Team:Heidelberg/Notebook/Material/Primer

From 2010.igem.org

(Difference between revisions)
(→Primer Table)
(→Standart Kit Cloning Primers)
Line 116: Line 116:
!align="right"| ID !! Name !! Sequence (5' to 3') !! amplified !! origin !! for backbone
!align="right"| ID !! Name !! Sequence (5' to 3') !! amplified !! origin !! for backbone
|-
|-
-
|align="right"| D001 || backbone_AvrII_fw || ttttcctaggtagcggcgcattaagcgcgg || -|| - | - || - | -  
+
|align="right"| D001 || backbone_AvrII_fw || ttttcctaggtagcggcgcattaagcgcgg || - || - | - || - | -  
|-
|-
-
|align="right"| D002 || backbone_AvrII_rev || ttttcctaggcttgttgtagcttaaattttg  || -|| - | - || - | -  
+
|align="right"| D002 || backbone_AvrII_rev || ttttcctaggcttgttgtagcttaaattttg  || - || - | - || - | -  
|-
|-
-
|align="right"| D003 || backbone_ClaI_fw || ttttatcgattagcggcgcattaagcgcgg  || -|| - | - || - | -  
+
|align="right"| D003 || backbone_ClaI_fw || ttttatcgattagcggcgcattaagcgcgg  || - || - | - || - | -  
|-
|-
-
|align="right"| D004 ||  backbone_XhoI_rev || ttttctcgagcttgttgtagcttaaattttg  || -|| - | - || - | -  
+
|align="right"| D004 ||  backbone_XhoI_rev || ttttctcgagcttgttgtagcttaaattttg  || - || - | - || - | -  
|-
|-
-
|align="right"| D005 || BBB_Oligo_XhoI || ccggActgcagcggccgcgcgctagcacactagtgcggccgcgaattCa  || -|| - | - || - | -  
+
|align="right"| D005 || BBB_Oligo_XhoI || ccggActgcagcggccgcgcgctagcacactagtgcggccgcgaattCa  || - || - | - || - | -  
|-
|-
-
|align="right"| D006 || BBB_Oligo_XmaI || tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt  || -|| - | - || - | -  
+
|align="right"| D006 || BBB_Oligo_XmaI || tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt  || - || - | - || - | -  
|-
|-
-
|align="right"| D007 || BBB_Oligo_XmaI || tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt  || -|| - | - || - | -  
+
|align="right"| D007 || BBB_Oligo_XmaI || tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt  || - || - | - || - | -  
|-
|-
-
|align="right"| D008 || BBB_suffix_reverse || aaaactgcagcggccgcgc || -|| - | - || - | -  
+
|align="right"| D008 || BBB_suffix_reverse || aaaactgcagcggccgcgc || - || - | - || - | -  
|-
|-
-
|align="right"| D009 || BGH_pA_BamHI_rc_fw || ttttgaattcgcggccgcactagtggatccccatagagcccaccgcatccc || -|| - | - || - | -  
+
|align="right"| D009 || BGH_pA_BamHI_rc_fw || ttttgaattcgcggccgcactagtggatccccatagagcccaccgcatccc || - || - | - || - | -  
|-
|-
-
|align="right"| D010 || BGH_pA_fw || ttttgaattcgcggccgcactagttttaaacccgctgatcagcc  || -|| - | - || - | -  
+
|align="right"| D010 || BGH_pA_fw || ttttgaattcgcggccgcactagttttaaacccgctgatcagcc  || - || - | - || - | -  
|-
|-
-
|align="right"| D011 || BGH_pA_rev || ttttctgcagcggccgcgctagcccatagagcccaccgcatccc  || -|| - | - || - | -  
+
|align="right"| D011 || BGH_pA_rev || ttttctgcagcggccgcgctagcccatagagcccaccgcatccc  || - || - | - || - | -  
|-
|-
-
|align="right"| D012 || BGH_pA_rc_rev || ttttctgcagcggccgcgctagctttaaacccgctgatcagcc || -|| - | - || - | -  
+
|align="right"| D012 || BGH_pA_rc_rev || ttttctgcagcggccgcgctagctttaaacccgctgatcagcc || - || - | - || - | -  
|-
|-
-
|align="right"| D013 || biCMV_BBB_fw || ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg || -|| - | - || - | -  
+
|align="right"| D013 || biCMV_BBB_fw || ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg || - || - | - || - | -  
|-
|-
-
|align="right"| D014 || biCMV_BBB_fw || ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg || -|| - | - || - | -  
+
|align="right"| D014 || biCMV_BBB_fw || ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg || - || - | - || - | -  
|-
|-
-
|align="right"| D015 || biCMV_BBB_rev || ttttctgcagcggccgcgcgctagcacagcggatctgacggttcac || -|| - | - || - | -  
+
|align="right"| D015 || biCMV_BBB_rev || ttttctgcagcggccgcgcgctagcacagcggatctgacggttcac || - || - | - || - | -  
|-
|-
-
|align="right"| D016 || biCMV_rc_BBB_fw || ttttgaattcgcggccgcactagtagcggatctgacggttcac || -|| - | - || - | -  
+
|align="right"| D016 || biCMV_rc_BBB_fw || ttttgaattcgcggccgcactagtagcggatctgacggttcac || - || - | - || - | -  
|-
|-
-
|align="right"| D017 || biCMV_rc_BBB_rev || ttttctgcagcggccgcgctagcgcgatctgacggttcac || -|| - | - || - | -  
+
|align="right"| D017 || biCMV_rc_BBB_rev || ttttctgcagcggccgcgctagcgcgatctgacggttcac || - || - | - || - | -  
|-
|-
-
|align="right"| D018 || CMV_BBB_BamHI_fw || gaattcgcggccgcactagtggatcccgatgtacgggccagatatacg  || -|| - | - || - | -  
+
|align="right"| D018 || CMV_BBB_BamHI_fw || gaattcgcggccgcactagtggatcccgatgtacgggccagatatacg  || - || - | - || - | -  
|-
|-
-
|align="right"| D019 || CMV_BBB_fw || ttttgaattcgcggccgcactagtcgatgtacgggccagatatacg || -|| - | - || - | -  
+
|align="right"| D019 || CMV_BBB_fw || ttttgaattcgcggccgcactagtcgatgtacgggccagatatacg || - || - | - || - | -  
|-
|-
-
|align="right"| D020 || CMV_BBB_rev || ttttctgcagcggccgcgcgctagcacatttcgataagccagtaagc || -|| - | - || - | -  
+
|align="right"| D020 || CMV_BBB_rev || ttttctgcagcggccgcgcgctagcacatttcgataagccagtaagc || - || - | - || - | -  
|-
|-
-
|align="right"| D021 || CMV_Teto2_BBB_fw || tttt gaattcgcggccgcactagtgttgacattgattattgtctag || -|| - | - || - | -  
+
|align="right"| D021 || CMV_Teto2_BBB_fw || tttt gaattcgcggccgcactagtgttgacattgattattgtctag || - || - | - || - | -  
|-
|-
-
|align="right"| D022 || CMV_TetO2_BBB_rev || tttt ctgcagcggccgcgcgctagcaccggaggctggatcggtc || -|| - | - || - | -  
+
|align="right"| D022 || CMV_TetO2_BBB_rev || tttt ctgcagcggccgcgcgctagcaccggaggctggatcggtc || - || - | - || - | -  
|-
|-
-
|align="right"| D023 || CMV_rc_BBB_fw || ttttgaattcgcggccgcactagtatttcgataagccagtaagc  || -|| - | - || - | -  
+
|align="right"| D023 || CMV_rc_BBB_fw || ttttgaattcgcggccgcactagtatttcgataagccagtaagc  || - || - | - || - | -  
|-
|-
-
|align="right"| D024 || CMV_rc_BBB_rev || ttttctgcagcggccgcgctagccgatgtacgggccagatatacg  || -|| - | - || - | -  
+
|align="right"| D024 || CMV_rc_BBB_rev || ttttctgcagcggccgcgctagccgatgtacgggccagatatacg  || - || - | - || - | -  
|-
|-
-
|align="right"| D025 || FRT_rev || ctgcagcggccgcgctagcccaaggaagttcctatactttc || -|| - | - || - | -  
+
|align="right"| D025 || FRT_rev || ctgcagcggccgcgctagcccaaggaagttcctatactttc || - || - | - || - | -  
|-
|-
-
|align="right"| D026 || FRT_rev || gaattcgcggccgcactagtttctcgccacgttcgccggc || -|| - | - || - | -  
+
|align="right"| D026 || FRT_rev || gaattcgcggccgcactagtttctcgccacgttcgccggc || - || - | - || - | -  
|-
|-
-
|align="right"| D027 || hRluc_ter_BBB_fw || ttttgaattcgcggccgcactagtatggcttccaaggtgtacgac || -|| - | - || - | -  
+
|align="right"| D027 || hRluc_ter_BBB_fw || ttttgaattcgcggccgcactagtatggcttccaaggtgtacgac || - || - | - || - | -  
|-
|-
-
|align="right"| D028 || hRluc_ter_BBB_rev || ttttctgcagcggccgcgctagcttactgctcgttcttcagcacgc || -|| - | - || - | -  
+
|align="right"| D028 || hRluc_ter_BBB_rev || ttttctgcagcggccgcgctagcttactgctcgttcttcagcacgc || - || - | - || - | -  
|-
|-
-
|align="right"| D029 || hsa-mir-122_BBB(perf) || ttttgaattcgcggccgcactagtcaaacaccattgtcacactccagctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D029 || hsa-mir-122_BBB(perf) || ttttgaattcgcggccgcactagtcaaacaccattgtcacactccagctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D030 || hsa-mir-122_BBB(rand9-12) || ttttgaattcgcggccgcactagtcaaacaccatnnnnacactccagctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D030 || hsa-mir-122_BBB(rand9-12) || ttttgaattcgcggccgcactagtcaaacaccatnnnnacactccagctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D031 || hsa-mir-122_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnacactccagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D031 || hsa-mir-122_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnacactccagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D032 || hsa-mir-122_Sgf_Not(perf) || ttttgcgatcgccaaacaccattgtcacactccagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D032 || hsa-mir-122_Sgf_Not(perf) || ttttgcgatcgccaaacaccattgtcacactccagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D033 || hsa-mir-122_Sgf_Not(rand9-12) || ttttgcgatcgccaaacaccatnnnnacactccagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D033 || hsa-mir-122_Sgf_Not(rand9-12) || ttttgcgatcgccaaacaccatnnnnacactccagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D034 || hsa-mir-122_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnnnacactccagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D034 || hsa-mir-122_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnnnacactccagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D035 || hsa-mir-375_BBB(perf) || ttttgaattcgcggccgcactagttcacgcgagccgaacgaacaaagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D035 || hsa-mir-375_BBB(perf) || ttttgaattcgcggccgcactagttcacgcgagccgaacgaacaaagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D036 || hsa-mir-375_BBB(rand9-12) || ttttgaattcgcggccgcactagttcacgcgagcnnnncgaacaaagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D036 || hsa-mir-375_BBB(rand9-12) || ttttgaattcgcggccgcactagttcacgcgagcnnnncgaacaaagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D037 || hsa-mir-375_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgaacaaagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D037 || hsa-mir-375_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgaacaaagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D038 || hsa-mir-375_Sgf_Not(perf) || ttttgcgatcgctcacgcgagccgaacgaacaaagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D038 || hsa-mir-375_Sgf_Not(perf) || ttttgcgatcgctcacgcgagccgaacgaacaaagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D039 || hsa-mir-375_Sgf_Not(rand9-12) || ttttgcgatcgctcacgcgagcnnnncgaacaaagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D039 || hsa-mir-375_Sgf_Not(rand9-12) || ttttgcgatcgctcacgcgagcnnnncgaacaaagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D040 || hsa-mir-375_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnnncgaacaaagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D040 || hsa-mir-375_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnnncgaacaaagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D041 || hsa-mir-376a_BBB(perf) || ttttgaattcgcggccgcactagtacgtggattttcctctatgatgctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D041 || hsa-mir-376a_BBB(perf) || ttttgaattcgcggccgcactagtacgtggattttcctctatgatgctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D042 || hsa-mir-376a_BBB(rand9-12) || ttttgaattcgcggccgcactagtacgtggattnnnntctatgatgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D042 || hsa-mir-376a_BBB(rand9-12) || ttttgaattcgcggccgcactagtacgtggattnnnntctatgatgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D043 || hsa-mir-376a_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnntctatgatgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D043 || hsa-mir-376a_BBB(rand9-22) || ttttgaattcgcggccgcactagtnnnnnnnnnnnnntctatgatgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D044 || hsa-mir-376a_Sgf_Not(perf) || ttttgcgatcgcacgtggattttcctctatgatgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D044 || hsa-mir-376a_Sgf_Not(perf) || ttttgcgatcgcacgtggattttcctctatgatgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D045 || hsa-mir-376a_Sgf_Not(rand9-12) || ttttgcgatcgcacgtggattnnnntctatgatgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D045 || hsa-mir-376a_Sgf_Not(rand9-12) || ttttgcgatcgcacgtggattnnnntctatgatgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D046 || hsa-mir-376a_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnntctatgatgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D046 || hsa-mir-376a_Sgf_Not(rand9-22) || ttttgcgatcgcnnnnnnnnnnnnntctatgatgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D047 || igem20100723_01 || tgccacctgacgtctaagaa  || -|| - | - || - | -  
+
|align="right"| D047 || igem20100723_01 || tgccacctgacgtctaagaa  || - || - | - || - | -  
|-
|-
-
|align="right"| D048 || igem20100723_02 || attaccgcctttgagtgagc  || -|| - | - || - | -  
+
|align="right"| D048 || igem20100723_02 || attaccgcctttgagtgagc  || - || - | - || - | -  
|-
|-
-
|align="right"| D049 || Luc2_ter_BamHI_BBB_rev || ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac || -|| - | - || - | -  
+
|align="right"| D049 || Luc2_ter_BamHI_BBB_rev || ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac || - || - | - || - | -  
|-
|-
-
|align="right"| D050 || Luc2_ter_BamHI_BBB_rev || ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac || -|| - | - || - | -  
+
|align="right"| D050 || Luc2_ter_BamHI_BBB_rev || ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac || - || - | - || - | -  
|-
|-
|align="right"| D051 || Luc2_ter_BBB_fw || ttttgaattcgcggccgcactagtgccaccatggaagatgcc || -|| - | - || - | -  
|align="right"| D051 || Luc2_ter_BBB_fw || ttttgaattcgcggccgcactagtgccaccatggaagatgcc || -|| - | - || - | -  
|-
|-
-
|align="right"| D052 || mir122_miMeasure_screen_fev || ccgcgctagctggagtgt || -|| - | - || - | -  
+
|align="right"| D052 || mir122_miMeasure_screen_fev || ccgcgctagctggagtgt || - || - | - || - | -  
|-
|-
-
|align="right"| D053 || Oligo_Xba_mut_fw || ctagcctcgagttctgaccgccccgggg || -|| - | - || - | -  
+
|align="right"| D053 || Oligo_Xba_mut_fw || ctagcctcgagttctgaccgccccgggg || - || - | - || - | -  
|-
|-
-
|align="right"| D054 || Oligo_Xba_mut_rev || ctagccccggggcggtcagaactcgagg  || -|| - | - || - | -  
+
|align="right"| D054 || Oligo_Xba_mut_rev || ctagccccggggcggtcagaactcgagg  || - || - | - || - | -  
|-
|-
-
|align="right"| D055 || pSMB_miMeasure_Screen_fw || gcacaagctggagtacaactac || -|| - | - || - | -  
+
|align="right"| D055 || pSMB_miMeasure_Screen_fw || gcacaagctggagtacaactac || - || - | - || - | -  
|-
|-
-
|align="right"| D056 || pSMB_miMeasure_Screen_rev || ggtttcccgactggaaagcg || -|| - | - || - | -  
+
|align="right"| D056 || pSMB_miMeasure_Screen_rev || ggtttcccgactggaaagcg || - || - | - || - | -  
|-
|-
-
|align="right"| D057 || RSV_fw || ttttgaattcgcggccgcactagtcaattctcatgtttgacagc || -|| - | - || - | -  
+
|align="right"| D057 || RSV_fw || ttttgaattcgcggccgcactagtcaattctcatgtttgacagc || - || - | - || - | -  
|-
|-
-
|align="right"| D058 || RSV_rev || ttttctgcagcggccgcgctagccagcttggaggtgcacacc || -|| - | - || - | -  
+
|align="right"| D058 || RSV_rev || ttttctgcagcggccgcgctagccagcttggaggtgcacacc || - || - | - || - | -  
|-
|-
-
|align="right"| D059 || RSV_rc_fw || ttttgaattcgcggccgcactagtcagcttggaggtgcacacc || -|| - | - || - | -  
+
|align="right"| D059 || RSV_rc_fw || ttttgaattcgcggccgcactagtcagcttggaggtgcacacc || - || - | - || - | -  
|-
|-
-
|align="right"| D060 || RSV_rc_rev || ttttctgcagcggccgcgctagccaattctcatgtttgacagc || -|| - | - || - | -  
+
|align="right"| D060 || RSV_rc_rev || ttttctgcagcggccgcgctagccaattctcatgtttgacagc || - || - | - || - | -  
|-
|-
-
|align="right"| D061 || RSV_fw_midcomp || cgaaccactgaataccgcattgcag || -|| - | - || - | -  
+
|align="right"| D061 || RSV_fw_midcomp || cgaaccactgaataccgcattgcag || - || - | - || - | -  
|-
|-
-
|align="right"| D062 || RSV_rev_midcomp || ctgcaatgcggtattcagtggttcg || -|| - | - || - | -  
+
|align="right"| D062 || RSV_rev_midcomp || ctgcaatgcggtattcagtggttcg || - || - | - || - | -  
|-
|-
-
|align="right"| D063 || SB-prep-3P || gccgctgcagtccggcaaaaaaacg || -|| - | - || - | -  
+
|align="right"| D063 || SB-prep-3P || gccgctgcagtccggcaaaaaaacg || - || - | - || - | -  
|-
|-
-
|align="right"| D064 || SB-prep-2Ea || atgaattccagaaatcatccttagcg || -|| - | - || - | -  
+
|align="right"| D064 || SB-prep-2Ea || atgaattccagaaatcatccttagcg || - || - | - || - | -  
|-
|-
-
|align="right"| D065 || second_strand_notI || agttgtgacatagcggccgc || -|| - | - || - | -  
+
|align="right"| D065 || second_strand_notI || agttgtgacatagcggccgc || - || - | - || - | -  
|-
|-
-
|align="right"| D066 || shRNA-6th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgtcaatagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D066 || shRNA-6th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgtcaatagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D067 || shRNA-7th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnntcaatagagctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D067 || shRNA-7th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnntcaatagagctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D068 || shRNA-8th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctgatgtgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D068 || shRNA-8th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctgatgtgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D069 || shRNA-9th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnctagtttagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D069 || shRNA-9th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnctagtttagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D070 || shRNA-10th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctataatgctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D070 || shRNA-10th-bs(custom)_BBB || ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctataatgctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D071 || shRNA-6th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcgcaacctcactgccgtcaatagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D071 || shRNA-6th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcgcaacctcactgccgtcaatagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D072 || shRNA-7th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcaacctcactgccgtcaatagagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D072 || shRNA-7th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcaacctcactgccgtcaatagagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D073 || shRNA-8th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcaacgacgtatttggctgatgtgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D073 || shRNA-8th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcaacgacgtatttggctgatgtgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D074 || shRNA-9th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcgcgacatagcgacctagtttagctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D074 || shRNA-9th-bs(perf)_BBB || ttttgaattcgcggccgcactagtcgcgacatagcgacctagtttagctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D075 || shRNA-10th-bs(perf)_BBB || ttttgaattcgcggccgcactagtctgtggtgccggtggctataatgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D075 || shRNA-10th-bs(perf)_BBB || ttttgaattcgcggccgcactagtctgtggtgccggtggctataatgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D076 || shRNA-6th-bs(rand9-12)_BBB || gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D076 || shRNA-6th-bs(rand9-12)_BBB || gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D077 || shRNA-7th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcaacctcactnnnntcaatagagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D077 || shRNA-7th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcaacctcactnnnntcaatagagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D078 || shRNA-8th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcaacgacgtannnngctgatgtgctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D078 || shRNA-8th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcaacgacgtannnngctgatgtgctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D079 || shRNA-9th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcgcgacatagnnnnctagtttagctagcgcggccgctgcagtttt || -|| - | - || - | -  
+
|align="right"| D079 || shRNA-9th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtcgcgacatagnnnnctagtttagctagcgcggccgctgcagtttt || - || - | - || - | -  
|-
|-
-
|align="right"| D080 || shRNA-10th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtctgtggtgccnnnngctataatgctagcgcggccgctgcagtttt  || -|| - | - || - | -  
+
|align="right"| D080 || shRNA-10th-bs(rand9-12)_BBB || ttttgaattcgcggccgcactagtctgtggtgccnnnngctataatgctagcgcggccgctgcagtttt  || - || - | - || - | -  
|-
|-
-
|align="right"| D081 || shRNA-6th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnncgtcaatagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D081 || shRNA-6th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnncgtcaatagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D082 || shRNA-7th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnntcaatagagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D082 || shRNA-7th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnntcaatagagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D083 || shRNA-8th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnngctgatgtgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D083 || shRNA-8th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnngctgatgtgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D084 || shRNA-9th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnnctagtttagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D084 || shRNA-9th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnnctagtttagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D085 || shRNA-10th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnngctataatgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D085 || shRNA-10th-bs(custom)_SgfI_NotI || gcgatcgcnnnnnnnnnnnnnngctataatgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D086 || shRNA-6th-bs(perf)_SgfI_NotI || gcgatcgccgcaacctcactgccgtcaatagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D086 || shRNA-6th-bs(perf)_SgfI_NotI || gcgatcgccgcaacctcactgccgtcaatagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D087 || shRNA-7th-bs(perf)_SgfI_NotI || gcgatcgccaacctcactgccgtcaatagagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D087 || shRNA-7th-bs(perf)_SgfI_NotI || gcgatcgccaacctcactgccgtcaatagagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D088 || shRNA-8th-bs(perf)_SgfI_NotI || gcgatcgccaacgacgtatttggctgatgtgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D088 || shRNA-8th-bs(perf)_SgfI_NotI || gcgatcgccaacgacgtatttggctgatgtgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D089 || shRNA-9th-bs(perf)_SgfI_NotI || gcgatcgccgcgacatagcgacctagtttagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D089 || shRNA-9th-bs(perf)_SgfI_NotI || gcgatcgccgcgacatagcgacctagtttagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D090 || shRNA-10th-bs(perf)_SgfI_NotI || gcgatcgcctgtggtgccggtggctataatgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D090 || shRNA-10th-bs(perf)_SgfI_NotI || gcgatcgcctgtggtgccggtggctataatgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D091 || shRNA-6th-bs(rand9-12)_SgfI_NotI || gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D091 || shRNA-6th-bs(rand9-12)_SgfI_NotI || gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D092 || shRNA-7th-bs(rand9-12)_SgfI_NotI || gcgatcgccaacctcactnnnntcaatagagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D092 || shRNA-7th-bs(rand9-12)_SgfI_NotI || gcgatcgccaacctcactnnnntcaatagagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D093 || shRNA-8th-bs(rand9-12)_SgfI_NotI || gcgatcgccaacgacgtannnngctgatgtgcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D093 || shRNA-8th-bs(rand9-12)_SgfI_NotI || gcgatcgccaacgacgtannnngctgatgtgcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
-
|align="right"| D094 || shRNA-9th-bs(rand9-12)_SgfI_NotI || gcgatcgccgcgacatagnnnnctagtttagcggccgctatgtcacaact || -|| - | - || - | -  
+
|align="right"| D094 || shRNA-9th-bs(rand9-12)_SgfI_NotI || gcgatcgccgcgacatagnnnnctagtttagcggccgctatgtcacaact || - || - | - || - | -  
|-
|-
|align="right"| D095 || shRNA-10th-bs(rand9-12)_SgfI_NotI || gcgatcgcctgtggtgccnnnngctataatgcggccgctatgtcacaact || -|| - | - || - | -  
|align="right"| D095 || shRNA-10th-bs(rand9-12)_SgfI_NotI || gcgatcgcctgtggtgccnnnngctataatgcggccgctatgtcacaact || -|| - | - || - | -  
|-
|-
-
|align="right"| D096 || shRNA_AflII_BBB_fw || ttttctgcagcggccgcgcgctagccttaagtggaggtgaagttaacaccttcgtg || -|| - | - || - | -  
+
|align="right"| D096 || shRNA_AflII_BBB_fw || ttttctgcagcggccgcgcgctagccttaagtggaggtgaagttaacaccttcgtg || - || - | - || - | -  
|-
|-
-
|align="right"| D097 || shRNA_HindIII_BBB_rev || ttttgaattcgcggccgcactagtaagcttaagcaaacgatgccaagacatttatcg || -|| - | - || - | -  
+
|align="right"| D097 || shRNA_HindIII_BBB_rev || ttttgaattcgcggccgcactagtaagcttaagcaaacgatgccaagacatttatcg || - || - | - || - | -  
|-
|-
-
|align="right"| D098 || SV40_BamHI_BBB_fw || ctgcagcggccgcgctagcggatccaagctttttgcaaaagcctagg  || -|| - | - || - | -  
+
|align="right"| D098 || SV40_BamHI_BBB_fw || ctgcagcggccgcgctagcggatccaagctttttgcaaaagcctagg  || - || - | - || - | -  
|-
|-
|align="right"| D099 || SV40_BBB_rev || ttttctgcagcggccgcgctagcaagctttttgcaaaagcctaggc  || -|| - | - || - | -  
|align="right"| D099 || SV40_BBB_rev || ttttctgcagcggccgcgctagcaagctttttgcaaaagcctaggc  || -|| - | - || - | -  
|-
|-
-
|align="right"| D100 || SV40_rc_BBB_fw || ttttgaattcgcggccgcactagtaagctttttgcaaaagcc || -|| - | - || - | -  
+
|align="right"| D100 || SV40_rc_BBB_fw || ttttgaattcgcggccgcactagtaagctttttgcaaaagcc || - || - | - || - | -  
|-
|-
-
|align="right"| D101 || SV40_rc_BBB_rev || ttttctgcagcggccgcgctagcgcgcagcaccatggcctg || -|| - | - || - | -  
+
|align="right"| D101 || SV40_rc_BBB_rev || ttttctgcagcggccgcgctagcgcgcagcaccatggcctg || - || - | - || - | -  
|-
|-
-
|align="right"| D102 || SV40_term_fw || ttttgaattcgcggccgcactagtcagacatgataagatacattg || -|| - | - || - | -  
+
|align="right"| D102 || SV40_term_fw || ttttgaattcgcggccgcactagtcagacatgataagatacattg || - || - | - || - | -  
|-
|-
-
|align="right"| D103 || SV40_Xho_Xma_BBB_fw || gaattcgcggccgcactagtctcgagtttctcccggggcgcagcaccatggcctg  || -|| - | - || - | -  
+
|align="right"| D103 || SV40_Xho_Xma_BBB_fw || gaattcgcggccgcactagtctcgagtttctcccggggcgcagcaccatggcctg  || - || - | - || - | -  
|-
|-
-
|align="right"| D104 || TetRepressor (from pcDNA6)fw || ttttgaattcgcggccgcactagtgccaccatgtctagattagataaaag  || -|| - | - || - | -  
+
|align="right"| D104 || TetRepressor (from pcDNA6)fw || ttttgaattcgcggccgcactagtgccaccatgtctagattagataaaag  || - || - | - || - | -  
|-
|-
|align="right"| D105 || TetRepressor (from pcDNA6)rew || ttttctgcagcggccgcgctagcttaataagatctaaattcccgcgatccgc  || -|| - | - || - | -  
|align="right"| D105 || TetRepressor (from pcDNA6)rew || ttttctgcagcggccgcgctagcttaataagatctaaattcccgcgatccgc  || -|| - | - || - | -  
|}
|}
-
 
