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Contents:In the table below, Illumina Nextera Handle sequences have been added and highlighted in bold. Primers for the on-target have been added for convenience. The table below is sorted by the CFD off-target score. Sites with very low CFD scores < 0.02 are unlikely to be cleaved, see our study Haeussler et al. 2016, Figure 2.
In the protocol by Matthew Canver, Harvard, two PCRs are run: one PCR to amplify the potential off-target, then a second PCR to extend the handles with Illumina barcodes. Please click here to download the protocol. Alternatively, you can have a look at Fu et al, 2014.
If a primer was not found, the reason is usually that the region around the off-target is too repetitive. To avoid unspecific primers, all repeats are masked for the primer design (not for off-target search). If you think that we should change the parameters here or should use different primer3 settings, please let us know.
| Name | Primer Sequence | Tm | CFD Score |
|---|---|---|---|
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52314138_F | TCGTCGGCAGCGTCGTCGATGGACTAGCAGGCAG | 60.2 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52314138_R | GTCTCGTGGGCTCGGAGCTACTAGGTTGCCCTTGG | 59.0 | 1.00 |
| mm3_intron_Megf11_chr9_64537659_F | Primer3: not found at this Tm | N.d. | 0.87 |
| mm3_intron_Megf11_chr9_64537659_R | Primer3: not found at this Tm | N.d. | 0.87 |
| mm4_intergenic_Kap|Etv6_chr6_133902220_F | Primer3: not found at this Tm | N.d. | 0.55 |
| mm4_intergenic_Kap|Etv6_chr6_133902220_R | Primer3: not found at this Tm | N.d. | 0.55 |
| mm4_intergenic_Gm10709|Tmem123_chr9_7752666_F | Primer3: not found at this Tm | N.d. | 0.55 |
| mm4_intergenic_Gm10709|Tmem123_chr9_7752666_R | Primer3: not found at this Tm | N.d. | 0.55 |
| mm3_intron_Hoxa10_chr6_52236795_F | Primer3: not found at this Tm | N.d. | 0.54 |
| mm3_intron_Hoxa10_chr6_52236795_R | Primer3: not found at this Tm | N.d. | 0.54 |
| mm4_intergenic_Slitrk1|Gm25901_chr14_109849273_F | Primer3: not found at this Tm | N.d. | 0.47 |
| mm4_intergenic_Slitrk1|Gm25901_chr14_109849273_R | Primer3: not found at this Tm | N.d. | 0.47 |
| mm3_intergenic_Actb|Fscn1_chr5_142955073_F | TCGTCGGCAGCGTCCAACCGTGAACAGCCCTACT | 59.9 | 0.36 |
| mm3_intergenic_Actb|Fscn1_chr5_142955073_R | GTCTCGTGGGCTCGGGCAGAAGACACAGAAGGCCT | 59.9 | 0.36 |
| mm4_intron_Scml4_chr10_42881770_F | Primer3: not found at this Tm | N.d. | 0.36 |
| mm4_intron_Scml4_chr10_42881770_R | Primer3: not found at this Tm | N.d. | 0.36 |
| mm3_exon_Caskin1_chr17_24504305_F | Primer3: not found at this Tm | N.d. | 0.35 |
| mm3_exon_Caskin1_chr17_24504305_R | Primer3: not found at this Tm | N.d. | 0.35 |
| mm4_intergenic_Tab3|Gyk_chrX_85643147_F | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Tab3|Gyk_chrX_85643147_R | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Gm26215|Gm15573_chr6_53013699_F | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Gm26215|Gm15573_chr6_53013699_R | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Cdh13|Gm24035_chr8_118330686_F | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intergenic_Cdh13|Gm24035_chr8_118330686_R | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416792_F | TCGTCGGCAGCGTCAAAGAGGTGGATGTCCGCTG | 60.0 | 0.23 |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416792_R | GTCTCGTGGGCTCGGCACCTCACCTGCCATTAGCT | 59.7 | 0.23 |
