–121,581,023, reverse strandKDM2BORAI1: 121,626,509–121,643,109, forward strandORAI1MORN3: 121,648,742–121,672,656, reverse strandMORN3TMEM120B: 121,712,725–121,783,001, forward strandTMEM120BRHOF: 121,768,283–121,803,403, reverse strandRHOFSETD1B: 121,803,858–121,832,656, forward strandSETD1BHPD: 121,839,120–121,863,596, reverse strandHPDPSMD9: 121,888,725–121,918,297, forward strandPSMD9: 121,888,809–121,921,470, forward strandCFAP251: 121,918,555–122,003,927, forward strandCFAP251Diagram of KDM2B: 23 exons on the reverse strand of chromosome 12Exon 13: 2 known disease-causing sitesExon 7: 1 known disease-causing siteExon 23: 121,429,096–121,430,469, 1,374 basesExon 22: 121,439,857–121,440,075, 219 basesExon 21: 121,440,816–121,440,977, 162 basesExon 20: 121,441,070–121,441,233, 164 basesExon 19: 121,442,157–121,442,836, 680 basesExon 18: 121,442,992–121,443,030, 39 basesExon 17: 121,443,680–121,443,793, 114 basesExon 16: 121,444,012–121,444,272, 261 basesExon 15: 121,444,450–121,444,536, 87 basesExon 14: 121,445,275–121,445,418, 144 basesExon 13: 121,453,120–121,453,344, 225 basesExon 12: 121,494,579–121,494,665, 87 basesExon 11: 121,509,567–121,510,039, 473 basesExon 10: 121,513,276–121,513,402, 127 basesExon 9: 121,520,985–121,521,100, 116 basesExon 8: 121,532,806–121,532,959, 154 basesExon 7: 121,534,497–121,534,590, 94 basesExon 6: 121,548,877–121,548,983, 107 basesExon 5: 121,549,460–121,549,638, 179 basesExon 4: 121,574,547–121,574,593, 47 basesExon 3: 121,575,781–121,575,859, 79 basesExon 2: 121,578,802–121,578,946, 145 basesExon 1: 121,580,786–121,581,023, 238 bases23201015′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 5.3 kb of the gene's 151.9 kb; 4,011 of those bases code for the protein.

How a genome test reads KDM2B

3

positions in KDM2B 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 151.9 kb of KDM2B, introns included, not only the 5.3 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.). KDM2B gene: lysine demethylase 2B. Retrieved 17 October 2026, from https://dantelabs.com/genes/kdm2b

Vancouver

Dante Labs. KDM2B gene: lysine demethylase 2B [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/kdm2b

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