Difference between revisions of "Team:TUDelft/Primers/Main"

 
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     <td>EPO_J.2 </td>
+
     <td>EPO_J.2.2</td>
 
     <td>Targeting EPO exon-exon junction 2, version 2</td>
 
     <td>Targeting EPO exon-exon junction 2, version 2</td>
 
     <td>Fusion Protein</td>
 
     <td>Fusion Protein</td>

Latest revision as of 02:11, 18 October 2018

partssequences

Primers

ID Name Module Sequence (5' to 3')
001 fw_dxCas9 Fusion Protein atataGCGGCCGCtatggacaagaagtactccat
002 rv_dxCas9 Fusion Protein tatGGTACCttatGGCCGGCCcaccttcctcttcttcttgg
003 fw_dxCas9_mut_EcoRI Fusion Protein P-gcgaattttccaaaagagtgatcc
004 rv_dxCas9_mut_EcoRI Fusion Protein P-ttatttgctcgatgatctcatcaagg
005 fw_Tn5_afterC Fusion Protein tataGGCCGGCCtAAACTGGGCGGCGGCGCGCCGGCGGTGGGCGGCGGCCCGAAAGCGGCGGATAAAatgattaccagtgcactgcatc
006 rv_Tn5_afterC Fusion Protein tataGGTACCttagattttaatgccctgcgcca
007 fw_Tn5_beforeC Fusion Protein tataGAATTCtatgattaccagtgcactgcatc
008 rv_Tn5_beforeC Fusion Protein tataGCGGCCGCTTTATCCGCCGCTTTCGGGCCGCCGCCCACCGCCGGCGCGCCGCCGCCCAGTTTgattttaatgccctgcgcca
009 rv_dxCas9_mut1_GA Fusion Protein cattactaaagatctcttgcaggtagca
010 fw_dxCas9_mut1_GA Fusion Protein gctacctgcaagagatctttagtaatg
011 rv_dxCas9_mut2_GA Fusion Protein gaccttaacggtttgcagtattcc
012 fw_dxCas9_mut2_GA Fusion Protein ggaatactgcaaaccgttaagg
013 rv_dxCas9_mut3_GA Fusion Protein ccgttttgcaggtagtacag
014 fw_dxCas9_mut3_GA Fusion Protein ctgtactacctgcaaaacgg
015 rv_dxCas9_mut4_GA Fusion Protein tcgttacctttttgcagcac
016 fw_dxCas9_mut4_GA Fusion Protein tgctgcaaaaaggtaacgag
017 rv_dxCas9_mut5_GA Fusion Protein tacttgaaggctgccggc
018 fw_dxCas9_mut_GA Fusion Protein gccggcagccttcaag
019 fw_dxCas9_mut1_BL Fusion Protein P-gctacctgcaagagatctttagtaatg
020 rv_dxCas9_mut1_BL Fusion Protein P-agatccgattctttctgcgg
021 fw_dxCas9_mut2_BL Fusion Protein P-ggaatactgcaaaccgttaagg
022 rv_dxCas9_mut2_BL Fusion Protein P-ctttttgatagctgggctacct
023 fw_dxCas9_mut3_BL Fusion Protein P-ctgtactacctgcaaaacgg
024 rv_dxCas9_mut3_BL Fusion Protein P-gtagagcttctcattctgaagc
025 fw_dxCas9_mut4_BL Fusion Protein P-ctgcaaaaaggtaacgagctg
026 rv_dxCas9_mut4_BL Fusion Protein P-cacgcccgcactagc
027 fw_dxCas9_mut5_BL Fusion Protein P-gccggcagccttcaag
028 rv_dxCas9_mut5_BL Fusion Protein P-gcgcccaagttggtca
