Genome-wide promoter methylation profile of human testis and epididymis: identified from cell-free seminal DNA

Wu, Chunlin; Ding, Xiaofang; Li, Honggang; Zhu, Changhong; Xiong, Chengliang

doi:10.1186/1471-2164-14-288

Table 3 The positional relationship of primer, methylation peak and transcript start site (TSS) in genes selected for validation

From: Genome-wide promoter methylation profile of human testis and epididymis: identified from cell-free seminal DNA

Gene	Gene name	GeneBank accession no.	Primer location(5′-3′)		Peak location	Strand	Position(TSS = +1)
Gene	Gene name	GeneBank accession no.	Forword	Reverse	Peak location	Strand	Forword 5′	Reverse 5′
*PRAME*	Preferentially expressed antigen in melanoma	NM_206956	chr22:21231279	chr22:21231496	chr22:21231050	-	251	54
*PRAME*	Preferentially expressed antigen in melanoma	NM_206956	−21231299	−21231479	−21231499	-	251	54
*PEG10*	Paternally expressed 10	NM_015068	chr7:94124064	chr7:94124274	chr7:94123914	+	492	702
*PEG10*	Paternally expressed 10	NM_015068	−94124086	−94124252	−94124663	+	492	702
*MORC1*	MORC family CW-type zinc finger 1	NM_014429	chr3:110319361	chr3:110319519	chr3:110319258	-	322	164
*MORC1*	MORC family CW-type zinc finger 1	NM_014429	−110319381	−110319495	−110320007	-	322	164
*GML*	Glycosylphosphatidylinositol anchored molecule like protein	NM_002066	chr8:143913400	chr8:143913599	chr8:143912618	+	182	381
*GML*	Glycosylphosphatidylinositol anchored molecule like protein	NM_002066	−143913419	−143913577	−143913667	+	182	381
*HOXA5*	Homeobox A5	NM_019102	chr7:27150841	chr7:27151029	chr7:27150312	-	−1029	−1217
*HOXA5*	Homeobox A5	NM_019102	−27150862	−27151008	−27151961	-	−1029	−1217
*DNMT3L*	DNA(cytosine-5-)- methyltransferase 3-like	NM_175867	chr21:44506322	chr21:44506560	chr21:44506027	-	205	−33
*DNMT3L*	DNA(cytosine-5-)- methyltransferase 3-like	NM_175867	−44506343	−44506540	−44508076	-	205	−33
*SNURF*	SNRPN upstream reading frame	NM_005678	chr15:22751295	chr15:22751430	chr15:22751327	+	68	203
*SNURF*	SNRPN upstream reading frame	NM_005678	−22751314	−22751410	−22751676	+	68	203
*MSH4*	MutS homolog 4	NM_002440	chr1:76035117	chr1:76035360	chr1:76035117	+	−100	143
*MSH4*	MutS homolog 4	NM_002440	−76035135	−76035338	−76035566	+	−100	143
*DAZ1*	Deleted in azoospermia 1	NM_004081	chrY:23754371	chrY:23754582	chrY:23754045	-	256	45
*DAZ1*	Deleted in azoospermia 1	NM_004081	−23754389	−23754560	−23754994	-	256	45
*CLPB*	Caseinolytic peptidase B homolog	NM_030813	chr11:71824486	chr11:71824650	chr11:71823916	-	−1270	−1434
*CLPB*	Caseinolytic peptidase B homolog	NM_030813	−71824504	−71824631	−71824774	-	−1270	−1434

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