| mm3_exon_Tssc4/Trpm5_chr7_143070091_F | TCGTCGGCAGCGTCTGGAGGTCCAAGTGTTGTCC | 59.5 | 0.22 |
| mm3_exon_Tssc4/Trpm5_chr7_143070091_R | GTCTCGTGGGCTCGGGAACTCATGCCTCGGAGGTG | 60.4 | 0.22 |
| mm4_intron_Klc1_chr12_111784377_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Klc1_chr12_111784377_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Fut2|Sec1_chr7_45666382_F | TCGTCGGCAGCGTCGGGTGTACCTGCTGACATCC | 60.1 | 0.20 |
| mm4_intergenic_Fut2|Sec1_chr7_45666382_R | GTCTCGTGGGCTCGGCTGGCTATCATCCCAGCAGG | 59.9 | 0.20 |
| mm4_intergenic_Tspan18|Gm23380_chr2_93384036_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Tspan18|Gm23380_chr2_93384036_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm3_intergenic_Smlr1|Tmem200a_chr10_25696510_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm3_intergenic_Smlr1|Tmem200a_chr10_25696510_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Rnf130|Mir340_chr11_50058302_F | TCGTCGGCAGCGTCAGTGGCTTTAAGTCTGGGCT | 58.9 | 0.18 |
| mm4_intergenic_Rnf130|Mir340_chr11_50058302_R | GTCTCGTGGGCTCGGGCCTGTAATTACCTCGCCCA | 59.8 | 0.18 |
| mm4_intergenic_Parva|2310014F06Rik_chr7_112597411_F | TCGTCGGCAGCGTCCTGCCATTTCAGGGTCGGAA | 60.3 | 0.18 |
| mm4_intergenic_Parva|2310014F06Rik_chr7_112597411_R | GTCTCGTGGGCTCGGGGTCTGGCCTGAGAAACGAA | 59.9 | 0.18 |
| mm4_exon_Ppfibp2_chr7_107595167_F | TCGTCGGCAGCGTCGAAGGTCCCAGCAGCCAG | 60.0 | 0.17 |
| mm4_exon_Ppfibp2_chr7_107595167_R | GTCTCGTGGGCTCGGAAGGACCAACTGCCAACCAA | 60.0 | 0.17 |
| mm4_intron_Jazf1_chr6_52796292_F | TCGTCGGCAGCGTCAATAGGCTGTGAGCTCCAGC | 59.8 | 0.17 |
| mm4_intron_Jazf1_chr6_52796292_R | GTCTCGTGGGCTCGGGCGGAAGGCAATAGTGTCCT | 60.1 | 0.17 |
| mm4_exon_1700025G04Rik_chr1_151885856_F | TCGTCGGCAGCGTCAAGGGCTGCCTGGAATTCTC | 60.0 | 0.16 |
| mm4_exon_1700025G04Rik_chr1_151885856_R | GTCTCGTGGGCTCGGGGCAGAGATTCACATGGGGT | 59.7 | 0.16 |
| mm4_exon_Ciz1_chr2_32364661_F | TCGTCGGCAGCGTCCCATCACTTGGTATCCCTACC | 57.2 | 0.16 |
| mm4_exon_Ciz1_chr2_32364661_R | GTCTCGTGGGCTCGGTGTGACCTGCTGTGGGATTT | 59.5 | 0.16 |
| mm4_intron_Lmx1a_chr1_167789815_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intron_Lmx1a_chr1_167789815_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797404_F | TCGTCGGCAGCGTCCACTGGACAGTTGGACCCTC | 59.9 | 0.14 |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797404_R | GTCTCGTGGGCTCGGCTACAGGGCAGCTGCTTTCT | 60.0 | 0.14 |
| mm4_intergenic_Klf11|Cys1_chr12_24665396_F | TCGTCGGCAGCGTCATACCTGGTACCTGGGCAGT | 59.9 | 0.14 |
| mm4_intergenic_Klf11|Cys1_chr12_24665396_R | GTCTCGTGGGCTCGGGCCGACTGATGAGCTGTGAT | 60.1 | 0.14 |
| mm4_exon_Zfp663_chr2_165358431_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_exon_Zfp663_chr2_165358431_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Zswim4|D8Ertd738e_chr8_84245699_F | TCGTCGGCAGCGTCTCCAGAGGCGGAGGTATTGA | 60.0 | 0.12 |
