| Locus | Disease | Allele | Nucleotide Position | Nucldotide Change | Amino Acid Change | Homo- plasmy | Hetero- plasmy | Status | Reference |
|---|---|---|---|---|---|---|---|---|---|
| MT-DLOOP | Longevity | T150C | 150 | C-T | noncoding | + | + | Multiple reports | references |
| MT-ND1 | MELAS; DEAF modulator | T3308C | 3308 | T-C | M-T | - | + | P.M./modulator | references |
| MT-ND1 | NIDDM; HCM | C3310T | 3310 | C-T | P-S | + | + | Prov | references |
| MT-ND1 | NIDDM; LHON; PEO | G3316A | 3316 | G-A | A-T | + | - | Unclear | references |
| MT-ND1 | LHON/MELAS overlap | G3376A | 3376 | G-A | E-K | + | + | Prov | references |
| MT-ND1 | LHON; NIDDM; CPT deficiency | T3394C | 3394 | T-C | Y-H | + | - | Unclear | references |
| MT-ND1 | ADPD | A3397G | 3397 | A-G | M-V | + | - | Prov | references |
| MT-ND1 | MIDD | G3421A | 3421 | G-A | V-I | + | - | Single Report | references |
| MT-ND1 | LHON | G3460A | 3460 | G-A | A-T | + | + | Cfrm | references |
| MT-ND1 | MELAS | G3481A | 3481 | G-A | E59K | - | + | Prov | references |
| MT-ND1 | LHON | G3496T | 3496 | G-T | A-S | + | - | Prov/Secondary | references |
| MT-ND1 | LHON | C3497T | 3497 | C-T | A-V | + | - | Prov/Secondary | references |
| MT-ND1 | LHON | G3635A | 3635 | G-A | S-N | + | - | Prov | references |
| MT-ND1 | MELAS | G3697A | 3697 | G-A | G-S | - | + | Prov | references |
| MT-ND1 | LHON | G3700A | 3700 | G-A | A-T | + | - | Prov | references |
| MT-ND1 | LHON | G3733A | 3733 | G-A | E-K | + | + | Prov | references |
| MT-ND1 | Adult-Onset Dystonia | A3796G | 3796 | A-G | T-A | - | + | Prov | references |
| MT-ND1 | PEG | T3833A | 3833 | T-A | L-Q | + | - | Single Report | references |
| MT-ND1 | MELAS | G3946A | 3946 | G-A | E-K | + | + | Prov | references |
| MT-ND1 | MELAS | T3949C | 3949 | T-C | Y-H | - | + | Prov | references |
| MT-ND1 | LHON | A4136G | 4136 | A-G | Y-C | + | - | Possibly synergistic | references |
| MT-ND1 | LHON | T4160C | 4160 | T-C | L-P | + | - | Prov | references |
| MT-ND1 | LHON | C4171A | 4171 | C-A | L-M | + | + | Prov | references |
| MT-ND1 | LHON; insulin resistance | T4216C | 4216 | T-C | Y-H | + | - | P.M.- haplogroup J/T marker | references |
| MT-ND2 | LHON | C4640A | 4640 | C-A | I-M | + | - | Prov | references |
| MT-ND2 | PEG | T4648C | 4648 | T-C | F-S | + | - | Single Report | references |
| MT-ND2 | Leigh Syndrome | T4681C | 4681 | T-C | L-P | - | + | Prov | references |
| MT-ND2 | NIDDM helper mutation | A4833G | 4833 | A-G | T-A | + | - | Prov - haplogroup G marker | references |
| MT-ND2 | LHON; insulin resistance | A4917G | 4917 | A-G | N-D | + | - | P.M.- haplogroup T marker | references |
| MT-ND2 | Longevity | C5178A | 5178 | C-A | L-M | + | - | Prov- haplogroup D marker | references |
| MT-ND2 | LHON | G5244A | 5244 | G-A | G-S | - | + | Prov | references |
| MT-ND2 | Progressive Encephalomyopathy | C5452T | 5452 | C-T | T-M | + | - | Prov | references |
| MT-ND2 | AD; PD | G5460A | 5460 | G-A | A-T | + | + | P.M. | references |
| MT-ND2 | AD | G5460T | 5460 | G-T | A-S | + | + | Prov | references |
| MT-CO1 | Prostate Cancer | C5911T | 5911 | C-T | A-V | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G5913A | 5913 | G-A | D-N | + | - | Prov | references |
| MT-CO1 | Myoglobinuria; Exercise Intolerance | G5920A | 5920 | G-A | W-Ter | - | + | Prov | references |