029 fw_T7_promoter General TAATACGACTCACTATAGGG
030 rv_T7_promoter General GCTAGTTATTGCTCAGCGG
031 VF2 General tgccacctgacgtctaagaa
032 VR General attaccgcctttgagtgagc
033 fw_sgRNA_1 Fusion Protein aagcTAATACGACTCACTATAGGGGAGGCCGAGAATATCA
034 rv_sgRNA_1 Fusion Protein AAAAGCACCGACTCGGTGCCACTT
035 fw_sgRNA_2 Fusion Protein aagcTAATACGACTCACTATAGGACAGCCCGTCGTGATATTCTGTTTTAGAGCTAGAAATAG
036 fw_adTn5_1 Fusion Protein CTAGCTGTCTCTTATACACATCTATTGGCGAAATGGATGAACTGTTTACCATGC
037 rv_adTn5_1 Fusion Protein GCATGGTAAACAGTTCATCCATTTCGCCAATAGATGTGTATAAGAGACAGCTAG
038 fw_1_AUpart d-AuNPs GATCGAATTCGCGGCCGCTTC
039 rv_1_AUpart d-AuNPs CGATTCTGCAGCGGCCGCTAC
040 fw_2_AUpart d-AuNPs GGAGGCCGAGAATATCACGA
041 rv_2_AUpart d-AuNPs TTGAGATCGTTTTGGTCTGC
042 fw_3_AUpart d-AuNPs CAGGTCGACAAGCTTGCG
043 fw_dCas9 Fusion Protein atataGCGGCCGCtatggataagaaatactcaataggcttagc
044 rv_dCas9 Fusion Protein tatGGTACCttatGGCCGGCCgtcacctcctagctgactc
045 fw_1_Tn5-L-dxCas9_Gblock Fusion Protein ACCATGGGCAGCAGC
046 rv_1_Tn5-L-dxCas9_Gblock Fusion Protein GTAGGGTATCCGAAATGTGAGGATTTTC
047 fw_2_Tn5-L-dxCas9_Gblock Fusion Protein GGGAAAAGATTGAGAAAATCCTCACATTTCG
048 rv_2_Tn5-L-dxCas9_Gblock Fusion Protein TGGCGTTCAAATTTCGCAGC
049 fw_pACYC-Duet_Backbone Fusion Protein GGTACCCTCGAGTCTGG
050 rv_pACYC-Duet_Backbone Fusion Protein GAATTCGGATCCTGGCTG
051 fw_BB_pSB1C3 BioBrick TACTAGTAGCGGCCGCTGC
052 rv_BB_pSB1C3 BioBrick CTAGAAGCGGCCGCGA
053 rv_BB_pSB1C3_extraNuc BioBrick CTCTAGAAGCGGCCGCGA
054 fw_BB_Tn5 BioBrick GCTAAGGATGATTTCTGGAATTCGCGGCCGCTTCTAGatgattaccagtgcactgcatcg
055 rv_BB_Tn5 BioBrick CCTTTTTTGCCGGACTGCAGCGGCCGCTACTAGTAttagattttaatgccctgcgccatc
056 fw_BB_dxCas9 BioBrick GCTAAGGATGATTTCTGGAATTCGCGGCCGCTTCTAGatggacaagaagtactccattgg
057 rv_BB_dxCas9 BioBrick CTTGCCCTTTTTTGCCGGACTGCAGCGGCCGCTACTAGTAttatggccggcccac
058 fw_BB_Linker BioBrick CGCTAAGGATGATTTCTGGAATTCGCGGCCGCTTCTAGAGGGCCGGCCtAAACTGG
059 rv_BB_Linker BioBrick CTTTTTTGCCGGACTGCAGCGGCCGCTACTAGTATTTATCCGCCGCTTTCGGGCCGCCGC
060 fw_BB_T7p BioBrick ATGATTTCTGGAATTCGCGGCCGCTTCTAGAGTAATACGACTCACTATAGGGGAATTGTG
061 rv_BB_T7p BioBrick TTGCCCTTTTTTGCCGGACTGCAGCGGCCGCTACTAGTAGCTAGTTATTGCTCAGCGGTG
062 fw_adTn5_2 Fusion Protein CTGTCTCTTATACACATCTATTGGCGAAATGGATGAACTGTTTACCATGC
063 rv_adTn5_2 Fusion Protein GCATGGTAAACAGTTCATCCATTTCGCCAATAGATGTGTATAAGAGACAG