| mm4_intergenic_Zswim4|D8Ertd738e_chr8_84245699_R | GTCTCGTGGGCTCGGCAGGACACAGTTGCTGTCCT | 59.8 | 0.12 |
| mm4_exon_Col15a1_chr4_47245342_F | TCGTCGGCAGCGTCCACAGCCTCTCTCCCTCTCT | 60.0 | 0.11 |
| mm4_exon_Col15a1_chr4_47245342_R | GTCTCGTGGGCTCGGTGGGACACCAATGAGCACTG | 60.2 | 0.11 |
| mm4_intergenic_Mpl|Tie1_chr4_118457532_F | TCGTCGGCAGCGTCATCTTCTCCGGCACTGTGTG | 60.0 | 0.11 |
| mm4_intergenic_Mpl|Tie1_chr4_118457532_R | GTCTCGTGGGCTCGGGACGTGGGGCTGTATCTGAC | 60.1 | 0.11 |
| mm4_intergenic_Rab11a|Dennd4a_chr9_64754625_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Rab11a|Dennd4a_chr9_64754625_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intron_Micu3_chr8_40378380_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Micu3_chr8_40378380_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Mxi1_chr19_53348159_F | TCGTCGGCAGCGTCAATCTGGTGTCCCTCTGTGC | 59.6 | 0.10 |
| mm4_intron_Mxi1_chr19_53348159_R | GTCTCGTGGGCTCGGGAAGAGAGCTGTGAGGCCTG | 60.1 | 0.10 |
| mm4_intergenic_Foxo1|Gm10293_chr3_52589936_F | TCGTCGGCAGCGTCCAACACTAGCAGGAGAGGGC | 60.1 | 0.10 |
| mm4_intergenic_Foxo1|Gm10293_chr3_52589936_R | GTCTCGTGGGCTCGGACCGTGTCTCTCTCTGCTCT | 59.9 | 0.10 |
| mm4_intron_Chat_chr14_32460592_F | TCGTCGGCAGCGTCGCTGTAGACTCTGAGCGTCC | 59.9 | 0.09 |
| mm4_intron_Chat_chr14_32460592_R | GTCTCGTGGGCTCGGGACCCAGGCGTTGTCCCT | 61.6 | 0.09 |
| mm4_intron_Atxn1_chr13_45964126_F | TCGTCGGCAGCGTCCTCACGCAAAGTCCCCTCTT | 59.9 | 0.09 |
| mm4_intron_Atxn1_chr13_45964126_R | GTCTCGTGGGCTCGGGCCTAGCTTGACAGAGGCAA | 60.0 | 0.09 |
| mm3_intron_Rwdd2a_chr9_86572362_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm3_intron_Rwdd2a_chr9_86572362_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Pacsin2_chr15_83443647_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Pacsin2_chr15_83443647_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Fryl_chr5_73052957_F | TCGTCGGCAGCGTCCAGTGGATGAGCTCTGACGG | 60.1 | 0.08 |
| mm4_intron_Fryl_chr5_73052957_R | GTCTCGTGGGCTCGGTCTGTGATCTCATGCACCCC | 59.4 | 0.08 |
| mm4_exon_Nbea_chr3_56183422_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Nbea_chr3_56183422_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Drosha_chr15_12853326_F | TCGTCGGCAGCGTCATTGGTCTGGTGCTCCTGTG | 59.9 | 0.08 |
| mm4_intron_Drosha_chr15_12853326_R | GTCTCGTGGGCTCGGTGACTTCGTCATCAGCACGG | 60.3 | 0.08 |
| mm4_intergenic_Lrrtm3|Ctnna3_chr10_64138046_F | TCGTCGGCAGCGTCGGCCACTTGAGAGAGAAGCC | 60.3 | 0.07 |
| mm4_intergenic_Lrrtm3|Ctnna3_chr10_64138046_R | GTCTCGTGGGCTCGGACCCGGTTGTTTTGCTCAGT | 60.3 | 0.07 |
| mm4_intron_Lmx1b_chr2_33595582_F | TCGTCGGCAGCGTCGCTGGGTATGAAGCTTCCCA | 59.7 | 0.07 |
| mm4_intron_Lmx1b_chr2_33595582_R | GTCTCGTGGGCTCGGGTGTCCCTGCAACAGCAATG | 60.0 | 0.07 |
| mm4_exon_Dpy19l1_chr9_24502915_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Dpy19l1_chr9_24502915_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Tnfsf13b|Myo16_chr8_10196559_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Tnfsf13b|Myo16_chr8_10196559_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Mthfsd|Foxc2_chr8_121115120_F | TCGTCGGCAGCGTCCCTGGTCCTCAGCTCACCTT | 61.1 | 0.06 |