| MT-CO1 | Prostate Cancer | A5935G | 5935 | A-G | N-S | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G5973A | 5973 | G-A | A-T | + | - | Prov | references |
| MT-CO1 | Motor Neuron Disease | 6020del5 | 6020 | 5bp deletion- | ACLGG-AGPATer | - | + | Prov | references |
| MT-CO1 | Prostate Cancer | G6081A | 6081 | G-A | A-T | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G6150A | 6150 | G-A | V-I | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | T6253C | 6253 | T-C | M-T | + | - | Prov | references |
| MT-CO1 | Prostate Cancer; LHON | G6261A | 6261 | G-A | A-T | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G6267A | 6267 | G-A | A-T | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G6285A | 6285 | G-A | V-I | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | C6340T | 6340 | C-T | T-I | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | G6480A | 6480 | G-A | V-I | + | - | Prov | references |
| MT-CO1 | Therapy-resistant Epilepsy | C6489A | 6489 | C-A | L-I | - | + | Prov | references |
| MT-CO1 | Prostate Cancer | A6663G | 6663 | A-G | I-V | + | - | Prov | references |
| MT-CO1 | MM & Rhabdomyolysis | G6708A | 6708 | G-A | G-Ter | - | + | Prov | references |
| MT-CO1 | Acquired Idiopathic Sideroblastic Anemia | T6721C | 6721 | T-C | M-T | - | + | Prov | references |
| MT-CO1 | Acquired Idiopathic Sideroblastic Anemia | T6742C | 6742 | T-C | I-T | - | + | Prov | references |
| MT-CO1 | Multisystem Disorder | G6930A | 6930 | G-A | G-Ter | - | + | Prov | references |
| MT-CO1 | Prostate Cancer | G7041A | 7041 | G-A | V-I | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | T7080C | 7080 | T-C | F-L | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | A7083G | 7083 | A-G | I-V | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | A7158G | 7158 | A-G | I-V | + | - | Prov | references |
| MT-CO1 | Prostate Cancer | A7305C | 7305 | A-C | M-L | + | - | Prov | references |
| MT-CO1 | DEAF | A7443G | 7443 | A-G | Ter-G | + | - | Prov | references |
| MT-CO1 | LHON; SNHL; DEAF | G7444A | 7444 | G-A | Ter-K | + | - | Prov | references |
| MT-CO1 | DEAF | A7445C | 7445 | A-C | Ter-S | + | - | Prov | references |
| MT-CO1 | SNHL | A7445G | 7445 | A-G | Ter-Ter | + | + | Cfrm | references |
| MT-CO2 | Mitochondrial Encephalomyopathy | T7587C | 7587 | T-C | M-T | - | + | Prov | references |
| MT-CO2 | LHON | C7623T | 7623 | C-T | T-I | + | - | Prov | references |
| MT-CO2 | MM | T7671A | 7671 | T-A | M-K | - | + | Prov | references |
| MT-CO2 | Progressive Encephalomyopathy | G7859A | 7859 | G-A | D-N | + | - | Prov | references |
| MT-CO2 | PEG | A7877C | 7877 | A-C | K-Q | + | - | Single Report | references |
| MT-CO2 | Multisystem Disorder | G7896A | 7896 | G-A | W-Ter | - | + | Prov | references |
| MT-CO2 | Encephalopathy | G7970T | 7970 | G-T | E-Ter | - | + | Prov | references |
| MT-CO2 | Rhabdomyolysis | T7989C | 7989 | T-C | L-P | - | + | Prov | references |
| MT-CO2 | Lactic Acidosis | 8042del2 | 8042 | AT-del | M-Ter | - | + | Prov | references |
| MT-CO2 | SNHL | A8108G | 8108 | A-G | I-V | + | - | Prov | references |
| MT-ATP8 | MIDD | A8381G | 8382 | A-G | T-A | + | - | Prov | references |
| MT-ATP6 | Exercise Endurance | C8794T | 8794 | C-T | H-Y | + | - | Prov | references |
| MT-ATP6 | LHON | A8836G | 8836 | A-G | M-V | + | - | Prov | references |