064 rv_adTn5_label Fusion Protein Cy-GCATGGTAAACAGTTCATCCATTTCGCCAATAGATGTGTATAAGAGACAG
065 fw_1_AUpart d-AuNPs Cy-GATCGAATTCGCGGCCGCTTC
066 fw_bovine_albumin Sample Preparation TTGTTTCAACTCAAACAGCCTT
067 rv_bovine_albumin Sample Preparation AGAATCCCCATGGACAGAGA
068 fw_vectorxcas_spike Sample Preparation AGTAGCGGCCGCTGCAGaaggaagaggctgcaatctgtggc
069 rv_vectorxcas_spike Sample Preparation AGAAGCGGCCGCGAATTCcacacaagcagggagcagatactgg
070 fw_epo_spike Sample Preparation tgctccctgcttgtgtgGAATTCGCGGCCGCTTCT
071 rv_epo_spike Sample Preparation gattgcagcctcttccttCTGCAGCGGCCGCTAC
072 fw_epo_frag Sample Preparation GCCTCCCAGTCCTGGGCG
073 rv_epo_frag Sample Preparation GCAGTTGCAGGGGCTCCCAC
074 fw_epo_check Sample Preparation CCTGGAGAGGTACCTCTTGGAGGC
075 rv_epo_check Sample Preparation GCCCGACCTCCATCCTCTTCCAG
076 rv_adKan150 Fusion Protein catcctatggaactgcctcggtgagttttctccttc
077 rv_adKan300 Fusion Protein gaaatgcataagcttttgccattctcaccggattc
078 rv_adKan800 Fusion Protein gagccatattcaacgggaaacgtcttgctcc
079 fw_3_dxCas9-L-Tn5_Gblock Fusion Protein agaaataattttgtttaactttaataaggagatataccatgggc
080 rv_3_dxCas9-L-Tn5_Gblock Fusion Protein CTCGAATCAGTTTGTCATTTTCATCGTACTTG
081 fw_4_dxCas9-L-Tn5_Gblock Fusion Protein CCCAAATTCTCGATTCACGCATG
082 rv_4_dxCas9-L-Tn5_Gblock Fusion Protein tttagaggccccaaggggttatg
083 fw_2pACYC-Duet_Backbone Fusion Protein CTGCTGCCACCGCTG
084 rv_2pACYC-Duet_Backbone Fusion Protein GCTGCTGCCCATGGTATATC
085 fw_gblock1_mut_EcoRI Fusion Protein CAGGATCCGAATACTATGATTACC
086 rv_gblock1_mut_EcoRI Fusion Protein GGTAATCATAGTATTCGGATCCTG
087 fw_adTn5_Phos Fusion Protein P-CTGTCTCTTATACACATCT
088 fw_1_Tn5-dxCas9_Gblock_option2 Fusion Protein accatgggcagcagccatcaccatcatcaccacagcc
089 rv_1_Tn5-dxCas9_Gblock_option2 Fusion Protein cagggaaaagattgagaaaatcctcacatttcggataccctac
090 rv_BB_dxCas9_2 BioBrick CTGCAGCGGCCGCTACTAGTAttatGGCCGGCCcaccttcctcttcttcttg
091 fw_big_bovine_alb Sample Preparation CCCCCGTATCTGTCATTTCTTT
092 rv_big_bovine_alb Sample Preparation GGCATGGCAACCCACTGC
093 fw_dxcas_BL_bb BioBrick P-TACTAGTAGCGGCCGCTGCAGTCCGG
094 rv_dxcas_BL_bb BioBrick P-ttacaccttcctcttcttcttggggtcagccct
095 EPO-2 d-AuNPs TCCTGTCCCTGCTGTCGCTC
096 EPO-3 d-AuNPs GCCTGGAAGAGGATGGAGGT
097 EPO-4 d-AuNPs CTGCATGTGGATAAAGCCGT
098 EPO-5 d-AuNPs CGAACAATCACTGCTGACAC
099 fw_BB_sgRNA_EPO1 BioBrick gaattcgcggccgcttctagagGGAGGCCGAGAATATCAC