==ViroBytes primers==
==ViroBytes primers==

Revision as of 14:28, 27 October 2010


Primer Table

ID Name Sequence (5' to 3') amplified origin for backbone
001 Casp8FWEcoR1 ttttgaattcatggacttcagcagaaatc Caspase8 death gene Caspase8
002 CMV_AgeI_fw ttttaccggtagaatctgcttagggttagg CMV, shRNA pcDNA5/FRT-shRNA pTR-UF3
003 CMVshRNApA_BglII_rv taatagatctcagaagccatagagcccacc CMV, shRNA pcDNA5/FRT-shRNA pTR-UF3
004 EGFPRVFse1 ttttggccggcccttgtacagctcgtccatg EGFP GFP
005 ElenasFirstSyntheticRNA_F aatatgtctaaactattatttatgccaaccagccaatctagctactgctaggc part 2 Elenas first synthetic shRNA miRsAg pC-DNA5
006 ElenasFirstSyntheticRNA_R aataatagtttagacatatttatgccagccagccagaccagctctgctaagg part 3 Elenas first synthetic shRNA miRsAg pC-DNA5
007 ElenasSecondSyntheticRNA_F gacatgtctaaactattgtcttcggtagcgtcgtagactagctactgctaggc part 2 Elenas second synthetic shRNA miRsAg pC-DNA5
008 ElenasSecondSyntheticRNA_R gacaatagtttagacatgtcttcggtatcgtcgtatcccagctctgctaagg part 3 Elenas second synthetic shRNA miRsAg pC-DNA5
009 ElenasThirdSyntheticRNA_F tatttgtctaaactataataattcgcggctggcctgactagctactgctaggc part 2 Elenas third synthetic shRNA miRsAg pC-DNA5
010 ElenasThirdSyntheticRNA_R tattatagtttagacaaataattcgcgtctggccttcccagctctgctaagg part 3 Elenas third synthetic shRNA miRsAg pC-DNA5
011 ElenasFifthSyntheticRNA_F tatttgtctaaactataataattcgcggctggcctgactagctactgctaggc part 2 Elenas fifth synthetic shRNA miRsAg pC-DNA5
012 ElenasFifthSyntheticRNA_R atctatagtttagacaagatgaaacgccgagttaacgccagctctgctaagg part 3 Elenas fifth synthetic shRNA miRsAg pC-DNA5
013 ElenasSixthSyntheticRNA_F ttattgtctaaactatataactgccgtaactccaaatctagctactgctaggc part 2 Elenas sixth synthetic shRNA miRsAg pC-DNA5
014 ElenasSixthSyntheticRNA_R ttatatagtttagacaataactgccgtcactccaacgccagctctgctaagg part 3 Elenas sixth synthetic shRNA miRsAg pC-DNA5
015 ElenasSeventhSyntheticRNA_F atcttgtctaaactatagataactgccatcactccccctagctactgctaggc part 2 Elenas seventh synthetic shRNA miRsAg pC-DNA5
016 ElenasSeventhSyntheticRNA_R atctatagtttagacaagataactgccgtcactccaaccagctctgctaagg part 3 Elenas seventh synthetic shRNA miRsAg pC-DNA5
017 ElenasEighthSyntheticRNA_F tacatgtctaaactattgtagtcggttcatgcagcccctagctactgctaggc part 2 Elenas eighth synthetic shRNA miRsAg pC-DNA5
018 ElenasEighthSyntheticRNA_R tacaatagtttagacatgtagtcggtttatgcagcaaccagctctgctaagg part 3 Elenas eighth synthetic shRNA miRsAg pC-DNA5
019 ElenasNinethSyntheticRNA_F aaattgtctaaactatatttgatccagagatacagaactagctactgctaggc part 2 Elenas nineth synthetic shRNA miRsAg pC-DNA5
020 ElenasNinethSyntheticRNA_R aaatatagtttagacaatttgatccagcgatacagcgccagctctgctaagg part 3 Elenas nineth synthetic shRNA miRsAg pC-DNA5
021 ElenasTenthSyntheticRNA_F attatgtctaaactattaatatcggtgaccgtggtacctagctactgctaggc part 2 Elenas tenth synthetic shRNA miRsAg pC-DNA5
022 ElenasTenthSyntheticRNA_R attaatagtttagacataatatcggtggccgtggtgtccagctctgctaagg part 3 Elenas tenth synthetic shRNA miRsAg pC-DNA5
023 FADDFWEcoR1 ttttgaattcatgggcggtaggcgtgtacg FADD
024 gE1A-Fse1_rev tttttccggccggttatggcctggggcctttaca E1A rescue gene
025 Hcrfor_HindIII_AgeI_TL gagtcaagcttaccggttggaggtgaagttaacaccttcgtg part 1 shRNA against everything; cutting site: HindIII, AgeI miRsAg pC-DNA5
026 Hcrrev_ApaI_SalI_TL ctcgagggcccgtcgacaagcaaacgatgccaagacatttatcg part 4 shRNA against everything; cutting site: ApaI, SalI miRsAg pC-DNA5
027 HSVluc_norm_BglII_fw tttttagatcttgcaggagcttcagggagtg HSV-TK, Firefly Luciferase psiCHECK2 pTR-UF3
028 HSVluc_norm_BglII_rv ttttagatctggttccgcgcacatttccc HSV-TK, Firefly Luciferase psiCHECK2 pTR-UF3
029 Kif11_PLK1_shRNA-hcrfor:ecoRI gagtcgaattctggaggtgaagttaacaccttcgtg part 1 shRNA against everything; cutting site: ecoRI miRsAg pTR-UF3
030 Kif11&PLK1_shRNA_hcrrev:XbaI ctcgaagatctaagcaaacgatgccaagacatttatcg part 4 shRNA against everything; cutting site: XbaI miRsAg pTR-UF3
031 Kif11_shRNA_forward actctgtctaaactatgagtacattaaacaattcctattagctactgctaggc part 2 shRNA against Kif11 miRsAg pTR-UF3
032 Kif11_shRNA_reverse actcatagtttagacagagtacattaatcaattccattcagctctgctaagg part3 shRNA against Kif11 miRsAg pTR-UF3
033 PLK1_shRNA_forward atgatgtctaaactattcattaagcagatcgttaaccgtagctactgctaggc part2 shRNA against PLK1 miRsAg pTR-UF3
034 PLK1_shRNA_reverse atgaatagtttagacatcattaagcagctcgttaatggcagctctgctaagg part3 shRNA against PLK1 miRsAg pTR-UF3
035 pTR-UF3_Nsp1_for ctattacgccagctggatgcatcccagctgc for pTR-UF3 backbone Pst1->Nsi1 mutation
036 pTR-UF3_Nsp1_rev gcagctgggatgcatccagctggcgtaatag for pTR-UF3 backbone Pst1->Nsi1 mutation
037 pTR-UF3_PstI-NsiI_for gctattacgccagctggatgcatcccagctgcattaatgaatcgg mutagenesis of PstI to NsiI pTR-UF3 pTR-UF3
038 pTR-UF3_PstI-NsiI_rev ccgattcattaatgcagctgggatgcatccagctggcgtaatagc mutagenesis of PstI to NsiI pTR-UF3 pTR-UF3
039 pTR-UF3_PstI-NsiI_shifted_rev cattaatgcagctgggatgcatccagctggcgtaatagcgaagag mutagenesis of PstI to NsiI pTR-UF3 pTR-UF3
040 pTRUF3_seq_fwrv caactccatcactaggggttcct sequencing purpose pTR-UF3 pTR-UF3
041 SCLpsv40_FW ctcaattagtcagcaaccatagtccc FWprimer for testing stable integration of shRNA into T-Rex T-REx cells
042 SCLpsv40_FW gcaaagtgccgataaacataacgatct RVprimer for testing stable integration of shRNA into T-Rex T-REx cells
043 Sequencing primer_pTR-UF3 mutated ctaaatcggaaccctaaagggagcccccg sequencing of mutagenesis of PstI to NsiI pTR-UF3 pTR-UF3
044 Sv40lucmcs_AgeI_fw ttttaccggtgtggaatgtgtgtcagttag SV40, Renilla Luciferase, MCS pTR-UF3
045 Sv40lucmcs_BglII_rv tattagatctccgcgtcagacaaaccctaac SV40, Renilla Luciferase, MCS psiCHECK2 pTR-UF3
046 tBidGFPRVFse1 tttttggccggccttacatgtacagctcg tBid death gene pcherryBidGFP
047 tBidFWEcoR1 tttttgaattcaaccgcagcagccactc tBid death gene pcherryBidGFP
048 tBidRVFse1 tttttccggccgggtccatcccatttctg tBid death gene pcherryBidGFP
049 TetO2FW ggggacaacttttctatacaaagttgtccctatcagtgatagagatctc TetO8 synthesized tetO8 Gateway entry vector