| MT-ATP6 | BSN | T8851C | 8851 | T-C | W-R | + | + | Prov | references |
| MT-ATP6 | Prostate Cancer | C8932T | 8932 | C-T | P-S | + | - | Prov | references |
| MT-ATP6 | LDYT | G8950A | 8950 | G-A | V-I | + | - | Prov | references |
| MT-ATP6 | NARP / Leigh Disease | T8993C | 8993 | T-C | L-P | - | + | Cfrm | references |
| MT-ATP6 | NARP / Leigh Disease | T8993G | 8993 | T-G | L-R | - | + | Cfrm | references |
| MT-ATP6 | LHON | A9016G | 9016 | A-G | I-V | - | + | Prov | references |
| MT-ATP6 | LHON | T9101C | 9101 | T-C | I-T | + | - | Prov | references |
| MT-ATP6 | LHON | G9139A | 9139 | G-A | A-T | + | - | Possibly synergistic | references |
| MT-ATP6 | FBSN / Leigh Disease | T9176C | 9176 | T-C | L-P | + | + | Cfrm | references |
| MT-ATP6 | Leigh Disease | T9176G | 9176 | T-G | L-R | - | + | Prov | references |
| MT-ATP6 | Leigh Disease | T9185C | 9185 | T-C | L-P | - | + | Prov | references |
| MT-ATP6 | Leigh Disease | T9191C | 9191 | T-C | L-P | - | + | Prov | references |
| MT-ATP6 | Seizures / Lacticacidemia | 9205del2 | 9205 | TA-del | Ter-M | + | - | Prov | references |
| MT-CO3 | LHON | G9438A | 9438 | G-A | G-S | + | - | Prov | references |
| MT-CO3 | Myoglobinuria | 9487del15 | 9487 | 15 bp deletion- | FAGFF-del | - | + | Prov | references |
| MT-CO3 | Leigh-like | C9537insC | 9537 | C-CC | Q-frameshift | + | - | Prov | references |
| MT-CO3 | LHON | A9660C | 9660 | A-C | M-L | + | - | Prov | references |
| MT-CO3 | LHON | G9738T | 9738 | G-T | A-S | + | - | Prov | references |
| MT-CO3 | Myopathy | T9789C | 9789 | T-C | S-P | - | + | Prov | references |
| MT-CO3 | LHON | G9804A | 9804 | G-A | A-T | + | - | Prov | references |
| MT-CO3 | AD | T9861C | 9861 | T-C | F-L | + | - | Prov | references |
| MT-CO3 | Mitochondrial Encephalopathy | G9952A | 9952 | G-A | W-Ter | - | + | Prov | references |
| MT-CO3 | PEM; MELAS; NAION | T9957C | 9957 | T-C | F-L | - | + | Prov | references |
| MT-ND3 | Leigh Disease | T10158C | 10158 | T-C | S-P | - | + | Cfrm | references |
| MT-ND3 | ESOC / Leigh-like Disease | T10191C | 10191 | T-C | S-P | - | + | Cfrm | references |
| MT-ND3 | Leigh Disease; dystonia; stroke | G10197A | 10197 | G-A | A47T | + | + | Cfrm | references |
| MT-ND3 | LHON | T10237C | 10237 | T-C | I-T | + | - | Prov | references |
| MT-ND3 | Invasive Breast Cancer risk factor; AD;PD | A10398A | 10398 | A-A | T-T | + | - | Prov; haplogroup HNTUVWXK2 marker | references |
| MT-ND3 | PD protective factor/longevity | A10398G | 10398 | A-G | T-A | + | - | Prov; haplogroup IJK marker | references |
| MT-ND4L | LHON | A10543G | 10543 | A-G | H-R | - | + | Prov | references |
| MT-ND4L | LHON | T10591G | 10591 | T-G | F-C | - | + | Prov | references |
| MT-ND4L | LHON | T10663C | 10663 | T-C | V-A | + | - | Prov | references |
| MT-ND4 | MELAS | A11084G | 11084 | A-G | T-A | + | + | P.M. | references |
| MT-ND4 | CPEO | T11232C | 11232 | T-C | L-P | - | + | Prov | references |
| MT-ND4 | LHON; PD | T11253C | 11253 | T-C | I-T | + | - | Prov | references |
| MT-ND4 | LHON | G11696A | 11696 | G-A | V-I | - | + | Prov | references |
| MT-ND4 | Leigh Disease | C11777A | 11777 | C-A | R-S | - | + | Cfrm | references |
| MT-ND4 | LHON | G11778A | 11778 | G-A | R-H | + | + | Cfrm | references |
