From: Major influence of repetitive elements on disease-associated copy number variants (CNVs)
Phenotype | Critical genes | Type of variant | Locus | Repetitive elements involved | Ref. |
---|---|---|---|---|---|
Peutz-Jeghers syndrome | STK11 | Del | 19p13.3 | Several AluY/AluY pairs | [23] |
Spastic paraplegia 4 | SPAST, SLC30A6 | Dup/Del | 2p22.3 | Several Alu pairs | [25] |
OTC deficiency | OTC | Del | Xp11.4 | AluSx/AluSq pair | |
Miller-Dieker syndrome and 17p13.3 duplication syndrome | LIS1 | Del | 17p13.3 | Several Alu pairs | |
Breast cancer | BRCA1 | Del | 17q21.31 | AluSx/AluSc pair | |
Autosomal dominant adult-onset demyelinating leukodystrophy (ADLD) | LMNB1 | Dup/Trip | 5q23.2 | LIPA3 LINE repeats | [26] |
AluYA/AluYB pair | |||||
Azoospermia | AZFa | Del | Yq11 | HERV15 A/B proviruses | |
Mental retardation, X-linked 60 (MRX60) | OPHN1 | Del | Xq12 | AluY/AluY pair | [35] |
Pelizaeus-Merzbacher disease | PLP1 | Del | Xq22 | AluSq/AluSx pair | |
DiGeorge syndrome/velo-cardio facial syndrome | COMT, TBX1 | Del | 22q11.2 | Unclassified Alu/Alu pair | |
Charcot-Marie-Tooth type 1A | PMP22 | Dup | 17p12 | AluY/AluY pair | [39] |
AluSg/AluSg pair | |||||
Williams-Beuren syndrome | 28 dosage-sensitive genes | Dup/Del | 7q11.23 | AluS subfamily elements | [36] |
Parkinson’s disease | SNCA | Dup/Trip | 4q21 | Several Alu pairs | [32] |