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Gene

SETD5

SET domain containing 5

Summary

Cytogenetic location
3p25.3
Coordinates
Chromosome 3: 9,397,615–9,478,154 (GRCh38)
Exons
23 exons across 80.5 kb
Protein
1,442 amino acids
Also known as
FLJ10707, SETD5A
MANE Select transcript
ENST00000402198.7NM_001080517.3
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 report relevant to this gene

    How SETD5 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 SETD5 sits. SETD5 and 20 genes near it on chromosome 3, from 8,937,885 to 9,937,884.Chromosome 33p25.3p26.3p26.2p26.1p25.3p25.2p25.1p24.3p24.2p24.1p23p22.3p22.2p22.1p21.33p21.32p21.31p21.2p21.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13.11q13.12q13.13q13.2q13.31q13.32q13.33q21.1q21.2q21.3q22.1q22.2q22.3q23q24q25.1q25.2q25.31q25.32q25.33q26.1q26.2q26.31q26.32q26.33q27.1q27.2q27.3q28q299 Mb9.2 Mb9.4 Mb9.6 Mb9.8 MbRAD18: 8,775,402–8,963,773, reverse strandRAD18SRGAP3: 8,980,591–9,363,053, reverse strandSRGAP3THUMPD3: 9,362,967–9,389,323, forward strandTHUMPD3SETD5: 9,397,615–9,478,154, forward strandSETD5LHFPL4: 9,498,361–9,553,862, reverse strandLHFPL4MTMR14: 9,649,307–9,702,394, forward strandMTMR14CPNE9: 9,703,691–9,729,908, forward strandCPNE9BRPF1: 9,731,726–9,748,019, forward strandBRPF1OGG1: 9,749,938–9,791,067, forward strandOGG1CAMK1: 9,757,341–9,770,606, reverse strandCAMK1TADA3: 9,779,964–9,793,011, reverse strandTADA3ARPC4: 9,792,484–9,807,704, forward strandARPC4ARPC4-TTLL3: 9,793,082–9,835,401, forward strandTTLL3: 9,808,086–9,856,087, forward strandTTLL3RPUSD3: 9,831,633–9,844,602, reverse strandCIDEC: 9,864,169–9,891,008, reverse strandCIDECJAGN1: 9,890,569–9,894,349, forward strandJAGN1IL17RE: 9,902,612–9,916,402, forward strandIL17REIL17RC: 9,917,040–9,933,630, forward strandIL17RC: 9,917,116–9,945,385, forward strandCRELD1: 9,933,791–9,945,413, forward strandDiagram of SETD5: 23 exons on the forward strand of chromosome 3Exon 6: 3 known disease-causing sitesExon 7: 4 known disease-causing sitesExon 8: 8 known disease-causing sitesExon 9: 10 known disease-causing sitesExon 10: 11 known disease-causing sitesExon 11: 5 known disease-causing sitesExon 12: 6 known disease-causing sitesExon 13: 3 known disease-causing sitesExon 14: 19 known disease-causing sitesExon 15: 13 known disease-causing sitesExon 16: 9 known disease-causing sitesExon 17: 7 known disease-causing sitesExon 18: 4 known disease-causing sitesExon 19: 13 known disease-causing sitesExon 20: 9 known disease-causing sitesExon 21: 4 known disease-causing sitesExon 23: 4 known disease-causing sitesExon 1: 9,397,615–9,397,977, 363 basesExon 2: 9,424,467–9,424,526, 60 basesExon 3: 9,428,823–9,429,009, 187 basesExon 4: 9,433,845–9,433,950, 106 basesExon 5: 9,434,334–9,434,485, 152 basesExon 6: 9,434,824–9,434,882, 59 basesExon 7: 9,435,728–9,435,906, 179 basesExon 8: 9,440,456–9,440,698, 243 basesExon 9: 9,441,593–9,441,741, 149 basesExon 10: 9,442,128–9,442,245, 118 basesExon 11: 9,443,308–9,443,417, 110 basesExon 12: 9,445,048–9,445,300, 253 basesExon 13: 9,445,657–9,445,740, 84 basesExon 14: 9,447,050–9,447,307, 258 basesExon 15: 9,447,686–9,448,006, 321 basesExon 16: 9,448,388–9,448,630, 243 basesExon 17: 9,453,739–9,453,868, 130 basesExon 18: 9,464,425–9,464,672, 248 basesExon 19: 9,470,459–9,470,929, 471 basesExon 20: 9,473,236–9,473,537, 302 basesExon 21: 9,474,449–9,474,582, 134 basesExon 22: 9,475,068–9,475,156, 89 basesExon 23: 9,475,483–9,478,154, 2,672 bases15101520235′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 6.9 kb of the gene's 80.5 kb; 4,329 of those bases code for the protein.

    How a genome test reads SETD5

    147

    positions in SETD5 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 80.5 kb of SETD5, introns included, not only the 6.9 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.
    • GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
    • The ACMG secondary findings list, SF v3.2.
    • 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.). SETD5 gene: SET domain containing 5. Retrieved 17 October 2026, from https://dantelabs.com/genes/setd5

    Vancouver

    Dante Labs. SETD5 gene: SET domain containing 5 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/setd5

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