Standart Kit Cloning Primers

ID Name Sequence (5' to 3') amplified origin for backbone
D001 backbone_AvrII_fw ttttcctaggtagcggcgcattaagcgcgg - - -
D002 backbone_AvrII_rev ttttcctaggcttgttgtagcttaaattttg - - -
D003 backbone_ClaI_fw ttttatcgattagcggcgcattaagcgcgg - - -
D004 backbone_XhoI_rev ttttctcgagcttgttgtagcttaaattttg - - -
D005 BBB_Oligo_XhoI ccggActgcagcggccgcgcgctagcacactagtgcggccgcgaattCa - - -
D006 BBB_Oligo_XmaI tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt - - -
D007 BBB_Oligo_XmaI tcgatgaattcgcggccgcactagtgtgctagcgcgcggccgctgcagt - - -
D008 BBB_suffix_reverse aaaactgcagcggccgcgc - - -
D009 BGH_pA_BamHI_rc_fw ttttgaattcgcggccgcactagtggatccccatagagcccaccgcatccc - - -
D010 BGH_pA_fw ttttgaattcgcggccgcactagttttaaacccgctgatcagcc - - -
D011 BGH_pA_rev ttttctgcagcggccgcgctagcccatagagcccaccgcatccc - - -
D012 BGH_pA_rc_rev ttttctgcagcggccgcgctagctttaaacccgctgatcagcc - - -
D013 biCMV_BBB_fw ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg - - -
D014 biCMV_BBB_fw ttttgaattcgcggccgcactagtgcgatctgacggttcactaaacg - - -
D015 biCMV_BBB_rev ttttctgcagcggccgcgcgctagcacagcggatctgacggttcac - - -
D016 biCMV_rc_BBB_fw ttttgaattcgcggccgcactagtagcggatctgacggttcac - - -
D017 biCMV_rc_BBB_rev ttttctgcagcggccgcgctagcgcgatctgacggttcac - - -
D018 CMV_BBB_BamHI_fw gaattcgcggccgcactagtggatcccgatgtacgggccagatatacg - - -
D019 CMV_BBB_fw ttttgaattcgcggccgcactagtcgatgtacgggccagatatacg - - -
D020 CMV_BBB_rev ttttctgcagcggccgcgcgctagcacatttcgataagccagtaagc - - -
D021 CMV_Teto2_BBB_fw tttt gaattcgcggccgcactagtgttgacattgattattgtctag - - -
D022 CMV_TetO2_BBB_rev tttt ctgcagcggccgcgcgctagcaccggaggctggatcggtc - - -
D023 CMV_rc_BBB_fw ttttgaattcgcggccgcactagtatttcgataagccagtaagc - - -
D024 CMV_rc_BBB_rev ttttctgcagcggccgcgctagccgatgtacgggccagatatacg - - -
D025 FRT_rev ctgcagcggccgcgctagcccaaggaagttcctatactttc - - -
D026 FRT_rev gaattcgcggccgcactagtttctcgccacgttcgccggc - - -
D027 hRluc_ter_BBB_fw ttttgaattcgcggccgcactagtatggcttccaaggtgtacgac - - -
D028 hRluc_ter_BBB_rev ttttctgcagcggccgcgctagcttactgctcgttcttcagcacgc - - -
D029 hsa-mir-122_BBB(perf) ttttgaattcgcggccgcactagtcaaacaccattgtcacactccagctagcgcggccgctgcagtttt - - -
D030 hsa-mir-122_BBB(rand9-12) ttttgaattcgcggccgcactagtcaaacaccatnnnnacactccagctagcgcggccgctgcagtttt - - -
D031 hsa-mir-122_BBB(rand9-22) ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnacactccagctagcgcggccgctgcagtttt - - -
D032 hsa-mir-122_Sgf_Not(perf) ttttgcgatcgccaaacaccattgtcacactccagcggccgctatgtcacaact - - -
D033 hsa-mir-122_Sgf_Not(rand9-12) ttttgcgatcgccaaacaccatnnnnacactccagcggccgctatgtcacaact - - -
D034 hsa-mir-122_Sgf_Not(rand9-22) ttttgcgatcgcnnnnnnnnnnnnnnacactccagcggccgctatgtcacaact - - -
D035 hsa-mir-375_BBB(perf) ttttgaattcgcggccgcactagttcacgcgagccgaacgaacaaagctagcgcggccgctgcagtttt - - -
D036 hsa-mir-375_BBB(rand9-12) ttttgaattcgcggccgcactagttcacgcgagcnnnncgaacaaagctagcgcggccgctgcagtttt - - -
D037 hsa-mir-375_BBB(rand9-22) ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgaacaaagctagcgcggccgctgcagtttt - - -
D038 hsa-mir-375_Sgf_Not(perf) ttttgcgatcgctcacgcgagccgaacgaacaaagcggccgctatgtcacaact - - -
D039 hsa-mir-375_Sgf_Not(rand9-12) ttttgcgatcgctcacgcgagcnnnncgaacaaagcggccgctatgtcacaact - - -
D040 hsa-mir-375_Sgf_Not(rand9-22) ttttgcgatcgcnnnnnnnnnnnnnncgaacaaagcggccgctatgtcacaact - - -
D041 hsa-mir-376a_BBB(perf) ttttgaattcgcggccgcactagtacgtggattttcctctatgatgctagcgcggccgctgcagtttt - - -
D042 hsa-mir-376a_BBB(rand9-12) ttttgaattcgcggccgcactagtacgtggattnnnntctatgatgctagcgcggccgctgcagtttt - - -
D043 hsa-mir-376a_BBB(rand9-22) ttttgaattcgcggccgcactagtnnnnnnnnnnnnntctatgatgctagcgcggccgctgcagtttt - - -
D044 hsa-mir-376a_Sgf_Not(perf) ttttgcgatcgcacgtggattttcctctatgatgcggccgctatgtcacaact - - -
D045 hsa-mir-376a_Sgf_Not(rand9-12) ttttgcgatcgcacgtggattnnnntctatgatgcggccgctatgtcacaact - - -
D046 hsa-mir-376a_Sgf_Not(rand9-22) ttttgcgatcgcnnnnnnnnnnnnntctatgatgcggccgctatgtcacaact - - -
D047 igem20100723_01 tgccacctgacgtctaagaa - - -
D048 igem20100723_02 attaccgcctttgagtgagc - - -
D049 Luc2_ter_BamHI_BBB_rev ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac - - -
D050 Luc2_ter_BamHI_BBB_rev ttttctgcagcggccgcgctagcggatcctaccacatttgtagaggttttac - - -
D051 Luc2_ter_BBB_fw ttttgaattcgcggccgcactagtgccaccatggaagatgcc - - -
D052 mir122_miMeasure_screen_fev ccgcgctagctggagtgt - - -
D053 Oligo_Xba_mut_fw ctagcctcgagttctgaccgccccgggg - - -
D054 Oligo_Xba_mut_rev ctagccccggggcggtcagaactcgagg - - -
D055 pSMB_miMeasure_Screen_fw gcacaagctggagtacaactac - - -
D056 pSMB_miMeasure_Screen_rev ggtttcccgactggaaagcg - - -
D057 RSV_fw ttttgaattcgcggccgcactagtcaattctcatgtttgacagc - - -
D058 RSV_rev ttttctgcagcggccgcgctagccagcttggaggtgcacacc - - -
D059 RSV_rc_fw ttttgaattcgcggccgcactagtcagcttggaggtgcacacc - - -
D060 RSV_rc_rev ttttctgcagcggccgcgctagccaattctcatgtttgacagc - - -
D061 RSV_fw_midcomp cgaaccactgaataccgcattgcag - - -
D062 RSV_rev_midcomp ctgcaatgcggtattcagtggttcg - - -
D063 SB-prep-3P gccgctgcagtccggcaaaaaaacg - - -
D064 SB-prep-2Ea atgaattccagaaatcatccttagcg - - -
D065 second_strand_notI agttgtgacatagcggccgc - - -
D066 shRNA-6th-bs(custom)_BBB ttttgaattcgcggccgcactagtnnnnnnnnnnnnnncgtcaatagctagcgcggccgctgcagtttt - - -
D067 shRNA-7th-bs(custom)_BBB ttttgaattcgcggccgcactagtnnnnnnnnnnnnnntcaatagagctagcgcggccgctgcagtttt - - -
D068 shRNA-8th-bs(custom)_BBB ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctgatgtgctagcgcggccgctgcagtttt - - -
D069 shRNA-9th-bs(custom)_BBB ttttgaattcgcggccgcactagtnnnnnnnnnnnnnnctagtttagctagcgcggccgctgcagtttt - - -
D070 shRNA-10th-bs(custom)_BBB ttttgaattcgcggccgcactagtnnnnnnnnnnnnnngctataatgctagcgcggccgctgcagtttt - - -
D071 shRNA-6th-bs(perf)_BBB ttttgaattcgcggccgcactagtcgcaacctcactgccgtcaatagctagcgcggccgctgcagtttt - - -
D072 shRNA-7th-bs(perf)_BBB ttttgaattcgcggccgcactagtcaacctcactgccgtcaatagagctagcgcggccgctgcagtttt - - -
D073 shRNA-8th-bs(perf)_BBB ttttgaattcgcggccgcactagtcaacgacgtatttggctgatgtgctagcgcggccgctgcagtttt - - -
D074 shRNA-9th-bs(perf)_BBB ttttgaattcgcggccgcactagtcgcgacatagcgacctagtttagctagcgcggccgctgcagtttt - - -
D075 shRNA-10th-bs(perf)_BBB ttttgaattcgcggccgcactagtctgtggtgccggtggctataatgctagcgcggccgctgcagtttt - - -
D076 shRNA-6th-bs(rand9-12)_BBB gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact - - -
D077 shRNA-7th-bs(rand9-12)_BBB ttttgaattcgcggccgcactagtcaacctcactnnnntcaatagagctagcgcggccgctgcagtttt - - -
D078 shRNA-8th-bs(rand9-12)_BBB ttttgaattcgcggccgcactagtcaacgacgtannnngctgatgtgctagcgcggccgctgcagtttt - - -
D079 shRNA-9th-bs(rand9-12)_BBB ttttgaattcgcggccgcactagtcgcgacatagnnnnctagtttagctagcgcggccgctgcagtttt - - -
D080 shRNA-10th-bs(rand9-12)_BBB ttttgaattcgcggccgcactagtctgtggtgccnnnngctataatgctagcgcggccgctgcagtttt - - -
D081 shRNA-6th-bs(custom)_SgfI_NotI gcgatcgcnnnnnnnnnnnnnncgtcaatagcggccgctatgtcacaact - - -
D082 shRNA-7th-bs(custom)_SgfI_NotI gcgatcgcnnnnnnnnnnnnnntcaatagagcggccgctatgtcacaact - - -
D083 shRNA-8th-bs(custom)_SgfI_NotI gcgatcgcnnnnnnnnnnnnnngctgatgtgcggccgctatgtcacaact - - -
D084 shRNA-9th-bs(custom)_SgfI_NotI gcgatcgcnnnnnnnnnnnnnnctagtttagcggccgctatgtcacaact - - -
D085 shRNA-10th-bs(custom)_SgfI_NotI gcgatcgcnnnnnnnnnnnnnngctataatgcggccgctatgtcacaact - - -
D086 shRNA-6th-bs(perf)_SgfI_NotI gcgatcgccgcaacctcactgccgtcaatagcggccgctatgtcacaact - - -
D087 shRNA-7th-bs(perf)_SgfI_NotI gcgatcgccaacctcactgccgtcaatagagcggccgctatgtcacaact - - -
D088 shRNA-8th-bs(perf)_SgfI_NotI gcgatcgccaacgacgtatttggctgatgtgcggccgctatgtcacaact - - -
D089 shRNA-9th-bs(perf)_SgfI_NotI gcgatcgccgcgacatagcgacctagtttagcggccgctatgtcacaact - - -
D090 shRNA-10th-bs(perf)_SgfI_NotI gcgatcgcctgtggtgccggtggctataatgcggccgctatgtcacaact - - -
D091 shRNA-6th-bs(rand9-12)_SgfI_NotI gcgatcgccgcaacctcannnncgtcaatagcggccgctatgtcacaact - - -
D092 shRNA-7th-bs(rand9-12)_SgfI_NotI gcgatcgccaacctcactnnnntcaatagagcggccgctatgtcacaact - - -
D093 shRNA-8th-bs(rand9-12)_SgfI_NotI gcgatcgccaacgacgtannnngctgatgtgcggccgctatgtcacaact - - -
D094 shRNA-9th-bs(rand9-12)_SgfI_NotI gcgatcgccgcgacatagnnnnctagtttagcggccgctatgtcacaact - - -
D095 shRNA-10th-bs(rand9-12)_SgfI_NotI gcgatcgcctgtggtgccnnnngctataatgcggccgctatgtcacaact - - -
D096 shRNA_AflII_BBB_fw ttttctgcagcggccgcgcgctagccttaagtggaggtgaagttaacaccttcgtg - - -
D097 shRNA_HindIII_BBB_rev ttttgaattcgcggccgcactagtaagcttaagcaaacgatgccaagacatttatcg - - -
D098 SV40_BamHI_BBB_fw ctgcagcggccgcgctagcggatccaagctttttgcaaaagcctagg - - -
D099 SV40_BBB_rev ttttctgcagcggccgcgctagcaagctttttgcaaaagcctaggc - - -
D100 SV40_rc_BBB_fw ttttgaattcgcggccgcactagtaagctttttgcaaaagcc - - -
D101 SV40_rc_BBB_rev ttttctgcagcggccgcgctagcgcgcagcaccatggcctg - - -
D102 SV40_term_fw ttttgaattcgcggccgcactagtcagacatgataagatacattg - - -
D103 SV40_Xho_Xma_BBB_fw gaattcgcggccgcactagtctcgagtttctcccggggcgcagcaccatggcctg - - -
D104 TetRepressor (from pcDNA6)fw ttttgaattcgcggccgcactagtgccaccatgtctagattagataaaag - - -
D105 TetRepressor (from pcDNA6)rew ttttctgcagcggccgcgctagcttaataagatctaaattcccgcgatccgc - - -