100 fw_BB_sgRNA_EPO2 BioBrick gaattcgcggccgcttctagagACAGCCCGTCGTGATATTCT
101 fw_BB_T7_sgRNA BioBrick gaattcgcggccgcttctagagaagcTAATACGACTCACTATAGG
102 rv_BB_sgRNA BioBrick ctgcagcggccgctactagtaGCACCGACTCGGTGCCAC
103 SeqTim_01 Sequencing GATATGAATAAATTGCAGTTTGTCGGGCAGCAGGCCGTAGA
104 SeqTim_02 Sequencing CATCATTGGCAACGCTACCCTCCATCCTCTTCCAGGCAT
105 SeqTim_03 Sequencing TCTACGGCCTGCTGCCCGACAAACTGCAATTTATTCATATC
106 SeqTim_04 Sequencing ATGCCTGGAAGAGGATGGAGGGTAGCGTTGCCAATGATG
107 SeqTim_05 Sequencing TTCGGGCTCTGGGAGCCCAGccgcctccatccagtctatt
108 SeqTim_06 Sequencing GGAGGGGAGATGGCTTCCTTgaatgaagccataccaaacg
109 SeqTim_07 Sequencing cgtttggtatggcttcattcAAGGAAGCCATCTCCCCTCC
110 SeqTim_08 Sequencing aatagactggatggaggcggCTGGGCTCCCAGAGCCCGAA
111 SeqTim_10 Sequencing P-CTGTCTCTTATACACATCTATGCGCTTCGAA
112 SeqTim_11 Sequencing AGCTTCGCGTATCTACACATATTCTCTGTC
113 SeqTim_12 Sequencing P-AGCTTCGCGTATCTACACATATTCTCTGTC
IV001 fw_IV1 In Vivo CCCTGAACCGACGACCGG
IV002 rv_IV1 In Vivo GCAGTGTGACCGTGTGCTTC
IV003 fw_IV2 In Vivo CTGAAACCTCAGGCATTTGAGAAGC
IV004 rv_IV2 In Vivo GAAATTCGAAAGCAAATTCGACCCGG
IV005 fw_KanR In Vivo CTAGCTGTCTCTTATACACATCTTTAGAAAAACTCATCGAGCATCAAATG
IV006 rv_KanR In Vivo GACTCTGTCTCTTATACACATCTATGAGCCATATTCAACGGG
IV007 fw_diagnostic In Vivo CCGGTAATAATCCACAGCAG
IV008 rv_diagnostic In Vivo CCAGATTCAGACAGCCAATC
IV009 fw_KanRCassetteME In Vivo CTAGCTGTCTCTTATACACATCTTAAcTAAcTAAcagctcgagtcccgtcaag
IV010 rv_KanRCassetteME In Vivo CTAGCTGTCTCTTATACACATCTTAAcTAAcTAAcaaagccacgttgtgtctc
IV011 fw_KanRCassette In Vivo TAAcTAAcTAAcagctcgagtcccgtc
IV012 rv_KanRCassette In Vivo TAAcTAAcTAAcaaagccacgttgtgtctc
IV013 fw_KanRCassetteME In Vivo cttggaCTGTCTCTTATACACATCTgacagctcgagtcccgtc
IV014 rv_KanRCassetteME In Vivo tgtcatCTGTCTCTTATACACATCTattcaacaaagccacgttgtgtctc
IV015 fw_KanRCassette In Vivo ctgacagctcgagtcccgtc
IV016 rv_KanRCassette In Vivo attcaacaaagccacgttgtgtctc
IV017 fw_KanRMEBiobrick BioBrick gaattcgcggccgcttctagagcttggaCTGTCTCTTATACACATCTgacag
IV018 rv_KanRMEBiobrick BioBrick tactagtagcggccgctgcagtgtcatCTGTCTCTTATACACATCTattcaacaaagc
IV019 rv_KanR internal BioBrick gcagtttcatttgatgctcgatgag
IV020 fw_KanR internal BioBrick ggctcataacaccccttgtattactg
IV021 fw target seq LacZ In Vivo TCGCACAGCGTGTACCACAG
IV022 rv target seq LacZ In Vivo CTGTGGTACACGCTGTGCG
IV023 fw_pSB1C3ori BioBrick GCAAGCAGCAGATTACGCG

