A method for accurate detection of genomic microdeletions using real-time quantitative PCR

BMC Genomics

Table 1 Sequence and parameters of the reference and 22q11.2 test primer sets. Ten sets of primers were designed from within regions of unique sequence on 22q11.2 using Primer Express v2.0. In addition, two sets of reference primer for G6PDH and HEM3 were also designed to allow for data correction.

Primer Sets	No.	Primer Name	Primer Sequence	Chr.	Genomic Location of Amplicon	Amplicon Size (bp)	Cycle Treshold	Slope	R2
Reference	1	G6PDH-F	TCTTCATCACCACAGAGAACTTGC	1	9033513–9033733	221	0.2	-3.2968	0.9980
		G6PDH-R	GACCTGGAAGTCACTGGGCA
	2	HEM3-F	TGCACGGCAGCTTAACGAT	11	118501618–118501818	202	0.2	-3.3998	0.9981
		HEM3-R	AGGCAAGGCAGTCATCAAGG
Test	1	D22S181-F	CAGCTCCCAAGTCTTTCCAGC	22	16968759–16968859	101	0.2	-3.4141	0.9986
		D22S182-R	CCAGGGTAGGAAACAGGTCGA
	2	PRODH-F	GGGAAAGGAGAGTTCAGGCAG	22	17293217–17293317	101	0.2	-3.5102	0.9992
		PRODH-R	GCTTGTTGAATAGCCTCTGTCCTAG
	3	TUPLE1-F	GGCAAGTGCAATATTCATGTGGT	22	17763150–17763250	101	0.2	-3.2564	0.9996
		TUPLE1-R	TCCTACACGCCTGACAAAGCT
	4	COMT-F	GTGCTACTGGCTGACAACGTGAT	22	18330640–18330739	100	0.2	-3.5876	0.9928
		COMT-R	GGAACGATTGGTAGTGTGTGCA
	5	ZNF74-F	TGGCCTCCTGCTTCTTTCTTC	22	19073892–19073992	101	0.2	-3.2263	0.9960
		ZNF74-R	CAGACACTCCAATTCATGACGAA
	6	PIK4CA-F	ATGCTTGTGCGACGCAGAC	22	19429805–19429905	101	0.06	-3.0238	0.9958
		PIK4CA-R	CCTCAGCCATGTTGACTCAGC
	7	LZTR1-F	TCATCATGGATGTGTACAAACTGG	22	19673422–19673524	103	0.2	-3.2416	0.9977
		LZTR1-R	AGCACGTTCTGCAGGTCCAC
	8	CAT4-F	TACCTGGGCTTCTTGGATGG	22	19708684–19708784	101	0.2	-3.4394	0.9986
		CAT4-R	AAGACAAGCACGCAGCCTATG
	9	D22S936-F	TGGCAGCCAGTTTAGTATTCTGC	22	19777314–19777414	101	0.2	-3.1972	0.9960
		D22S936-R	TTGTAATCAAGTCCCGCCACT
	10	VPREB1-F	CGACCATGACATCGGTGTGT	22	20924000–20924102	103	0.2	-3.2923	0.9972
		VPREB1-R	CTGGCTCTTGTCTGATTGTGAGA

ISSN: 1471-2164