ViroBytes primers

ID Name Sequence (5' to 3') amplified fragment direction cap gene of AAV
R001 Anchor12367891012 tctctctctctctctaagcttgtctgagtgactagcattcgttaattaacTACCG anchor -
R002 Anchor4 tctctctctctctctaagcttgtctgagtgactagcattcgttaattaactactg anchor -
R003 Anchor5 tctctctctctctctaagcttgtctgagtgactagcattcgttaattaactacag anchor -
R004 Anchor_comp_all gttaattaacgaatgctagtcactcagacaagctt anchor -
R005 F1_for_cap12678910 gctacggtctcaatggctgccgatggttatcttccag 1 forward 1,2,6,7,8,9,10
R006 F1_for_cap5 gctacggtctcaatggctgccgatggttatcttccag 1 forward 5
R007 F1_rev_cap2 gctacggtctcgctcctgaaactcggcgtcggcgtgg 1 reverse 2
R008 F1_rev_cap5 gctacggtctctctcctgaaactcggcgtccgcgtgg 1 reverse 5
R009 F1_rev_cap9 gctacggtctcgctcctggaactcggcgtcggcgtgg 1 reverse 9
R010 F1_rev_cap168 gctacggtctcgctcctgaaactcggcgtcggcgtgg 1 reverse 1,6,8
R011 F2_for_cap2 gctacggtctctggagcgccttaaagaagatacgtcttttggggg 2 forward 2
R012 F2_for_cap5 gctacggtctctggagaagctcgccgacgacacatccttcggggg 2 forward 5
R013 F2_for_cap9 gctacggtctctggagcggctcaaagaagatacgtcttttggggg 2 forward 9
R014 F2_for_cap168 gctacggtctctggagcgtctgcaagaagatacgtcttttggggg 2 forward 1,6,8
R015 F2_rev_cap2 gctacggtctcgtgtcgcccatccatgtggaatcgcaatgc 2 reverse 2
R016 F2_rev_cap5 gctacggtctcgtgtcccccatccacgtggaatcgcaatgc 2 reverse 5
R017 F2_rev_cap9 gctacggtctcgtgtcccccagccattgggaatcgcaatgc 2 reverse 9
R018 F2_rev_cap168 gctacggtctcgtgtcgcccagccatgtggaatcgcaatgc 2 reverse 1,6,8
R019 F3_for_cap5 gctacggtctccgacagagtcatcaccaccagcacccg 3 forward 5
R020 F3_for_cap9 gctacggtctccgacagagtcatcaccaccagcacccg 3 forward 9
R021 F3_for_cap1268 gctacggtctccgacagagtcatcaccaccagcacccg 3 forward 1,2,6,8
R022 F3_rev_cap1 gctacggtctcaggttattagcgatggttgtgacgccatcattcgtc 3 reverse 1
R023 F3_rev_cap2 gctacggtctcaggttattggcaatcgtcgtcgtaccgtcattctgc 3 reverse 2
R024 F3_rev_cap5 gctacggtctcaggttgttggcgatggtggtggtggagtcctgcac 3 reverse 5
R025 F3_rev_cap6 gctacggtctcaggttattagcgatggtcgtgacgccatcattcgtc 3 reverse 6
R026 F3_rev_cap8 gctacggtctcaggttattggcgatggtcttggtgccttcattctgc 3 reverse 8
R027 F3_rev_cap9 gctacggtctcaggttattggcgatggtcttgactccattgttgtcc 3 reverse 9
R028 F4_for_cap2 gctacggtctctaaccttaccagcacggttcaggtgtttactgactc 4 forward 2
R029 F4_for_cap5 gctacggtctccaacctcacctccaccgtccaagtgtttacggacga 4 forward 5
R030 F4_for_cap8 gctacggtctctaacctcaccagcaccatccaggtgtttacggactc 4 forward 8
R031 F4_for_cap9 gctacggtctctaaccttaccagcacggtccaggtcttcacggactc 4 forward 9
R032 F4_for_cap16 gctacggtctctaaccttaccagcacggttcaagtcttctcggactc 4 forward 1,6
R033 F4_reverse_cap1 gctacggtctcagctgctgtggaaaggcacttcctcaaaggtg 4 reverse 1
R034 F4_reverse_cap2 gctacggtctcagctgctgtggaaaggaacgtcctcaaaagtg 4 reverse 2
R035 F4_reverse_cap5 gctacggtctcagctggagtggaagggcacctcctcaaagttg 4 reverse 5
R036 F4_reverse_cap9 gctacggtctcagctgctatggaaaggtacgttctcaaactcg 4 reverse 9
R037 F4_reverse_cap68 gctacggtctcagctgctgtggaaaggcacgtcctcgaaggtg 4 reverse 6,8
R038 F5_for_cap2 gctacggtctcgcagctacgctcacagccagagtctggaccgtc 5 forward 2
R039 F5_for_cap5 gctacggtctcccagcttcgctcccagtcagaacctgttcaagc 5 forward 5
R040 F5_for_cap8 gctacggtctcgcagctacgcccacagccagagcttggaccggc 5 forward 8
R041 F5_for_cap9 gctacggtctcgcagctacgctcacagccaaagcctggaccgac 5 forward 9
R042 F5_for_cap16 gctacggtctcgcagctacgcgcacagccagagcctggaccggc 5 forward 1,6
R043 F5_rev_cap2 gctacggtctccagttcctagactggtcccgaatgtcactcg 5 reverse 2
R044 F5_rev_cap5 gctacggtctccagtttttgtaggtgttggcgtatctcccgg 5 reverse 5
R045 F5_rev_cap8 gctacggtctccagttctttgcctgattggccattgtattag 5 reverse 8
R046 F5_rev_cap9 gctacggtctctagtttcttccctggacagccatgttgctgg 5 reverse 9
R047 F5_rev_cap16 gctacggtctccagtttttgggctgaacagacatgccagctg 5 reverse 1,6
R048 F6_for_cap2 gctacggtctcgaactggcttcctggaccctgttaccgccagc 6 forward 2
R049 F6_for_cap5 gctacggtctcaaactggttcccggggcccatgggccgaaccc 6 forward 5
R050 F6_for_cap8 gctacggtctcgaactggctgccaggaccctgttaccgccaac 6 forward 8
R051 F6_for_cap9 gctacggtctcaaactacatacctggacccagctaccgacaac 6 forward 9
R052 F6_for_cap16 gctacggtctcaaactggctacctggaccctgttatcggcagc 6 forward 1,6
R053 F6_rev_cap1 gctacggtctcgccacagggttagtggctttaatttcctcttcgtctg 6 reverse 1
R054 F6_rev_cap2 gctacggtctcgccacgggattggttgtcctgatttcctcttcgtctg 6 reverse 2
R055 F6_rev_cap5 gctacggtctcgccacgcggttcaccggctgcgtctcgctctcgctgg 6 reverse 5
R056 F6_rev_cap6 gctacggtctcgccacggggttagtggctttgatttcctcttcgtctg 6 reverse 6
R057 F6_rev_cap8 gctacggtctcgccacagggttagtggttttgatttcttctcgctgg 6 reverse 8
R058 F6_rev_cap9 gctacggtctcgccaccgggttagtagttttaatttcttcttcgttggttatc 6 reverse 9
R059 F7_for_cap1 gctacggtctctgtggccaccgaaagatttgggaccgtggcagtcaatttc 7 forward 1
R060 F7_for_cap2 gctacggtctccgtggctacggagcagtatggttctgtatctaccaacctc 7 forward 2
R061 F7_for_cap5 gctacggtctccgtggcgtacaacgtcggcgggcagatg 7 forward 5
R062 F7_for_cap6 gctacggtctccgtggccaccgaaagatttgggactgtggcagtcaatctc 7 forward 6
R063 F7_for_cap8 gctacggtctctgtggctacagaggaatacggtatcgtggcagataacttg 7 forward 8
R064 F7_for_cap9 gctacggtctcggtagcaacggagtcctatggacaagtggccacaaaccac 7 forward 9
R065 F7_rev_cap1 gctacggtctcggtgatgaatgaagcaaactttgtagctgaaaac 7 reverse 1
R066 F7_rev_cap2 gctacggtctctgtgatgaaggaagcaaactttgccgcactgaag 7 reverse 2
R067 F7_rev_cap5 gctacggtctcggtgatgaagctgctgacgggcacgtccgagaag 7 reverse 5
R068 F7_rev_cap6 gctacggtctcggtgatgaatgaagcaaactttgtagccgaaaac 7 reverse 6
R069 F7_rev_cap8 gctacggtctccgtgatgaaagagttcagctttgactggttgaag 7 reverse 8
R070 F7_rev_cap9 gctacggtctcggtgatgaaagagttcagcttgtccttgttgaag 7 reverse 9
R071 F8_for_cap1 gctacggtctcatcacccaatactccacaggacaagtgagtgtgg 8 forward 1
R072 F8_for_cap2 gctacggtctcatcacacagtactccacgggacaggtcagcgtgg 8 forward 2
R073 F8_for_cap5 gctacggtctcatcacccagtacagcaccgggcaggtcaccgtgg 8 forward 5
R074 F8_for_cap6 gctacggtctcatcacccagtattccacaggacaagtgagcgtgg 8 forward 6
R075 F8_for_cap8 gctacggtctcatcacgcaatacagcaccggacaggtcagcgtgg 8 forward 8
R076 F8_for_cap9 gctacggtctcatcacccagtattctactggccaagtcagcgtgg 8 forward 9
R077 F8_rev_cap1 gctacggcgcgccttacaggggacgggtaaggtaacgggtgcc 8 reverse 1
R078 F8_rev_cap2 gctacggcgcgccttacagattacgagtcaggtatctggtgccaatggg 8 reverse 2
R079 F8_rev_cap5 gctacggcgcgccttaaaggggtcgggtaaggtatcgggttccgatagg 8 reverse 5
R080 F8_rev_cap6 gctacggcgcgccttacaggggacgggtgaggtaacgggtgcc 8 reverse 6
R081 F8_rev_cap8 gctacggcgcgccttacagattacgggtgaggtaacgggtgccaatggg 8 reverse 8
R082 F8_rev_cap9 gctacggcgcgccttacagattacgagtcaggtatctggtgccaatggg 8 reverse 9
R083 Virbyte_for gtctgagtgactagcattcggtctgagtgactagcattcg - forward
R084 Virobyte_rev gctacggcgcgcctta - reverse


Primer Table Quick 'n' Dirty

ID Name Sequence (5' to 3') amplified origin for backbone
L001 CMV_AgeI_fw ttttaccggtagaatctgcttagggttagg for use with L11 from pcDNA5+miRNA to tuning construct-pTR-UF3 KpnI/SalI
L002 CMVshRNApA_KpnI_rv taatggtacccagaagccatagagcccacc - from pcDNA5+miRNA to tuning construct-pTR-UF3 KpnI/SalI
L003 HSVluc_norm_BglII_fw tttttagatcttgcaggagcttcagggagtg for use with L8 from PsiCheck2 to pTR-UF3 BglII
L004 HSVluc_norm_BglII_rv ttttagatctggttccgcgcacatttccc for use with L7 from PsiCheck2 to pTR-UF3 BglII
L005 HSVluc_norm_KpnI_fw tttttggtagcaggagcttcagggagtg for use with L16 from PsiCheck2 to pTR-UF3 KpnI/SalI
L006 HSVluc_norm_SalI_rv ttttgtcgacggttccgcgcacatttccc for use with L15 from PsiCheck2 to pTR-UF3 KpnI/SalI
L007 Sv40lucmcs_AgeI_fw ttttaccggtgtggaatgtgtgtcagttag for use with L13 from PsiCheck2 to tuning construct-pTR-UF3 KpnI/SalI
L008 SV40luc_SalI_rv tattgtcgacccgcgtcagacaaaccctaac for use with L1 from PsiCheck2 to tuning construct-pTR-UF3 KpnI/SalI
L009 TetO2_StuI_NheI ttttaggccttccctatcagtgatagagatctccctatcagtgatagagagctagctaac Tet Repressor Oligo to final tuning construct
L010 TetR_BspEI_fw tttttccggaggcgaattgatatgtctagattag for use with L14 from pcDNA6/TR pTR-UF3 BspEI/NotI
L011 TetR_SgfI_NotI_rv ttttgcggccgctggcgatcgctaataagatctgaattcccgggatc for use with L12 from pcDNA6/TR to pTR-UF3 BspEI/NotI


