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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_Kcnq4_chr4_120715325_F | TCGTCGGCAGCGTCTGCCCAGCCATGTATGTGG | 60.0 | 1.00 |
| ontarget_mm0_exon_Kcnq4_chr4_120715325_R | GTCTCGTGGGCTCGGGTCCTTGTGTCAGGTCCCTG | 59.9 | 1.00 |
| mm3_exon_Kcnq3_chr15_66023721_F | TCGTCGGCAGCGTCGCAATCAGACGTCCTTCCCA | 60.0 | 0.88 |
| mm3_exon_Kcnq3_chr15_66023721_R | GTCTCGTGGGCTCGGGGAAACCCTGTCTGAACGCT | 60.2 | 0.88 |
| mm3_exon_Kcnq5_chr1_21487297_F | TCGTCGGCAGCGTCCAGAGAGCAGTCTTCCCAGC | 60.1 | 0.70 |
| mm3_exon_Kcnq5_chr1_21487297_R | GTCTCGTGGGCTCGGTGTCTCCCATTCCTAGGTCCT | 59.3 | 0.70 |
| mm4_intergenic_Sox9|Gm11681_chr11_112789910_F | Primer3: not found at this Tm | N.d. | 0.46 |
| mm4_intergenic_Sox9|Gm11681_chr11_112789910_R | Primer3: not found at this Tm | N.d. | 0.46 |
| mm4_intron_Kcnq4_chr4_120731814_F | TCGTCGGCAGCGTCACGCGGTAGTACTGAGTCCT | 60.0 | 0.43 |
| mm4_intron_Kcnq4_chr4_120731814_R | GTCTCGTGGGCTCGGTGAGCCCCTTACCAGGATCT | 59.6 | 0.43 |
| mm4_intergenic_Gm13577|Gm13576_chr2_64561481_F | TCGTCGGCAGCGTCGCATCAAGGCAGCACACAAA | 59.9 | 0.38 |
| mm4_intergenic_Gm13577|Gm13576_chr2_64561481_R | GTCTCGTGGGCTCGGACTAACAGACAGGACCTCCCA | 59.8 | 0.38 |
| mm4_exon_Fam114a1_chr5_64979727_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_exon_Fam114a1_chr5_64979727_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Macrod2_chr2_141542106_F | TCGTCGGCAGCGTCGATTCGAGTTCCTGCTGGGG | 60.4 | 0.32 |
| mm4_intron_Macrod2_chr2_141542106_R | GTCTCGTGGGCTCGGGAAGGCAGGAGGACCACAAA | 59.8 | 0.32 |
| mm4_intergenic_Ctif|Gm10532_chr18_75481245_F | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intergenic_Ctif|Gm10532_chr18_75481245_R | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intron_Srbd1_chr17_86055099_F | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intron_Srbd1_chr17_86055099_R | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intergenic_Ccnd1|Tpcn2_chr7_145009185_F | TCGTCGGCAGCGTCTTGTGCTGAGGCTGAGGAAG | 59.9 | 0.28 |
| mm4_intergenic_Ccnd1|Tpcn2_chr7_145009185_R | GTCTCGTGGGCTCGGCTGAGCTCTGGGTGTGAGTG | 60.0 | 0.28 |
| mm4_intron_Raly_chr2_154828057_F | TCGTCGGCAGCGTCAAGCAAGCACACCCATCTCT | 59.5 | 0.27 |
| mm4_intron_Raly_chr2_154828057_R | GTCTCGTGGGCTCGGCCAATTTTAAGAGACTATAGGAGGC | 57.0 | 0.27 |
| mm4_intergenic_Siglece|Ctu1_chr7_43664311_F | TCGTCGGCAGCGTCGACACCGAGTTCCAGAATGGA | 59.7 | 0.25 |
| mm4_intergenic_Siglece|Ctu1_chr7_43664311_R | GTCTCGTGGGCTCGGTTCCCTCCACCCACAAGGA | 60.0 | 0.25 |
| mm4_intergenic_Gm23324|Gm24680_chr14_94781388_F | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Gm23324|Gm24680_chr14_94781388_R | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Caln1|Gm23761_chr5_130724674_F | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intergenic_Caln1|Gm23761_chr5_130724674_R | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intron_Veph1_chr3_66148834_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intron_Veph1_chr3_66148834_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_exon_Dlk2/Abcc10_chr17_46302664_F | TCGTCGGCAGCGTCTGACTTTGACTGCCTGTGCC | 60.8 | 0.22 |
| mm4_exon_Dlk2/Abcc10_chr17_46302664_R | GTCTCGTGGGCTCGGCTACAGCTGAGGTGGGCATT | 59.7 | 0.22 |
