Table 2. Custom-designed baits used for Sureselect target enrichment of 15 CRC susceptibility genes.
Chr | Genbank reference | Gene | Total target region (kb) | Chromosome | Total area covered (kb) | % of total target area | % repeated sequences | |
---|---|---|---|---|---|---|---|---|
Start | End | |||||||
1 | NM_001128425.1 | MUTYH | 19,2 | 45791914 | 45811142 | 10,7 | 56% | 33% |
2 | NM_002354.2 | EPCAM | 25,9 | 47591286 | 47617165 | 13,4 | 52% | 55% |
2 | NM_000251.2 | MSH2 | 88,1 | 47625262 | 47713360 | 26,1 | 30% | 58% |
2 | NM_000179.2 | MSH6 | 31,9 | 48005220 | 48037084 | 14,5 | 45% | 42% |
2 | NM_000534.4 | PMS1 | 101,5 | 190643810 | 190745354 | 48,4 | 48% | 41% |
3 | NM_000249.3 | MLH1 | 60,5 | 37034840 | 37095335 | 23,2 | 38% | 52% |
5 | NM_002439.4 | MSH3 | 230,3 | 79945293 | 80175633 | 80,6 | 35% | 53% |
5 | NM_000038.5 | APC | 146,7 | 112038217 | 112184935 | 60,6 | 41% | 47% |
7 | NM_000535.5 | PMS2 | 36,7 | 6012370 | 6049037 | 9,8 | 27% | 59% |
10 | NM_004329.2 | BMPR1a | 176,5 | 88511395 | 88687944 | 52,7 | 30% | 58% |
10 | NM_000314.4 | PTEN | 103,3 | 89628194 | 89731531 | 41,8 | 40% | 49% |
14 | NM_001040108.1 | MLH3 | 43,8 | 75477466 | 75521235 | 21,3 | 49% | 41% |
16 | NM_003502.3 | AXIN1 | 73 | 334439 | 407464 | 39,1 | 54% | 36% |
17 | NM_004655.3 | AXIN2 | 118,5 | 63521684 | 63640183 | 65 | 55% | 34% |
18 | NM_005359.5 | SMAD4 | 62,8 | 48551582 | 48614409 | 31,7 | 50% | 39% |
Baits were designed against 15 CRC susceptibility genes. Target region spans the entire genomic region, including 5 kb upstream and 3 kb downstream of the gene. Repeated sequences are not covered by custom-designed baits.