Primer Table raPCR

ID Name Sequence (5' to 3') target Assembly Site
ra001 psicheck2_MCS_min_200_fw cagcgacgatctgcctaa sequencing fw sequencing Primer for binding-sites in pSiCheck vector
ra002 psicheck2_MCS_plu_200_rv gtggccaccaagaccaaa sequencing rv sequencing Primer for binding-sites in pSiCheck vector
ra003 raPCR_AS13-hsa-mir-122 cactgaatccaactgcaaacaccattgtcacactccagcatacatggactgc hsa-mir-122 13 bp
ra004 raPCR_AS13-has-mir122(ran9-12) cactgaatccaactgcaaacaccatnnnnacactccagcatacatggactgc has-mir122 (ran9-12) 13 bp randomised nucleotides 9-12
ra005 raPCR_AS13-hsa-mir-320b cactgaatccaactgttgccctctcaacccagcttttgcatacatggactgc hsa-mir-320b 13 bp
ra006 raPCR_AS13-has-mir-221 cactgaatccaactggaaacccagcagacaatgtagctgcatacatggactgc has-mir-221 13 bp
ra007 raPCR_AS13-has-mir-221(ran9-12 cactgaatccaactggaaacccagcannnnatgtagctgcatacatggactgc has-mir-221 (ran9-12) 13 bp randomised nucleotides 9-12
ra008 raPCR_AS13-has-mir-1179 cactgaatccaactgccaaccaatgaaagaatgcttgcatacatggactgc has-mir-1179 13 bp
ra009 raPCR_AS13-has-mir-1179ran9-12 cactgaatccaactgccaaccaatnnnngaatgcttgcatacatggactgc has-mir-1179 (ran9-12) 13 bp randomised nucleotides 9-12
ra010 raPCR_AS13-has-mir4286 cactgaatccaactgggtaccaggagtggggtgcatacatggactgc has-mir4286 13 bp
ra011 raPCR_AS13-mm-mir-375 cactgaatccaactgtcacgcgagccgaacgaacaaagcatacatggactgc mm-mir-375 13 bp
ra012 raPCR_AS13-mm-mir-375(ran9-12) cactgaatccaactgtcacgcgagcnnnncgaacaaagcatacatggactgc mm-mir-375 (ran9-12) 13 bp randomised nucleotides 9-12
ra013 raPCR_AS13-mm-mir-376a cactgaatccaactgacgtggattttcctctacgatgcatacatggactgc mm-mir-376a 13 bp
ra014 raPCR_AS13-spacer(0) cagttggattcagtggcagtccatgtatgc spacer 13 bp
ra015 raPCR_AS13-spacer(10) cagttggattcagtggctatttctcgcagtccatgtatgc spacer 13 bp
ra016 raPCR_AS13-spacer(20) cagttggattcagtgatgacaggtagctatttctcgcagtccatgtatgc spacer 13 bp
ra017 raPCR_AS13-stop_fw_BBB ttttgaattcgcggccgcactagtcactgaatccaactg stop fw 13 bp
ra018 raPCR_AS13-stop_rev_BBB ttttctgcagcggccgcgctagcgcagtccatgtatgc stop rev 13 bp
ra019 raPCR_AS13-stop_rev_NotI ttttgcggccgctggagtgtgacaatggtgtttg stop rev 13 bp
ra020 raPCR_AS13-stop_fw_XhoI ttttctcgagcactgaatccaactg stop fw 13 bp


mouse oligos

ID Name Sequence (5' to 3')
mouse1 CMV_TetR_122bs_SalI_fw ttttgtcgaccgttgacattgattattgac
mouae2 CMV_TetR_both_MluI_rev ttttacgcgttaacacacaaaaaaccaacac
mouse3 CMV_TetR_control_SalI_fw ttttgtcgaccgttgacattgattattgac
mouse4 CMV_TetO2_EcoRI_fw ttttgaattcgttgacattgattattgtctag
mouse5 Luc2_Ter_PstI_rev ttttctgcagtaccacatttgtagaggttttac
mouse6XXX haat_bs_p_fw tcgaggaagcgtttaggcatgtttaacatctctagagc
mouse7 haat_bs_p_rev ggccgctctagagatgttaaacatgcctaaacgcttcc
mouse8 haat_bs_r10_12_aat_fw tcgaggaagcgtaatggcatgtttaacatctctagagc
mouse9 haat_bs_r10_12_aat_rev ggccgctctagagatgttaaacatgccattacgcttcc
mouse10 haat_bs_r10_12_agc_fw tcgaggaagcgtagcggcatgtttaacatctctagagc
mouse11 haat_bs_r10_12_agc_rev ggccgctctagagatgttaaacatgccgctacgcttcc
mouse12 haat_bs_m10at_fw tcgaggaagcgttttggcatgtttaacatctctagagc
mouse13 haat_bs_m10at_rev ggccgctctagagatgttaaacatgccaaaacgcttcc
mouse14 haat_bs_m10ac_fw tcgaggaagcgtttcggcatgtttaacatctctagagc
mouse15 haat_bs_m10ac_rev ggccgctctagagatgttaaacatgccgaaacgcttcc
mouse16 haat_bs_m11ta_fw tcgaggaagcgttaaggcatgtttaacatctctagagc
mouse17 haat_bs_m11ta_rev ggccgctctagagatgttaaacatgccttaacgcttcc
mouse18 haat_bs_m11tg_fw tcgaggaagcgttgaggcatgtttaacatctctagagc
mouse19 haat_bs_m11tg_rev ggccgctctagagatgttaaacatgcctcaacgcttcc
mouse20 haat_bs_r9_12_aatc_fw tcgaggaagcgtaatcgcatgtttaacatctctagagc
mouse21 haat_bs_r9_12_aatc_rev ggccgctctagagatgttaaacatgcgattacgcttcc
mouse22 haat_bs_r9_12_agcc_fw tcgaggaagcgtagccgcatgtttaacatctctagagc
mouse23 haat_bs_r9_12_agcc_rev ggccgctctagagatgttaaacatgcggctacgcttcc
mouse24 haat_bs_onlyseed_fw tcgagcttcgcaaatcgcatgtttaacatctctagagc
mouse25 haat_bs_onlyseed_rev ggccgctctagagatgttaaacatgcgatttgcgaagc
mouse26 haat_bs_r16-18_fw tcgaggttccgtttaggcatgtttaacatctctagagc
mouse27 haat_bs_r16-18_rev ggccgctctagagatgttaaacatgcctaaacggaacc
mouse28XXX sAg_bs_p_fw tcgagctcagtttactagtgccatttgttctctagagc
mouse29 sAg_bs_p_rev ggccgctctagagaacaaatggcactagtaaactgagc
mouse30 sAg_bs_r10_12_acg_fw tcgagctcagtttactagacgcatttgttctctagagc
mouse31 sAg_bs_r10_12_acg_rev ggccgctctagagaacaaatgcgtctagtaaactgagc
mouse32 sAg_bs_r10_12_taa_fw tcgagctcagtttactagtaacatttgttctctagagc
mouse33 sAg_bs_r10_12_taa_rev ggccgctctagagaacaaatgttactagtaaactgagc
mouse34 sAg_bs_r9_12_acgg_fw tcgagctcagtttactagacggatttgttctctagagc
mouse35 sAg_bs_r9_12_acgg_rev ggccgctctagagaacaaatccgtctagtaaactgagc
mouse36 sAg_bs_r9_12_atgt_fw tcgagctcagtttactagatgtatttgttctctagagc
mouse37 sAg_bs_r9_12_atgt_rev ggccgctctagagaacaaatacatctagtaaactgagc
mouse38 sAg_bs_m10cg_fw tcgagctcagtttactagtggcatttgttctctagagc
mouse39 sAg_bs_m10cg_rev ggccgctctagagaacaaatgccactagtaaactgagc
mouse40 sAg_bs_m10ca_fw tcgagctcagtttactagtgacatttgttctctagagc
mouse41 sAg_bs_m10ca_rev ggccgctctagagaacaaatgtcactagtaaactgagc
mouse42 sAg_bs_m11gc_fw tcgagctcagtttactagtcccatttgttctctagagc
mouse43 sAg_bs_m11gc_rev ggccgctctagagaacaaatgggactagtaaactgagc
mouse44 sAg_bs_m11ga_fw tcgagctcagtttactagtaccatttgttctctagagc
mouse45 sAg_bs_m11ga_rev ggccgctctagagaacaaatggtactagtaaactgagc
mouse46 sAg_bs_onlyseed_fw tcgagctcagtaatgatcacggatttgttctctagagc
mouse47 sAg_bs_onlyseed_rev ggccgctctagagaacaaatccgtgatcattactgagc
mouse48 sAg_bs_r16-18_fw tcgagctcagttatgtagtgccatttgttctctagagc
mouse49 sAg_bs_r16-18_rev ggccgctctagagaacaaatggcactacataactgagc
mouse50XXX hAAT_cDNA_SalI_Bluescript_fw ttttgtcgacgaccatgattacgccaagcg
mouse51 hAAT_cDNA_SalI_fw ttttgtcgacgggtaccgggccccccgtcgaggatg
mouse52 hAAT_cDNA_XhoI_NotI_NheI_rev ttttgctagcgcggccgcgtatctcgaggctcaacccttctttaatg
mouse53 hAAT_cDNA_sAg_bs_p_NheI_rev ttttgctagcgaacaaatggcactagtaaactgaggctcaacccttctttaatg
mouse54 hAAT_cDNA_sAg_bs_r10_12_acg_NheI_rev ttttgctagcgaacaaatgcgtctagtaaactgaggctcaacccttctttaatg
mouse55 hAAT_cDNA_sAg_bs_r10_12_taa_NheI_rev ttttgctagcgaacaaatgttactagtaaactgaggctcaacccttctttaatg
mouse56 hAAT_cDNA_bs_r9_12_acgg_NheI_rev ttttgctagcgaacaaatccgtctagtaaactgaggctcaacccttctttaatg
mouse57 hAAT_cDNA_sAg_bs_r9_12_atgt_NheI_rev ttttgctagcgaacaaatacatctagtaaactgaggctcaacccttctttaatg
mouse58 hAAT_cDNA_sAg_bs_m10cg_NheI_rev ttttgctagcgaacaaatgccactagtaaactgaggctcaacccttctttaatg
mouse59 hAAT_cDNA_sAg_bs_m10ca_NheI_rev ttttgctagcgaacaaatgtcactagtaaactgaggctcaacccttctttaatg
mouse60 hAAT_cDNA_sAg_bs_m11gc_NheI_rev ttttgctagcgaacaaatgggactagtaaactgaggctcaacccttctttaatg
mouse61 hAAT_cDNA_sAg_bs_m11ga_NheI_rev ttttgctagcgaacaaatggtactagtaaactgaggctcaacccttctttaatg
mouse62 hAAT_cDNA_sAg_bs_onlyseed_NheI_rev ttttgctagcgaacaaatccgtgatcattactgaggctcaacccttctttaatg
mouse63 hAAT_cDNA_sAg_bs_r16-18_NheI_rev ttttgctagcgaacaaatggcactacataactgaggctcaacccttctttaatg
mouse64XXX sAg_bs_p_fw_E aattcctcagtttactagtgccatttgttcctgca
mouse65 sAg_bs_p_rev_P ggaacaaatggcactagtaaactgagg
mouse66 sAg_bs_r10_12_acg_fw_E aattcctcagtttactagacgcatttgttcctgca
mouse67 sAg_bs_r10_12_acg_rev_P ggaacaaatgcgtctagtaaactgagg
mouse68 sAg_bs_r10_12_taa_fw_E aattcctcagtttactagtaacatttgttcctgca
mouse69 sAg_bs_r10_12_taa_rev_P ggaacaaatgttactagtaaactgagg
mouse70 sAg_bs_r9_12_acgg_fw_E aattcctcagtttactagacggatttgttcctgca
mouse71 sAg_bs_r9_12_acgg_rev_P ggaacaaatccgtctagtaaactgagg
mouse72 sAg_bs_r9_12_atgt_fw_E aattcctcagtttactagatgtatttgttcctgca
mouse73 sAg_bs_r9_12_atgt_rev_P ggaacaaatacatctagtaaactgagg
mouse74 sAg_bs_m10cg_fw_E aattcctcagtttactagtggcatttgttcctgca
mouse75 sAg_bs_m10cg_rev_P ggaacaaatgccactagtaaactgagg
mouse76 sAg_bs_m10ca_fw_E aattcctcagtttactagtgacatttgttcctgca
mouse77 sAg_bs_m10ca_rev_P ggaacaaatgtcactagtaaactgagg
mouse78 sAg_bs_m11gc_fw_E aattcctcagtttactagtcccatttgttcctgca
mouse79 sAg_bs_m11gc_rev_P ggaacaaatgggactagtaaactgagg
mouse80 sAg_bs_m11ga_fw_E aattcctcagtttactagtaccatttgttcctgca
mouse81 sAg_bs_m11ga_rev_P ggaacaaatggtactagtaaactgagg
mouse82 sAg_bs_onlyseed_fw_E aattcctcagtaatgatcacggatttgttcctgca
mouse83 sAg_bs_onlyseed_rev_P ggaacaaatccgtgatcattactgagg
mouse84 sAg_bs_r16-18_fw_E aattcctcagttatgtagtgccatttgttcctgca
mouse85 sAg_bs_r16-18_rev_P ggaacaaatggcactacataactgagg

