AtlasGene
LYRM7
LYR motif containing 7
- HGNC 28072↗(opens in a new tab)
- Ensembl gene ENSG00000186687↗(opens in a new tab)
- NCBI Gene 90624↗(opens in a new tab)
Summary
- Cytogenetic location
- 5q23.3-q31.1
- Coordinates
- Chromosome 5: 131,170,944–131,205,428 (GRCh38)
- Exons
- 5 exons across 34.5 kb
- Protein
- 104 amino acids
- Also known as
- FLJ20796, MZM1L
- Previous symbols
- C5orf31
- MANE Select transcript
- ENST00000379380.9NM_181705.4
- Locus type
- Protein-coding
- Very high
- Confident
- Low
- Very low
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Primary Mitochondrial Disease
- Mitochondrial Respiratory Chain Complex Deficiency
One of 61 genes linked to it
Isolated deficiencies of complex I, II, III, IV or V, caused by variants in nuclear or mitochondrial genes, which can affect the brain, muscles, heart, liver and other energy-demanding organs.
- 1 GenCC submitter rates it definitive or strong
▶Actionability
Knowing can end a diagnostic search and guide surveillance of affected organs and avoidance of drugs toxic to mitochondria.
How LYRM7 is laid out
- Coding sequence
- Untranslated region
- Intron
- Direction of transcription
- Known disease-causing sites
- Stretches short reads find hard
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 6.2 kb of the gene's 34.5 kb; 315 of those bases code for the protein.
Sequencing LYRM7
3Easy
How hard LYRM7 is to sequence with short reads, out of 100
0 · Easy100 · Hard
Almost all of LYRM7's exons sit where short reads map cleanly.
What adds to it: the share of LYRM7's exons in each kind of hard region
- MappabilityStretches where 100 or 250 bp reads cannot be placed uniquely, so a call there may be missing or wrong. Weight 35%.1%
- HomologySegmental duplications: copies elsewhere in the genome, such as paralogues and pseudogenes, at 90% identity or more. Weight 30%.0%
- RepeatsTandem repeats and runs of one base, which reads slip on and may not span. Weight 15%.6.1%
- GC contentWindows under 25% or over 65% G and C, which library preparation covers thinly. Weight 10%.14%
- Reference coverageGaps in the reference assembly nearby, where there is no sequence for reads to align to. Weight 10%.0%
A Dante Labs score from our own research, built on NIST's Genome in a Bottle maps of hard-to-sequence regions.How it's scoredEach bar is the share of LYRM7's exon bases in that kind of difficult region. The score weighs them by how much each costs a short-read call: 0 when no base is in any, 100 when every base is in all of them.
6
positions in LYRM7 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 34.5 kb of LYRM7, introns included, not only the 6.2 kb of exons.
ClinVar pathogenic variants (6)
The LYRM7 variants ClinVar classifies pathogenic or likely pathogenic for any condition, reviewed by at least one submitter with criteria, and the most reviewed of them. It is ClinVar's public record of the gene, never a result.
- Pathogenic/likely pathogenic 1
- Likely pathogenic 5
| Variant | Conditions | ClinVar classification | Review status |
|---|---|---|---|
| NM_181705.4(LYRM7):c.2T>C (p.Met1Thr) (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Pathogenic/likely pathogenic | ★★★★2 stars out of 4 criteria provided, multiple submitters, no conflicts |
| NM_181705.4(LYRM7):c.19-3C>G (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Likely pathogenic | ★★★★1 star out of 4 criteria provided, single submitter |
| NM_181705.4(LYRM7):c.103A>T (p.Lys35Ter) (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Likely pathogenic | ★★★★1 star out of 4 criteria provided, single submitter |
| NM_181705.4(LYRM7):c.214C>G (p.Gln72Glu) (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Likely pathogenic | ★★★★1 star out of 4 criteria provided, single submitter |
| NM_181705.4(LYRM7):c.243_244+2del (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Likely pathogenic | ★★★★1 star out of 4 criteria provided, single submitter |
| NM_181705.4(LYRM7):c.309del (p.Lys103fs) (opens in a new tab) | mitochondrial complex III deficiency nuclear type 8 | Likely pathogenic | ★★★★1 star out of 4 criteria provided, single submitter |
Genes linked to the same conditions
- ACAD9acyl-CoA dehydrogenase family member 9Shares 1 condition
- ATP5F1AATP synthase F1 subunit alphaShares 1 condition
- ATP5F1DATP synthase F1 subunit deltaShares 1 condition
- ATP5F1EATP synthase F1 subunit epsilonShares 1 condition
- BCS1LBCS1 ubiquinol-cytochrome c reductase complex chaperoneShares 1 condition
- COA6cytochrome c oxidase assembly factor 6Shares 1 condition
- COA8cytochrome c oxidase assembly factor 8Shares 1 condition
- COX10cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10Shares 1 condition
- COX15cytochrome c oxidase assembly factor COX15Shares 1 condition
- COX16cytochrome c oxidase assembly factor COX16Shares 1 condition
- COX20cytochrome c oxidase assembly factor COX20Shares 1 condition
- COX6B1cytochrome c oxidase subunit 6B1Shares 1 condition
Traits linked to LYRM7
The Human Phenotype Ontology lists these as features of the rare conditions LYRM7 can cause. Each trait's page lists the other genes linked to it.
External links
Gene records
Transcript
Protein
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 2026-10-18: 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 Genome in a Bottle genome stratifications, from NIST: the sequencing difficulty score.
- The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
- Data release 2026.10.18-8b139e39.
Cite this page
Dante Labs. (n.d.). LYRM7 gene: LYR motif containing 7. Retrieved 18 October 2026, from https://dantelabs.com/genes/lyrm7
Dante Labs. LYRM7 gene: LYR motif containing 7 [Internet]. [cited 18 October 2026]. Available from: https://dantelabs.com/genes/lyrm7
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