Criteria for effective design, construction, and gene knockdown by shRNA vectors

Taxman, Debra J; Livingstone, Laura R; Zhang, Jinghua; Conti, Brian J; Iocca, Heather A; Williams, Kristi L; Lich, John D; Ting, Jenny P-Y; Reed, William

doi:10.1186/1472-6750-6-7

BMC Biotechnology

Table 5 Previously published shRNA sequences analyzed in this study

From: Criteria for effective design, construction, and gene knockdown by shRNA vectors

accession	gene	target sequence	% knockdown	reference
[GenBank:NM_002737]	PKCalpha	GAACAACAAGGAATGACTT	90	[27]
[GenBank:NM_002738]	PKCbeta1	GGAAGCTGTGGCCATCTGC	90	[27]
[GenBank:NM_006257]	PKCtheta	TTGGATGAGGTGGATAAAA.	90	[27]
[GenBank:AY599018]	HBV1	GGAGGTTGGGGACTGCGAA	75	[28]
[GenBank:DQ207798]	HBV2	CAAGGCACAGCTTGGAGGC	61	[28]
[GenBank:DQ207798]	HBV3	CGAGGCGAGGGAGTTCTTC	63	[28]
[GenBank:NM_012029]	Ecsit	GCTGTGGTTCACCCGATTC	0	[29]
[GenBank:NM_012029]	Ecsit	GGTCACTGTCTACCAGATG	95	[29]
[GenBank:U47298]	Firefly Luciferase	GTTGGCAGAAGCTATGAAA	93	[18]
[GenBank:U47298]	Firefly Luciferase	GATTTCGAGTCGTCTTAAT	96	[18]
[GenBank:U47298]	Firefly Luciferase	GCACTCTGATTGACAAATA	93	[18]
[GenBank:U47298]	Firefly Luciferase	GACAAATACGATTTATCTA	86	[18]
[GenBank:U47298]	Firefly Luciferase	GATTATGTCCGGTTATGTA	97	[18]
[GenBank:U47298]	Firefly Luciferase	GGATGGATGGCTACATTCT	92	[18]
[GenBank:U47298]	Firefly Luciferase	GCCTGAAGTCTCTGATTAA	95	[18]
[GenBank:U47298]	Firefly Luciferase	AACATAAAGAAAGGCCCGG	0	[18]
[GenBank:U47298]	Firefly Luciferase	GTCGCTCTGCCTCATAGAA	72	[18]
[GenBank:U47298]	Firefly Luciferase	GATTTCGAGTCGTCTTAAT	98	[18]
[GenBank:U47298]	Firefly Luciferase	AATCTTGTAATCCTGAAGG	94	[18]
[GenBank:NM_001025257]	VEGF	GCTACTGCCGTCCAATTGA	26.4	[30]
[GenBank:AY500353]	VEGF	GGCGAGGCAGCTTGAGTTA	14.7	[30]
[GenBank:NM_001025250]	VEGF	AATCAGTTCGAGGAAAGGG	42.7	[30]
[GenBank:NM_000546]	p53	GTCTGTGACTTGCACGTAC	95	[31]
[GenBank:NM_000546]	p53	GCAGTCACAGCACATGACG	85	[31]
[GenBank:NM_000546]	p53	GACTCCAGTGGTAATCTAC	87	[31]
[GenBank:NM_009820]	Runx2i	CGGGCTCACGTCGCTCATC	55	[32]
[GenBank:AM075811]	HCV-38	CACTCCCCTGTGAGGAACT	28	[33]
[GenBank:AM075811]	HCV-56	TACTGTCTTCACGCAGAAA	38	[33]
[GenBank:AM075811]	HCV-71	GAAAGCGTCTAGCCATGGC	0	[33]
[GenBank:AM075811]	HCV-138	CCATAGTGGTCTGCGGAAC	92	[33]
[GenBank:AM075811]	HCV-156	CCGGTGAGTACACCGGAAT	28	[33]
[GenBank:AM075811]	HCV-174	TTGCCAGGACGACCGGGTC	0	[33]
[GenBank:AM075811]	HCV-279	CCTTGTGGTACTGCCTGAT	76	[33]
[GenBank:AM075811]	HCV-301	GTGCTTGCGAGTGCCCCGG	49	[33]
[GenBank:AM075811]	HCV-321	AGGTCTCGTAGACCGTGCA	94	[33]
[GenBank:AM075811]	HCV-334	CGTGCACCATGAGCACGAA	91	[33]
[GenBank:AM075811]	HCV-360	CCTCAAAGAAAAACCAAAC	91	[33]
[GenBank:AM075811]	HCV-5879	GGTGCTTGTGGATATTTTG	68	[33]

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