Modeling Training and Validation Binding Site Set-miRsAg

ID Name Sequence (5' to 3')
miRsAg001 fw_model_sAg_Bs_1 ccgggataatttgttcatttgttctctagagc
miRsAg002 fw_model_sAg_Bs_2 ccgggataatttgttcatttgttcatttgttctctagagc
miRsAg003 fw_model_sAg_Bs_3 ccgggagtttactagtgccatttgttcaaatatagcctctagagc
miRsAg004 fw_model_sAg_Bs_4 ccgggagtttactagtgcaatttgttaaaatttagcctctagagc
miRsAg005 fw_model_sAg_Bs_5 ccgggagtttactagtgaaatttgttaaaatttagcctctagagc
miRsAg006 fw_model_sAg_Bs_6 ccgggagtttactagtaaaatttgttaaaatttagcctctagagc
miRsAg007 fw_model_sAg_Bs_7 ccgggagtttactagaaaaatttgttaaaatttagcctctagagc
miRsAg008 fw_model_sAg_Bs_8 ccgggctgggcaattataaatttgttaaaatttagcctctagagc
miRsAg009 fw_model_sAg_Bs_9 ccgggctgggcagccgcaaatttgttaaaggcccgcctctagagc
miRsAg010 fw_model_sAg_Bs_10 ccgggctgggcagctataattttgttaaaatttagcctctagagc
miRsAg011 fw_model_sAg_Bs_11 ccgggagtttacgccgtaaatttgttgaaggcccgcctctagagc
miRsAg012 fw_model_sAg_Bs_12 ccgggctgggcaattataaatttgttgaaatttagcctctagagc
miRsAg013 fw_model_sAg_Bs_13 ccgggtccttactagtgcaatttgttaaaggcccgcctctagagc
miRsAg014 fw_model_sAg_Bs_14 ccgggctgaatatagtgaaatttgttaaaatttagcctctagagc
miRsAg015 fw_model_sAg_Bs_15 ccgggagtttactacctaattttgttaaaatccggcctctagagc
miRsAg016 fw_model_sAg_Bs_16 ccgggctgggcctagtggattttgttaaaggcccgcctctagagc
miRsAg017 fw_model_sAg_Bs_17 ccgggagtttacattgcaaatttgttgaaggcccgcctctagagc
miRsAg018 fw_model_sAg_Bs_18 ccgggctgggactagtgcaatttgttgaaggcccgcctctagagc
miRsAg019 fw_model_sAg_Bs_20 ccgggagtttactagaaaattttgttaaaatttagcctctagagc
miRsAg020 fw_model_sAg_Bs_21 ccgggagtttactagaaaaatttgttgaaatttagcctctagagc
miRsAg021 fw_model_sAg_Bs_22 ccgggagtttactccgcaaccgctaggaaagcccgcctctagagc
miRsAg022 fw_model_sAg_Bs_23 ccgggctgggcatagataattttgttaaaatttagcctctagagc
miRsAg023 fw_model_sAg_Bs_24 ccgggctggtactagctaattttgttaaaatccggcctctagagc
miRsAg024 fw_model_sAg_Bs_25 ccgggagtttactagccgattttgttaaaggcccgcctctagagc
miRsAg025 fw_model_sAg_Bs_26 ccgggctgggcctagaaaaatttgttgaaatccggcctctagagc
miRsAg026 fw_model_sAg_Bs_27 ccgggcttttactagaaaaatttgttgaatttagcctctagagc
miRsAg027 fw_model_sAg_Bs_28 ccgggctggtactaggcaaatttgttgaaggcccgcctctagagc
miRsAg028 fw_model_sAg_Bs_29 ccggggctttactagaaaaatttgttaaaatttagcctctagagc
miRsAg029 fw_model_sAg_Bs_30 ccgggagtttactttaaaaatttgttaaaatttagcctctagagc
miRsAg030 rev_model_sAg_Bs_1 tcgagctctagagaacaaatgaacaaattatc
miRsAg031 rev_model_sAg_Bs_2 tcgagctctagagaacaaatgaacaaatgaacaaattatc
miRsAg032 rev_model_sAg_Bs_3 tcgagctctagaggctatatttgaacaaatggcactagtaaactc
miRsAg033 rev_model_sAg_Bs_4 tcgagctctagaggctaaattttaacaaattgcactagtaaactc
miRsAg034 rev_model_sAg_Bs_5 tcgagctctagaggctaaattttaacaaatttcactagtaaactc
miRsAg035 rev_model_sAg_Bs_6 tcgagctctagaggctaaattttaacaaattttactagtaaactc
miRsAg036 rev_model_sAg_Bs_7 tcgagctctagaggctaaattttaacaaatttttctagtaaactc
miRsAg037 rev_model_sAg_Bs_8 tcgagctctagaggctaaattttaacaaatttataattgcccagc
miRsAg038 rev_model_sAg_Bs_9 tcgagctctagaggcgggcctttaacaaatttgcggctgcccagc
miRsAg039 rev_model_sAg_Bs_10 tcgagctctagaggctaaattttaacaaaattatagctgcccagc
miRsAg040 rev_model_sAg_Bs_11 tcgagctctagaggcgggccttcaacaaatttacggcgtaaactc
miRsAg041 rev_model_sAg_Bs_12 tcgagctctagaggctaaatttcaacaaatttataattgcccagc
miRsAg042 rev_model_sAg_Bs_13 tcgagctctagaggcgggcctttaacaaattgcactagtaaggac
miRsAg043 rev_model_sAg_Bs_14 tcgagctctagaggctaaattttaacaaatttcactatattcagc
miRsAg044 rev_model_sAg_Bs_15 tcgagctctagaggccggattttaacaaaattaggtagtaaactc
miRsAg045 rev_model_sAg_Bs_16 tcgagctctagaggcgggcctttaacaaaatccactaggcccagc
miRsAg046 rev_model_sAg_Bs_17 tcgagctctagaggcgggccttcaacaaatttgcaatgtaaactc
miRsAg047 rev_model_sAg_Bs_18 tcgagctctagaggcgggccttcaacaaattgcactagtcccagc
miRsAg048 rev_model_sAg_Bs_20 tcgagctctagaggctaaattttaacaaaattttctagtaaactc
miRsAg049 rev_model_sAg_Bs_21 tcgagctctagaggctaaatttcaacaaatttttctagtaaactc
miRsAg050 rev_model_sAg_Bs_22 tcgagctctagaggcgggctttcctagcggttgcggagtaaactc
miRsAg051 rev_model_sAg_Bs_23 tcgagctctagaggctaaattttaacaaaattatctatgcccagc
miRsAg052 rev_model_sAg_Bs_24 tcgagctctagaggccggattttaacaaaattagctagtaccagc
miRsAg053 rev_model_sAg_Bs_25 tcgagctctagaggcgggcctttaacaaaatcggctagtaaactc
miRsAg054 rev_model_sAg_Bs_26 tcgagctctagaggccggatttcaacaaatttttctaggcccagc
miRsAg055 rev_model_sAg_Bs_27 tcgagctctagaggctaaattcaacaaatttttctagtaaaagc
miRsAg056 rev_model_sAg_Bs_28 tcgagctctagaggcgggccttcaacaaatttgcctagtaccagc
miRsAg057 rev_model_sAg_Bs_29 tcgagctctagaggctaaattttaacaaatttttctagtaaagcc
miRsAg058 rev_model_sAg_Bs_30 tcgagctctagaggctaaattttaacaaatttttaaagtaaactc
miRsAg059 Luc2_BS_seq_screen acgacgatgccggcgagctg



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