| mm4_intergenic_Mthfsd|Foxc2_chr8_121115120_R | GTCTCGTGGGCTCGGCTTCCCTAGCTGTTGCCGG | 60.4 | 0.06 |
| mm4_exon_Ankrd52_chr10_128389266_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Ankrd52_chr10_128389266_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Rad50_chr11_53704584_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Rad50_chr11_53704584_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Hvcn1_chr5_122214293_F | TCGTCGGCAGCGTCCTGCTTCTCTTTGCTGCAGC | 60.1 | 0.06 |
| mm4_intron_Hvcn1_chr5_122214293_R | GTCTCGTGGGCTCGGAGATTGTGTGACAGGAGGCG | 60.0 | 0.06 |
| mm4_intergenic_2410088K16Rik|Sh3bp4_chr1_88879641_F | TCGTCGGCAGCGTCTGCAGATACAAGCGATGGCA | 60.1 | 0.05 |
| mm4_intergenic_2410088K16Rik|Sh3bp4_chr1_88879641_R | GTCTCGTGGGCTCGGTGCTGAGGCCTCAACAAACA | 60.1 | 0.05 |
| mm4_intron_Dab2ip_chr2_35627628_F | TCGTCGGCAGCGTCTGCTGGGAGCTGAAGTCTTG | 59.9 | 0.05 |
| mm4_intron_Dab2ip_chr2_35627628_R | GTCTCGTGGGCTCGGCATCACAGCCGCTCCTTCTC | 60.8 | 0.05 |
| mm4_intergenic_Oxtr|U6_chr6_112509855_F | TCGTCGGCAGCGTCGCACCTAACAGGGCTGTGAG | 60.6 | 0.05 |
| mm4_intergenic_Oxtr|U6_chr6_112509855_R | GTCTCGTGGGCTCGGCTACAGTAGAGAAGGGCTCCC | 58.6 | 0.05 |
| mm3_intergenic_Gm12041|Vps54_chr11_21231508_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_intergenic_Gm12041|Vps54_chr11_21231508_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Btnl7-ps|Notch4_chr17_34556828_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Btnl7-ps|Notch4_chr17_34556828_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Ctdsp1|Vil1_chr1_74397354_F | TCGTCGGCAGCGTCCGGAAGGCTGGGCAGATTAA | 60.1 | 0.04 |
| mm4_intergenic_Ctdsp1|Vil1_chr1_74397354_R | GTCTCGTGGGCTCGGCAGTCTCCTCCTTGCTGGC | 60.0 | 0.04 |
| mm4_intron_Themis2_chr4_132792839_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Themis2_chr4_132792839_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_n-R5s96|Cldn24_chr8_47768898_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_n-R5s96|Cldn24_chr8_47768898_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Fam25c|Sncg_chr14_34357763_F | TCGTCGGCAGCGTCCAAAAGTCAGCCCACACAGC | 59.9 | 0.03 |
| mm4_intergenic_Fam25c|Sncg_chr14_34357763_R | GTCTCGTGGGCTCGGCTGGGCAAAGGGTAGTCGAG | 60.1 | 0.03 |
| mm4_intron_Mtus1_chr8_41133453_F | TCGTCGGCAGCGTCGAAACCCACTAGGACACCCG | 60.0 | 0.03 |
| mm4_intron_Mtus1_chr8_41133453_R | GTCTCGTGGGCTCGGGAGTGGATCCCATTCCGTCG | 60.2 | 0.03 |
| mm4_intron_Tshz1_chr18_84085159_F | TCGTCGGCAGCGTCGTGTCAGGTTCAGACTCCCC | 59.6 | 0.03 |
| mm4_intron_Tshz1_chr18_84085159_R | GTCTCGTGGGCTCGGAAACTTCACCGGGTCCGC | 60.2 | 0.03 |
| mm4_intergenic_Hmga2|Gm24298_chr10_120477282_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Hmga2|Gm24298_chr10_120477282_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Pik3c2b_chr1_133054530_F | TCGTCGGCAGCGTCTTCCTTTGGCCTTCCTGGAC | 59.8 | 0.03 |
| mm4_intron_Pik3c2b_chr1_133054530_R | GTCTCGTGGGCTCGGGCACCCAGGGAAACAGACTT | 60.1 | 0.03 |
| mm4_intergenic_Limd1|Sacm1l_chr9_123529755_F | TCGTCGGCAGCGTCTCTTTGGTCCGCTCCAATCC | 60.0 | 0.02 |
