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. 2013 Mar 14;8(3):e57925. doi: 10.1371/journal.pone.0057925

Table 2. Information about the MYH9 non-coding SNPs and the non-synonymous APOL1 SNPs, genotyped in this study.

SNP Risk haplotype Forward primer Reverse primer Tm (°C) Restriction enzyme Cleavage products (bp) Known associations in Caucasian populations
MYH9 rs4821481 (T/C) E1 GAAGAGTACCCCGTATCTCAACAC AGCATGAGGGCTTCTGCTTAACT 65 BfaI 132+115 (T allele) 1. Non-diabetic ESKD in Hispanic Americans [26] 2. Diabetic nephropathy in European Americans [33]
MYH9 rs4821480 (T/G) E1 CTCATGCTTGTTCTTGAGCTTG AGAACAGAAAGCAAGGAGAGCAG 66 DraI 261+291 (T allele) 1. Non-diabetic ESKD in Hispanic Americans [26] 2. Diabetic nephropathy in European Americans [33] 3. Non-diabetic CKD in European Americans [33]
MYH9 rs2413396 * (T/C) S1 CCAGCACCTCCCCGTGA GTGGAGAAGGTGATGCAGGAG 65 HaeII 109+21 (C allele) 1. Non-diabetic ESKD in Hispanic Americans [33]
MYH9 rs11089788 (C/A) No strong LD (<0.3) with any neighboring SNPs, according to HapMap data GATGTCCCATCCAATTGTTTTC GATTATGGCCTAAAAAGGCAACTG 59 BslI 230+158 (C allele) 1. Association with serum creatinine levels in three Caucasian populations [33]
APOL1 E149K - CTGGTTTCTGAAAGAGTTTCCTCGGTTGAAAATT ** GCTGTGATTCCCAACTCCATCCCAGGTTCCAA 60 MseI 207+33 (K allele) -
APOL1 M227I - CGTATTAGTCAGGATGGTCTCAATC AAAGTTGGATATGTTCTCACCCAAA 65 BtgI 505+115 (M allele) -
APOL1 R254K - CTGGTCATCAAAAGCCTTGACAAATTGAAGGAGGTTA ** ATTAACCCTCTCCACCTGTTCACCGCTTTCAGCTG 67 MseI 201+35+4 (K allele) -
*

Genotyping of rs2413396 was performed according to [27].

**

Modified nucleotides for creating restriction sites are in bold and underlined.