ssDNAp

ID Name Module Sequence (5' to 3')
001 ssDNAp EPO 1 dAuNPs GGAGGCCGAGAATATCACGA
002 ssDNAp EPO 2 dAuNPs TCCTGTCCCTGCTGTCGCTC
003 ssDNAp EPO 3 dAuNPs GCCTGGAAGAGGATGGAGGT
004 ssDNAp EPO 4 dAuNPs CTGCATGTGGATAAAGCCGT
005 ssDNAp EPO 5 dAuNPs CGAACAATCACTGCTGACAC

sgRNA

ID Name Module Sequence (5' to 3')
001 sgRNA EPO 1 Fusion Protein aagcTAATACGACTCACTATAGGGGAGGCCGAGAATATCACGAGTTTTAGAGCTAGAAATAGCAAGTTAAAATAAGGCTAGTCCGTTATCAACTTGAAAAAGTGGCACCGAGTCGGTGCTTTT
002 sgRNA EPO 2 Fusion Protein TAATACGACTCACTATAGGACAGCCCGTCGTGATATTCTGTTTTAGAGCTAGAAATAGCAAGTTAAAATAAGGCTAGTCCGTTATCAACTTGAAAAAGTGGCACCGAGTCGGTGC
EPO_J1.1 Targeting EPO exon-exon junction 1, version 1 Fusion Protein GGGTGCACGAATGTCCTGCC
EPO_J1.2 Targeting EPO exon-exon junction 1, version 2 Fusion Protein ACGAATGTCCTGCCTGGCTG
EPO_J2.1 Targeting EPO exon-exon junction 2, version 1 Fusion Protein GGAGGCCGAGAATATCACGA
EPO_J.2.2 Targeting EPO exon-exon junction 2, version 2 Fusion Protein ACAGCCCGTCGTGATATTCT
EPO_J2.3 Targeting EPO exon-exon junction 2, version 3 Fusion Protein GAGGCCGAGAATATCACGAC
EPO_J3.1 Targeting EPO exon-exon junction 2, version 2 Fusion Protein CCTGGAAGAGGATGGAGGTC
EPO_J3.2 Targeting EPO exon-exon junction 3, version 1 Fusion Protein GAGGATGGAGGTCGGGCAGC
EPO_J3.1 Targeting EPO exon-exon junction 3, version 2 Fusion Protein CCTGGAAGAGGATGGAGGTC
EPO_J4.1 Targeting EPO exon-exon junction 4, version 1 Fusion Protein AGGGGAGATGGCTTCCTTCT
EPO_J4.2 Targeting EPO exon-exon junction 4, version 2 Fusion Protein TCGGGCTCTGGGAGCCCAGA
EPO_M1 Targeting EPO exon-exon junction 2 with 4 mismatches Fusion Protein
EPO_M2 Targeting EPO exon-exon junction 2 with 7 mismatches Fusion Protein GCACCCGGTGGTAATGTTTT
EPO_M3 Targeting EPO exon-exon junction 2 with 3 mismatches Fusion Protein GCACCCGGTCGTGATATTCT
EPO_M4 Targeting EPO exon-exon junction 2 with 3 mismatches Fusion Protein ACAGCCCGTCGTAATGTTTT
EPO_M5 Targeting EPO exon-exon junction 2 with 3 mismatches Fusion Protein GCAGCCCGTGGTGATATTTT

Adapters

ID Name Module Sequence (dsDNA)
036
037		 Adapter DNA short 1 Fusion Protein CTAGCTGTCTCTTATACACATCTATTGGCGAAATGGATGAACTGTTTACCATGC
GATCGACAGAGAATATGTGTAGATAACCGCTTTACCTACTTGACAAATGGTACG
062
063		 Adapter DNA short 2 Fusion Protein CTGTCTCTTATACACATCTATTGGCGAAATGGATGAACTGTTTACCATGC
GACAGAGAATATGTGTAGATAACCGCTTTACCTACTTGACAAATGGTACG
087
063		 Adapter DNA labelled Fusion Protein P-CTGTCTCTTATACACATCT
  GACAGAGAATATGTGTAGATAACCGCTTTACCTACTTGACAAATGGTACG
111
112		 Adapter Sequencing Sequencing P-CTGTCTCTTATACACATCTATGCGCTTCGAA
  GACAGAGAATATGTGTAGATACGCGAAGCT
111
113		 Adapter Sequencing Sequencing P-CTGTCTCTTATACACATCTATGCGCTTCGAA
  GACAGAGAATATGTGTAGATACGCGAAGCT-P