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Gene

HARS2

histidyl-tRNA synthetase 2, mitochondrial

Summary

Cytogenetic location
5q31.3
Coordinates
Chromosome 5: 140,691,455–140,699,305 (GRCh38)
Exons
13 exons across 7.9 kb
Protein
506 amino acids
Also known as
HO3, HARSR
Previous symbols
HARSL
MANE Select transcript
ENST00000230771.9NM_012208.4
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

  • Female Infertility

    • Diminished or absent ability of a female to achieve conception.

      • 2 GenCC submitters rate it definitive or strong

How HARS2 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 5, with a bracket where HARS2 sits. HARS2 and 45 genes near it on chromosome 5, from 140,195,380 to 141,195,379.Chromosome 55q31.3p15.33p15.32p15.31p15.2p15.1p14.3p14.2p14.1p13.3p13.2p13.1p12p11q11.1q11.2q12.1q12.2q12.3q13.1q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.3q22.1q22.2q22.3q23.1q23.2q23.3q31.1q31.2q31.3q32q33.1q33.2q33.3q34q35.1q35.2q35.3140.2 Mb140.4 Mb140.6 Mb140.8 Mb141 MbCYSTM1: 140,174,924–140,282,212, forward strandCYSTM1PFDN1: 140,234,986–140,303,119, reverse strandPFDN1HBEGF: 140,332,843–140,346,614, reverse strandHBEGFSLC4A9: 140,360,188–140,375,324, forward strandSLC4A9ANKHD1: 140,401,660–140,541,168, forward strandANKHD1-EIF4EBP3: 140,401,908–140,549,569, forward strandSRA1: 140,536,450–140,557,920, reverse strandEIF4EBP3: 140,547,616–140,551,708, forward strandEIF4EBP3APBB3: 140,558,268–140,564,781, reverse strandAPBB3SLC35A4: 140,564,440–140,569,215, forward strandSLC35A4SURMIR: 140,564,440–140,569,215, forward strandSURMIRCD14: 140,630,402–140,633,711, reverse strandNDUFA2: 140,638,740–140,647,823, reverse strandTMCO6: 140,639,396–140,647,730, forward strandIK: 140,647,058–140,662,480, forward strandIKWDR55: 140,664,476–140,674,124, forward strandDND1: 140,670,794–140,673,576, reverse strandDND1HARS1: 140,673,035–140,691,537, reverse strandHARS1HARS2: 140,691,455–140,699,305, forward strandHARS2ZMAT2: 140,698,680–140,707,729, forward strandZMAT2PCDHA1: 140,786,136–141,012,351, forward strandPCDHA1PCDHA2: 140,794,845–141,012,351, forward strandPCDHA2PCDHA3: 140,801,018–141,012,351, forward strandPCDHA3PCDHA4: 140,807,037–141,012,347, forward strandPCDHA4PCDHA5: 140,821,599–141,012,347, forward strandPCDHA6: 140,827,958–141,012,351, forward strandPCDHA7: 140,834,231–141,012,351, forward strandPCDHA8: 140,841,185–141,012,351, forward strandPCDHA9: 140,847,772–141,012,351, forward strandPCDHA10: 140,855,883–141,012,351, forward strandPCDHA11: 140,868,183–141,012,351, forward strandPCDHA12: 140,875,256–141,012,351, forward strandPCDHA13: 140,882,079–141,012,347, forward strandPCDHAC1: 140,926,299–141,012,351, forward strandPCDHAC2: 140,966,466–141,012,351, forward strandPCDHB1: 141,051,374–141,059,346, forward strandPCDHB1PCDHB2: 141,094,597–141,098,703, forward strandPCDHB2PCDHB3: 141,100,473–141,103,827, forward strandPCDHB3PCDHB4: 141,121,818–141,125,623, forward strandPCDHB4PCDHB5: 141,135,206–141,138,615, forward strandPCDHB5PCDHB6: 141,150,057–141,153,287, forward strandPCDHB7: 141,172,644–141,176,383, forward strandPCDHB7PCDHB8: 141,177,790–141,182,369, forward strandPCDHB8PCDHB16: 141,182,387–141,186,226, forward strandPCDHB9: 141,187,127–141,191,541, forward strandPCDHB10: 141,192,353–141,195,647, forward strandDiagram of HARS2: 13 exons on the forward strand of chromosome 5Exon 3: 1 known disease-causing siteExon 4: 1 known disease-causing siteExon 5: 2 known disease-causing sitesExon 7: 1 known disease-causing siteExon 9: 1 known disease-causing siteExon 10: 2 known disease-causing sitesExon 11: 1 known disease-causing siteExon 12: 2 known disease-causing sitesExon 1: 140,691,455–140,691,756, 302 basesExon 2: 140,693,591–140,693,665, 75 basesExon 3: 140,693,935–140,694,054, 120 basesExon 4: 140,694,185–140,694,280, 96 basesExon 5: 140,695,508–140,695,633, 126 basesExon 6: 140,695,738–140,695,845, 108 basesExon 7: 140,696,103–140,696,201, 99 basesExon 8: 140,696,521–140,696,614, 94 basesExon 9: 140,696,943–140,697,070, 128 basesExon 10: 140,697,164–140,697,406, 243 basesExon 11: 140,697,569–140,697,685, 117 basesExon 12: 140,697,932–140,698,078, 147 basesExon 13: 140,698,493–140,699,305, 813 bases123456789101112135′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 2.5 kb of the gene's 7.9 kb; 1,521 of those bases code for the protein.

How a genome test reads HARS2

11

positions in HARS2 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 7.9 kb of HARS2, introns included, not only the 2.5 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.). HARS2 gene: histidyl-tRNA synthetase 2, mitochondrial. Retrieved 16 October 2026, from https://dantelabs.com/genes/hars2

Vancouver

Dante Labs. HARS2 gene: histidyl-tRNA synthetase 2, mitochondrial [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/hars2

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