| MT-ND4 | Progressive Dystonia | G11778A | 11778 | G-A | R-H | + | + | Two reports | references |
| MT-ND4 | Exercise Intolerance | G11832A | 11832 | G-A | W-Ter | - | + | Prov | references |
| MT-ND4 | LHON | C11874A | 11874 | C-A | T-N | + | - | Prov | references |
| MT-ND4 | Thyroid Cancer Cell Line | C11919T | 11919 | C-T | S-F | + | - | Prov | references |
| MT-ND4 | OAT | C11994T | 11994 | C-T | T-I | + | - | Conflicting reports | references |
| MT-ND4 | DM | A12026G | 12026 | A-G | I-V | + | - | Prov | references |
| MT-ND5 | Thyroid Cancer Cell Line | A12634G | 12634 | A-G | I-V | + | - | Prov | references |
| MT-ND5 | Leigh Disease | T12706C | 12706 | T-C | F-L | - | + | Cfrm | references |
| MT-ND5 | MELAS | A12770G | 12770 | A-G | E-G | - | + | Prov | references |
| MT-ND5 | LHON | T12782G | 12782 | T-G | I-S | - | + | Prov | references |
| MT-ND5 | LHON | C12848T | 12848 | C-T | A-V | - | + | Prov | references |
| MT-ND5 | Optic neuropathy / retinopathy | G13042A | 13042 | G-A | A236T | - | + | Prov | references |
| MT-ND5 | MELAS / LHON / Leigh overlap syndrome | A13045C | 13045 | A-C | M-L | - | + | Prov | references |
| MT-ND5 | LHON | G13051A | 13051 | G-A | G-S | + | - | Prov | references |
| MT-ND5 | Adult-onset Encephalopathy | G13063A | 13063 | G-A | V243I | - | + | Prov | references |
| MT-ND5 | MELAS / Leigh Disease | A13084T | 13084 | A-T | S-C | - | + | Prov | references |
| MT-ND5 | LHON | A13379C | 13379 | A-C | N-S | + | - | Prov | references |
| MT-ND5 | MELAS / Leigh Disease | G13513A | 13513 | G-A | D-N | - | + | Cfrm | references |
| MT-ND5 | MELAS | A13514G | 13514 | A-G | D-G | - | + | Cfrm | references |
| MT-ND5 | LHON-like | A13528G | 13528 | A-G | T-A | + | - | Prov | references |
| MT-ND5 | Thyroid Cancer | C13580G | 13580 | C-G | A-G | - | + | Prov | references |
| MT-ND5 | LHON | G13708A | 13708 | G-A | A-T | + | - | P.M.- haplogroup J marker | references |
| MT-ND5 | LHON | G13730A | 13730 | G-A | G-E | - | + | Prov | references |
| MT-ND5 | Thyroid Cancer Cell Line | C13831A | 13831 | C-A | L-M | - | + | Prov | references |
| MT-ND6 | LHON | G14279A | 14279 | G-A | S-L | + | - | Prov | references |
| MT-ND6 | LHON | T14325C | 14325 | T-C | N-D | + | - | Prov | references |
| MT-ND6 | SNHL | C14340T | 14340 | C-T | V-M | + | - | Prov | references |
| MT-ND6 | Thyroid Cancer | A14430G | 14430 | A-G | W-R | + | - | Prov | references |
| MT-ND6 | MELAS | G14453A | 14453 | G-A | A-V | - | + | Prov | references |
| MT-ND6 | LDYT / Leigh Disease | G14459A | 14459 | G-A | A-V | + | + | Cfrm | references |
| MT-ND6 | LHON | C14482A | 14482 | C-A | M-I | + | + | Prov | references |
| MT-ND6 | LHON | C14482G | 14482 | C-G | M-I | + | + | Cfrm | references |
| MT-ND6 | LHON | T14484C | 14484 | T-C | M-V | + | + | Cfrm | references |
| MT-ND6 | Dystonia / Leigh Disease | T14487C | 14487 | T-C | M-V | - | + | Cfrm | references |
| MT-ND6 | LHON | A14495G | 14495 | A-G | L-S | - | + | Prov | references |
| MT-ND6 | LHON | T14498C | 14498 | T-C | Y-C | + | + | Prov | references |
| MT-ND6 | LHON | C14568T | 14568 | C-T | G-S | + | - | Cfrm | references |
| MT-ND6 | MIDM | T14577C | 14577 | T-C | I-V | - | + | Prov | references |
| MT-ND6 | LHON | A14596T | 14596 | A-T | I-M | + | - | Prov | references |
| MT-ND6 | Leigh Disease | G14600A | 14600 | G-A | P25L | + | + | Prov | references |
