From: The effects of stem length and core placement on shRNA activity
cnt | Hairpin | Target sequence covered (sense) a, b, c |
---|---|---|
16 | Tat56 (15 - 41) d | A AACUGCUUGUACC A15AU U18G19C20U21A22U23U24G25U26A27A28A29gAG U33GUUG37CUUU41 |
6 | Vpu10 (19 - 29) | A UAAUAGUAGCAAUAGUAG19CA21UU23AG25UA27GU29 |
6 | Vpu51 (19 - 29) | A GCAAUAGUUGUGUGGUCC19AU21AG23UA25AU27CA29 |
6 | Vpu127 (19 - 29) | G AUAGACUAAUAGAAAGAG19CA21GA23AG25AC27AG29 |
8 | Vpu158 (17 - 29) | G CAAUGAGAGUGAAGGA17G18A19AG21UA23UC25AG27CA29 |
2 | Tat3 (21, 29) | G GAGCCAGUAGAUCCUAGACU21AGAGCCCU29 |
4 | Tat22/24 (21. 29) | C UA GAGCCCUGGAAGCAUCCU21GG21AAGUCA29GC29 |
2 | Tat94 (21, 29) | U UUCAUUGCCAAGUUUGUUUC21AUAACAAA29 |
2 | Tat144 (21, 29) | G CAGGAAGAAGCGGAGACAGC21GACGAAGA29 |
2 | Tat165 (21, 29) | G ACGAAGAGCUCAUCAGAACA21GUCAGACU29 |
4 | Tat181/187 (21, 29) | A ACAGUC AGACUCAUCAAGCU21UCUCUA21UCA29AAGCA29 |
5 | (Tat56) 19+10 to 27+2 | AAACUGCUUGUACCAAUUG19- {gauaacauuu+10 | CU21uaacauuu+8 | CUAU23acauuu+6 | CUAUUG25auuu+4 | CUAUUGUA27uu+2} |
5 | (Tat56) 10+19 to 2+27 | {uuugacgaac10+ | uuugacga8+UG | uuugac6+CUUG | uuug4+UGCUUG | uu2+ACUGCUUG} -U11ACCAAUUGCUA UUGUAAA29 |
1 | Tat59 21 | C UGCUUGUACCAAUUGCUA UU21 |
9 | (Tat59) 0-21-8 to 8-21-0 | {_0 | u1 | uu2 | uuu3 | guuu4 | aguuu5 | gaguuu6 | ggaguuu7 | cggaguuu8} -CUGCUUGUACCAAUUGCUA UU(Tat59-21)- {cauuuggc8 | cauuugg7 | cauuug6 | cauuu5 | cauu4 | cau3 | ca2 | c1 | _0} |
6 | (Tat56) 23+6 {v2 - v7} | A AACUGCUUGUACCAAUUGCUA U23- { ggggggv2 | ccccccv3 | auauauv4 | gcgcgcv5 | gacuguv6 | acagucv7 } |
8 | (Tat56) 23+1 to 23+18 e | A AACUGCUUGUACCAAUUGCUA U23- {a24c25a26t27t28tgtca33aacg37aaag41} |
92 | Â | Â |