| SNP Names | Position relative to the gene | Position on the Vista Plot | Conserved noncoding? |
| ABCA1.2213 | 5' flank | 2213 | Yes |
| ABCA1.13944 | 5' flank | 13944 | Yes |
| ABCA1.75814 | intron 3 | 75814 | No |
| ABCA1.79074 | intron 5 | 79074 | No |
| ABCA1.101100 |
exon 6, synonymous CTG (Leu) or CTA (Leu) |
101100 | No |
| ABCA1.101379 | intron 6 | 101379 | No |
| ABCA1.103991 | intron 6 | 103991 | No |
| ABCA1.104264 |
exon 7, non-synonymous AGG (Arg) or AAG (Lys) |
104264 | No |
| ABCA1.131949 | intron 14 | 131949 | No |
| ABCA1.133855 |
exon 15, synonymous ATC (Ile) or ATA (Ile) |
133855 | No |
| ABCA1.138374 |
exon 18, non-synonymous ATA (Ile) or ATG (Met) |
138374 | No |
| ABCA1.149037 | intron 27 | 149037 | No |
| ABCA1.162478 |
exon 35, non-synonymous AGA (Arg) or AAA (Lys) |
162478 | No |
| ABCA1.174657 | intron 45 | 174657 | No |
| ABCA1.185540 | 3' flank | 185540 | No |