| mm4_intergenic_Limd1|Sacm1l_chr9_123529755_R | GTCTCGTGGGCTCGGGTGGTCAAGGAGCCTCGG | 59.7 | 0.02 |
| mm4_intron_Memo1_chr17_74294452_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Memo1_chr17_74294452_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Nr0b1_chrX_86192829_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Nr0b1_chrX_86192829_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Prkce_chr17_86418257_F | TCGTCGGCAGCGTCCAAGGGTTGGGCCTCTATGG | 60.1 | 0.02 |
| mm4_intron_Prkce_chr17_86418257_R | GTCTCGTGGGCTCGGTCTTACCCAGCTTGCACCTG | 59.9 | 0.02 |
| mm4_intergenic_Zfpm2|4930555K19Rik_chr15_41166339_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Zfpm2|4930555K19Rik_chr15_41166339_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Nudt8/Gm16312_chr19_4000659_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Nudt8/Gm16312_chr19_4000659_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Nacad_chr11_6599663_F | TCGTCGGCAGCGTCTGTGGATCCTGAGGTGGTGA | 60.1 | 0.01 |
| mm4_exon_Nacad_chr11_6599663_R | GTCTCGTGGGCTCGGCTCCAGACCCCTGCCTGT | 60.6 | 0.01 |
| mm4_intergenic_Scnn1g|Scnn1b_chr7_121865029_F | TCGTCGGCAGCGTCGACTAACCCAGGAAGGCAGG | 59.7 | 0.01 |
| mm4_intergenic_Scnn1g|Scnn1b_chr7_121865029_R | GTCTCGTGGGCTCGGGGAGCTGGGTCACCTGTAGA | 60.6 | 0.01 |
| mm4_intron_Ppp1r16a_chr15_76671926_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Ppp1r16a_chr15_76671926_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Ap3m2|1700041G16Rik_chr8_22807961_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Ap3m2|1700041G16Rik_chr8_22807961_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gpd1l|Osbpl10_chr9_114937141_F | TCGTCGGCAGCGTCACTTGCCCACCTTTCTGCTT | 60.1 | 0.01 |
| mm4_intergenic_Gpd1l|Osbpl10_chr9_114937141_R | GTCTCGTGGGCTCGGTAGCCTGCTCTGCCAAGAAC | 60.0 | 0.01 |
| mm4_exon_Foxk2_chr11_121296977_F | TCGTCGGCAGCGTCCTGTCTGCTCACTCCAGTGG | 60.0 | 0.01 |
| mm4_exon_Foxk2_chr11_121296977_R | GTCTCGTGGGCTCGGCAAACCTGGCCTCCTGGATG | 60.6 | 0.01 |
| mm4_intergenic_Gm20672|Abcg2_chr6_58545186_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm20672|Abcg2_chr6_58545186_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Igf2_chr7_142655705_F | TCGTCGGCAGCGTCGCGGTCCGAACAGACAAACT | 60.8 | 0.00 |
| mm4_exon_Igf2_chr7_142655705_R | GTCTCGTGGGCTCGGTGGGGAAGTCGATGTTGGTG | 59.9 | 0.00 |
| mm4_intergenic_Zbtb10|Gm22604_chr3_9347106_F | TCGTCGGCAGCGTCGAGGTGGTGGTGGAAGGAAC | 60.2 | 0.00 |
| mm4_intergenic_Zbtb10|Gm22604_chr3_9347106_R | GTCTCGTGGGCTCGGGTTCTGCACTGGATCCCTGG | 60.3 | 0.00 |
| mm4_exon_1700012B09Rik_chr9_14770914_F | TCGTCGGCAGCGTCGTTGGCGAGACTCTTGGGG | 60.3 | 0.00 |
| mm4_exon_1700012B09Rik_chr9_14770914_R | GTCTCGTGGGCTCGGAGACCCCGGTGGCATGAG | 61.4 | 0.00 |
| mm4_exon_Micall1_chr15_79120773_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Micall1_chr15_79120773_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Kif6_chr17_49693516_F | TCGTCGGCAGCGTCAGCCACCTCCCTATGCCTTA | 60.0 | 0.00 |
| mm4_intron_Kif6_chr17_49693516_R | GTCTCGTGGGCTCGGATGCGGATGGGCTGTAAGTC | 60.1 | 0.00 |
These only list off-targets that have primers in the table above. Primers underlined, off-targets in bold.
