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. 2018 Aug 7;19:138. doi: 10.1186/s12881-018-0650-5

Table 1.

Primer sequences for PCR, fragment analysis and Sanger sequencing

c.35delG and studied markers (localization, GRCh38.p12)a Primer sequences Methods of detection
c.35delG
(GJB2)
(13:20189547)
F: 5′-GGTGAGGTTGTGTAAGAGTTGG-3′
R: 5’-CTGGTGGAGTGTTTGTTCC*CAC-3’
PCR-mediated site-directed mutagenesis (PSDM) with use of Bsc4 I
D13S141b
(13:20150320–20,150,445)
F: 5’-GTCCTCCCGGCCTAGTCTTA-3’ (6-FAM)
R: 5’-ACCACGGAGCAAAGAACAGA-3’
Fragment analysis (GeneScan 500 LIZ) on ABI 3130XL (Applied Biosystems)
D13S175b
(13:20274367–20,274,479)
F: 5’-TATTGGATACTTGAATCTGCTG-3’ (PET)
R: 5’-TGCATCACCTCACATAGGTTA-3’
D13S1853b
(13:20466607–20,466,800)
F: 5’- CAGACTGGCACAAACTTAACTG −3’ (6-FAM)
R: 5’- TGTACATCTCTTCTTACATTCATGT − 3’
rs3751385
(13:20188817)
F: 5’-GGCTGGTGAAGTGCAACG-3′
R: 5’-GTAAGCAAACAAACTTTTGAAGTAG-3’
PCR-RFLP analysis with use of Nhe I

aLocalization was taken from the Ensembl Genome browser [53]; b - Specific primer sequences for PCR amplification of microsatellites D13S141, D13S175, and D13S1853 were obtained from the Ensembl genome browser and the NCBI Probe Database [53, 54], one from each primer pairs was labeled with the fluorescent dyes