| MT-CYB | PD / MELAS | 14787del4 | 14787 | TTAA-del | I-frameshift | - | + | Prov | references |
| MT-CYB | LHON | G14831A | 14831 | G-A | A-T | + | - | Prov | references |
| MT-CYB | Exercise Intolerance | G14846A | 14846 | G-A | G-S | - | + | Prov | references |
| MT-CYB | Septo-Optic Dysplasia | T14849C | 14849 | T-C | S-P | - | + | Prov | references |
| MT-CYB | MM | G15059A | 15059 | G-A | G-Ter | - | + | Prov | references |
| MT-CYB | Exercise Intolerance | G15084A | 15084 | G-A | W-Ter | - | + | Prov | references |
| MT-CYB | Exercise Intolerance | G15150A | 15150 | G-A | W-Ter | - | + | Prov | references |
| MT-CYB | Exercise Intolerance | G15168A | 15168 | G-A | W-Ter | - | + | Prov | references |
| MT-CYB | Exercise Intolerance | T15197C | 15197 | T-C | S-P | - | + | Prov | references |
| MT-CYB | Mitochondrial Encephalomyopathy | G15242A | 15242 | G-A | G-Ter | - | + | Prov | references |
| MT-CYB | HCM | G15243A | 15243 | G-A | G-E | - | + | Prov | references |
| MT-CYB | LHON | G15257A | 15257 | G-A | D-N | + | - | P.M.- haplogroup J2 marker | references |
| MT-CYB | Exercise Intolerance; Obesity | G15497A | 15497 | G-A | G-S | + | - | Prov | references |
| MT-CYB | Exercise Intolerance | 15498del24 | 15498 | 24 bp deletion- | GDPDNYTL-del | - | + | Prov | references |
| MT-CYB | HCM | G15498A | 15498 | G-A | G-D | - | + | Prov | references |
| MT-CYB | Multisystem Disorder | A15579G | 15579 | A-G | Y-C | - | + | Prov | references |
| MT-CYB | Exercise Intolerance; Antimycin resistance | G15615A | 15615 | G-A | G-D | - | + | Prov | references |
| MT-CYB | LHON | T15674C | 15674 | T-C | S-P | + | - | Prov | references |
| MT-CYB | Muscle Weakness | SNHL and Migraine | G15699C | 15699-G | C | R-P | - | + | references |
| MT-CYB | Exercise Intolerance | G15723A | 15723 | G-A | W-Ter | - | + | Prov | references |
| MT-CYB | MM | G15762A | 15762 | G-A | G-E | - | + | Prov | references |
| MT-CYB | LHON | G15773A | 15773 | G-A | M-T | + | - | Possibly synergistic | references |
| MT-CYB | LHON | G15812A | 15812 | G-A | V-M | + | - | Secondary | references |
| MT-DLOOP | Type 2 Diabetes; Cardiomyopathy; Endometrial cancer risk | T16189C | 16189 | T-C | noncoding | + | + | Prov | references |
| LHON | Leber Hereditary Optic Neuropathy | MM | Mitochondrial Myopathy |
| AD | Alzeimer's Disease | LIMM | Lethal Infantile Mitochondrial Myopathy |
| ADPD | Alzeimer's Disease and Parkinsons's Disease | MMC | Maternal Myopathy and Cardiomyopathy |
| NARP | Neurogenic muscle weakness, Ataxia, and Retinitis Pigmentosa; alternate phenotype at this locus is reported as Leigh Disease | FICP | Fatal Infantile Cardiomyopathy Plus, a MELAS-associated cardiomyopathy |
| MELAS | Mitochondrial Encephalomyopathy, Lactic Acidosis, and Stroke-like episodes | LDYT | Leber's hereditary optic neuropathy and DYsTonia |
| MERRF | Myoclonic Epilepsy and Ragged Red Muscle Fibers | MHCM | Maternally inherited Hypertrophic CardioMyopathy |
| CPEO | Chronic Progressive External Ophthalmoplegia | KSS | Kearns Sayre Syndrome |
| DM | Diabetes Mellitus | DMDF | Diabetes Mellitus + DeaFness |
| CIPO | Chronic Intestinal Pseudoobstruction with myopathy and Ophthalmoplegia | DEAF | Maternally inherited DEAFness or aminoglycoside-induced DEAFness |
| PEM | Progressive encephalopathy | SNHL | SensoriNeural Hearing Loss |