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52314138 |
GTCGATGGACTAGCAGGCAGTGCTGCAGGGCTGGGCGCCGAGCCACGGTCTGCTGGAGCGGCCATGCTTGGCCCGGGACC CCCAGTCCCCTCCGCGGACAGCCTCTCTGGCCAAGGGCAACCTAGTAGCT |
| mm3_intergenic_Actb|Fscn1_chr5_142955073 | CAACCGTGAACAGCCCTACTGAGCCATCCTCCTGGGACAGCCTCTCAGGCCAGGCCTTCTGTGTCTTCTGC |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416792 |
AAAGAGGTGGATGTCCGCTGCTGACCCAAATGCAAGTCCCACTACTGACAGCCTCTCTGGGACTTTCCACCCAGGGGCTG CTGTCCTGAGCTCCCAGAATCCCTAGCTAATGGCAGGTGAGGTG |
| mm3_exon_Tssc4/Trpm5_chr7_143070091 |
TGGAGGTCCAAGTGTTGTCCCCAGAGAGGCTTTCGGAGGAGGGCCAGGAGGACTCCGGCCCTGAGGACCCTCCATCGCCC CCCACGGGCACCCTCACCACTGCAGTGCAGCCATTCCACCTCCGAGGCATGAGTTC |
| mm4_intergenic_Fut2|Sec1_chr7_45666382 |
GGGTGTACCTGCTGACATCCTAGAACCAGAGAGGCTGGACCCGGAGGAGGCAGTCAAAGGTTAGCTTCCTCTCAGGTGCC TGCTGGGATGATAGCCAG |
| mm4_intergenic_Rnf130|Mir340_chr11_50058302 |
AGTGGCTTTAAGTCTGGGCTAAAGATGGGTATGGATAGGAACAGAGGTTGACGTAACCAGAGTGGCTGGCCATGGAGGGA TGGGCGAGGTAATTACAGGC |
| mm4_intergenic_Parva|2310014F06Rik_chr7_112597411 |
CTGCCATTTCAGGGTCGGAATATCCAGAGAGGCCCTCTGTGGAGGGGGCTTATATCCCCCATGAGACCCTTTTCTTGCAG GTCAGGTTCCCATTCGTTTCTCAGGCCAGACC |
| mm4_exon_Ppfibp2_chr7_107595167 |
GAAGGTCCCAGCAGCCAGAGAGCCACACTCCGGGACCAGCCTCTCTGGGATCCCCGCCTCCGTCACGTGGGTGCCGAACC GGGTCGGTGCTGGCGGGTCTGCCACTTGGTTGGCAGTTGGTCCTT |
| mm4_intron_Jazf1_chr6_52796292 |
AATAGGCTGTGAGCTCCAGCCAGCTCTGGCCCCGCTCCCACACCACAGAATCCACTGGGGTGAAGAAGCCAAGCCTGAGA GGCTCCCCAGGGAGGGACGGGCAGAGGACACTATTGCCTTCCGC |
| mm4_exon_1700025G04Rik_chr1_151885856 |
AAGGGCTGCCTGGAATTCTCAAGCAGAGAGGCGCAGCCCTGTGGCTGGAAAAGCCGCCCTCAGCCTCCAGCCTCTCTGGG GACCTCACCCCATGTGAATCTCTGCC |
| mm4_exon_Ciz1_chr2_32364661 |
CCATCACTTGGTATCCCTACCAGGACCCCAGCGTGGACAGCCTTTCGGGGTGACTTTCAAAAGATGCGTGGATGATTCGA GAGAGAAAAAAATCCCACAGCAGGTCACA |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797404 |
CACTGGACAGTTGGACCCTCCTGTCTGTCCTGCTTGCCCACCGCAGACAACCTTTCTGGTGACTCGAGAAAGCAGCTGCC CTGTAG |
| mm4_intergenic_Klf11|Cys1_chr12_24665396 |
ATACCTGGTACCTGGGCAGTACAGGAGATGCTCCTGTAGGCTGCAGTGATACCCAAGCCCACCTCGTGCAGCCTCTCTGG AGCCTGAGTTTCCCAGGATCACAGCTCATCAGTCGGC |
| mm4_intergenic_Zswim4|D8Ertd738e_chr8_84245699 |
TCCAGAGGCGGAGGTATTGACAACCACTTCGAGGCCAGCCTCTCAGGGCACCCTCCACGCTCACAGGATAGCAACTGTGT CCTGGTATGACTAAAATCCACGCTCATAGGACAGCAACTGTGTCCTG |
| mm4_exon_Col15a1_chr4_47245342 |
CACAGCCTCTCTCCCTCTCTCCCTCCCTGCAGGGTCAGCCTCTCAGGTTCACCTGGACCTCACAGTGCTCATTGGTGTCC CA |
| mm4_intergenic_Mpl|Tie1_chr4_118457532 |
ATCTTCTCCGGCACTGTGTGCCTGCCTTAGCCCATCCTCCCTTCAGGAAGCTGGGCCCCAATCCCCCCCGGGGCCAGCCC CTCAGGTTCCTGTCAGATACAGCCCCACGTC |
| mm4_intron_Mxi1_chr19_53348159 |
AATCTGGTGTCCCTCTGTGCCAGAGGTACAGCACTGCAGAAGTCATAGGCTAGGACCCTCCTTACGGCAGGGTCCAACCA TCTGCTGACAGCCTCGCAGGAGCTGTCAGGCCTCACAGCTCTCTTC |
| mm4_intergenic_Foxo1|Gm10293_chr3_52589936 |
CAACACTAGCAGGAGAGGGCCCTGAAAGGCAGTCCGAGGAGGCAGACCTCATTCTTCTAGAACTGTTCAAGAGCAGAGAG AGACACGGT |
| mm4_intron_Chat_chr14_32460592 |
GCTGTAGACTCTGAGCGTCCCGGAATCTCTGGGCCTGGGAAGCTGTCCCTCGGTGGACAGCTCCTCCGGAGAAGGACANN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGGACAACGCCTGGGTC |
| mm4_intron_Atxn1_chr13_45964126 |
CTCACGCAAAGTCCCCTCTTGGTCCCCTCGTAGCCCCGAGAGGCTGGCCTAGGCGGGGAGACCCCAAGCTCGGGGTTGCC TCTGTCAAGCTAGGC |
| mm4_intron_Fryl_chr5_73052957 |
CAGTGGATGAGCTCTGACGGGCTAAGAGCATCAGGAAAAGCAACTTCTCCCCTCCGCGGAGAGCACCCCTGGAACTAATC TATACTTGCCCAAAAACATTGCTATGGGGGTGCATGAGATCACAGA |
| mm4_intron_Drosha_chr15_12853326 | ATTGGTCTGGTGCTCCTGTGCTTCTTCCAGAGACGCTGTCCTCTGATGGCACCGTGCTGATGACGAAGTCA |
| mm4_intergenic_Lrrtm3|Ctnna3_chr10_64138046 |
GGCCACTTGAGAGAGAAGCCTCTTATTGTACCTAATGTACCAAATGCTTCAACACCCGGAGAGGCAGTGCAGGGAGGGGC TCCCAGACCACTTACTGAGCAAAACAACCGGGT |
| mm4_intron_Lmx1b_chr2_33595582 |
GCTGGGTATGAAGCTTCCCATACAGCCAAAGAGGCTGTCCGGGGTGTGCTAATTTTTCAGTCCTTTCCTTGGGGACTTGG TGTCTCTTGCCAGTGTCAACATTGCTGTTGCAGGGACAC |
| mm4_intergenic_Mthfsd|Foxc2_chr8_121115120 |
CCTGGTCCTCAGCTCACCTTATCAAAACTCAGTAAAACAAACAGCCTGAAATACAGTCAATTTACAGGATCCCAAAGATG CTGACCGCGGAGTGGGACCCACGCCGGGCCCCGGCAACAGCTAGGGAAG |
| mm4_intron_Hvcn1_chr5_122214293 |
CTGCTTCTCTTTGCTGCAGCCCCTTCACTCTCGCCCCTCCGCTCCTCGGACAGACCCTCCGGGTTCCAGTGTGTCTACCT GGGCCGCCTCCTGTCACACAATCT |
| mm4_intergenic_2410088K16Rik|Sh3bp4_chr1_88879641 |
TGCAGATACAAGCGATGGCATGCCCTGCTTACGGCCCTCCTGGGACTGCCACTCTGGTAAAAATAAAATGCCAATGTTTG TTGAGGCCTCAGCA |
| mm4_intron_Dab2ip_chr2_35627628 |
TGCTGGGAGCTGAAGTCTTGTTTTCTGTTCAGGAGATATTTAGGGAGTCAGCCCCCACCCTGCTCCGCTTTGCCGGCCCT GGCCCCGGCCCCTGGGAGGTTGTGCGGGGAGGGGGCACTGAGAAGGAGCGGCTGTGATG |
| mm4_intergenic_Oxtr|U6_chr6_112509855 |
GCACCTAACAGGGCTGTGAGGAATACACACAATCTGTATTAAAAGAGCCTGGTGCGGGGGAGGTTATTAAATTTGAGGAC AGAGCCTGTGAGGCTGGCAGCAGAGGGATAGCAAGGGAGCCCTTCTCTACTGTAG |
| mm4_intergenic_Ctdsp1|Vil1_chr1_74397354 | CGGAAGGCTGGGCAGATTAAGGCGGCCCTCGGCCGACAGCCTTCCGGGCAATGGGGCCAGCAAGGAGGAGACTG |
| mm4_intergenic_Fam25c|Sncg_chr14_34357763 |
CAAAAGTCAGCCCACACAGCCCAAGGTGCTGTTCCTTCCCCCTGCCCTTCAGGCCCTGCTGCCCAGGAACACTGCCCTTC CTAGGACAGCGTCTCTGGGTGAGCACTCCAGTGATGTCACTCGACTACCCTTTGCCCAG |
| mm4_intron_Mtus1_chr8_41133453 |
GAAACCCACTAGGACACCCGCCCCCCTCCCCGGAAAGCCAGTCCGGTCACCGTGAGTGCGTTGCAGTCGCCGCTCCCCAG CTCCTCGTTCTCCGGAGGTCCCCACCGCGGCCGGGATGGGCGACGGAATGGGATCCACTC |
| mm4_intron_Tshz1_chr18_84085159 |
GTGTCAGGTTCAGACTCCCCGCCTTCCCAGGACTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNTGCCCAGGCCTGCACGCCGCTGGCTCCGAGCGGACCCGGTGAAGTTT |
| mm4_intron_Pik3c2b_chr1_133054530 |
TTCCTTTGGCCTTCCTGGACCAGGAAATAAATAACTAGCCATTTCTGGCACTCACAAGAGGTCCTGGAATCCTCTGGGGA CAGGCTCTCTGGGGTCTGTACTTTCCTGGAAGTCTGTTTCCCTGGGTGC |
| mm4_intergenic_Limd1|Sacm1l_chr9_123529755 |
TCTTTGGTCCGCTCCAATCCGCGCATCGGAGGCGTGCCTCGCAGCTCACTGGTTTGTCCGCCGCCGGCTCCCGTGCTCGC CCGAGAGGCGGACCCGGGAGGGGGTGGGGCCAGGCCGAGGCTCCTTGACCAC |
| mm4_intron_Prkce_chr17_86418257 |
CAAGGGTTGGGCCTCTATGGCTAATCAGTAATAGGCTGTGGCTATCCATCTCCAGGGAAGGTGTCCGCGTAGGGACAGGG GATGCACCACAGGTGCAAGCTGGGTAAGA |
| mm4_exon_Nacad_chr11_6599663 |
TGTGGATCCTGAGGTGGTGATGGCGGCAGCTCCCTGGGCTCCTGCCCGAGGCATCGGGCCACGCGAGGCTGGGGGCTTCT CTTCTTCCTCAGAGGCTTTCTGGGGAGGGGGGCACAGGCAGGGGTCTGGAG |
| mm4_intergenic_Scnn1g|Scnn1b_chr7_121865029 |
GACTAACCCAGGAAGGCAGGCTCCTCCCGCAAGCCCTCCCGGTAGGTCCCCGCCCTCCGCTCTCCCTCCGCCTACAGCGT CCCGGGCTCTACAGGTGACCCAGCTCC |
| mm4_intergenic_Gpd1l|Osbpl10_chr9_114937141 |
ACTTGCCCACCTTTCTGCTTCAGTGTGCCCCTCCCCTTACAGCCTCTGGGGCGTGATCTTTGTTCTTGGCAGAGCAGGCT A |
| mm4_exon_Foxk2_chr11_121296977 |
CTGTCTGCTCACTCCAGTGGCGCCCAGACCCCCGAGAGCCTGTCGAGGGAGGGCTCCCCAGCCCCCTTGGAGCCTGAGCC TGGCGCCTCACAGCCCAAGCTTGCCGTCATCCAGGAGGCCAGGTTTG |
| mm4_exon_Igf2_chr7_142655705 |
GCGGTCCGAACAGACAAACTGAAGCGTGTCAACAAGCTCCCCTCCGCACAGAGTCTCTCCGGGGCCGTAAGCAGCGATGC AGCACAAGGCGAAGGCCAAAGAGATGAGAAGCACCAACATCGACTTCCCCA |
| mm4_intergenic_Zbtb10|Gm22604_chr3_9347106 |
GAGGTGGTGGTGGAAGGAACCTGGGCTTGCCCCCTGGCGCCTTGAGCCCACTAGGGTCCCTGGCGTCACCGCGCCGTTGC CTGCTCCTCCCCTCTCCGCGGACAGCAGCTGCGGCCAGGGATCCAGTGCAGAAC |
| mm4_exon_1700012B09Rik_chr9_14770914 |
GTTGGCGAGACTCTTGGGGGCCACCAGGCTCAGCACGGGTGCGGCACCCCAGCCCTGCCGGCCTAGGCTGCTCCCCTTCG CGGCCCGCCTCTGAGGCTGTCCCTGCCAGCGCCTCCTGCCGCCTCATGCCACCGGGGTCT |
| mm4_intron_Kif6_chr17_49693516 |
AGCCACCTCCCTATGCCTTATGCCCTCCTTCTTCACAGCATGCAGGTCCCCAGAGCTTGTCCTCGGAGGGGGCCTTTTTG GGACTTACAGCCCATCCGCAT |