| mm4_intergenic_Wnt5a|Cacna2d3_chr14_28537538_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Wnt5a|Cacna2d3_chr14_28537538_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Gm14521|Gm14635_chrX_12299647_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm14521|Gm14635_chrX_12299647_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_NAMA_1|NAMA_2_chr4_47595000_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_NAMA_1|NAMA_2_chr4_47595000_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_exon_Elavl2_chr4_91259192_F | TCGTCGGCAGCGTCGCCCTTGCCTCTTACTCAGT | 59.3 | 0.18 |
| mm4_exon_Elavl2_chr4_91259192_R | GTCTCGTGGGCTCGGCAGCTCCCTGGTCCATTGAG | 60.1 | 0.18 |
| mm4_intergenic_Gm26396|Gm13795_chr2_94847410_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intergenic_Gm26396|Gm13795_chr2_94847410_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm3_intergenic_Gm24288|Gm17215_chr8_7235577_F | TCGTCGGCAGCGTCTGGATCAGTGGTTGAAGCACT | 59.5 | 0.16 |
| mm3_intergenic_Gm24288|Gm17215_chr8_7235577_R | GTCTCGTGGGCTCGGGGGGCTCCCACATCTACCT | 60.3 | 0.16 |
| mm4_intron_Psg17_chr7_18815457_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Psg17_chr7_18815457_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Bbox1_chr2_110310547_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Bbox1_chr2_110310547_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_exon_Kcnn1_chr8_70850647_F | TCGTCGGCAGCGTCAGGGGCTCTACACTCACCAT | 59.9 | 0.16 |
| mm4_exon_Kcnn1_chr8_70850647_R | GTCTCGTGGGCTCGGAACTTCCTGGGAGCCATGTG | 59.9 | 0.16 |
| mm4_intron_Pcdh11x_chrX_120847590_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intron_Pcdh11x_chrX_120847590_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Mir874|Klhl3_chr13_58027411_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Mir874|Klhl3_chr13_58027411_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Grb10_chr11_11936307_F | TCGTCGGCAGCGTCGTGGATGCTTGTAGGGCAGT | 60.0 | 0.14 |
| mm4_intron_Grb10_chr11_11936307_R | GTCTCGTGGGCTCGGCCTCAGATGGCTGTGGTTGT | 59.9 | 0.14 |
| mm3_intergenic_Dcaf12l1|Gm7700_chrX_44800743_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intergenic_Dcaf12l1|Gm7700_chrX_44800743_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_exon_Apod_chr16_31311077_F | TCGTCGGCAGCGTCCTCTTGCACAGGAGGAGACG | 60.1 | 0.13 |
| mm4_exon_Apod_chr16_31311077_R | GTCTCGTGGGCTCGGCCCAAGATGGTGACCATGCT | 60.0 | 0.13 |
| mm4_intron_Pvrl1_chr9_43751313_F | TCGTCGGCAGCGTCGGACATTAGTTCCGCTGGCT | 60.1 | 0.13 |
| mm4_intron_Pvrl1_chr9_43751313_R | GTCTCGTGGGCTCGGCCTCAGCCTCTCAATGGGAC | 59.8 | 0.13 |
| mm4_intron_Gm8298_chr3_59862142_F | TCGTCGGCAGCGTCACCAAAATATGCTTCTGTCAGGA | 58.0 | 0.12 |
| mm4_intron_Gm8298_chr3_59862142_R | GTCTCGTGGGCTCGGTCATTGCCACATCTTCTCTGACT | 59.7 | 0.12 |
| mm4_intergenic_Pdzd4|L1cam_chrX_73845378_F | TCGTCGGCAGCGTCGAGTCACCTCACATGCTGCT | 60.0 | 0.11 |
| mm4_intergenic_Pdzd4|L1cam_chrX_73845378_R | GTCTCGTGGGCTCGGAGTGCTCACTGGGTGTTGAA | 59.4 | 0.11 |
| mm4_intergenic_Gli3|Inhba_chr13_15944307_F | TCGTCGGCAGCGTCGCCCACTCAGCACACATTGA | 60.8 | 0.11 |
| mm4_intergenic_Gli3|Inhba_chr13_15944307_R | GTCTCGTGGGCTCGGGCTCATCAAATTCAGAATGAAGGC | 58.9 | 0.11 |
| mm4_intergenic_Blmh|Slc6a4_chr11_76993341_F | TCGTCGGCAGCGTCGTCACCTCCCACATGGAAGG | 60.0 | 0.11 |
| mm4_intergenic_Blmh|Slc6a4_chr11_76993341_R | GTCTCGTGGGCTCGGGCGTCTTGCAAAGCTGTCAA | 59.9 | 0.11 |
| mm4_intergenic_Ppef1|Gm15242_chrX_160704276_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_Ppef1|Gm15242_chrX_160704276_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Sptbn1_chr11_30224654_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Sptbn1_chr11_30224654_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Cgnl1_chr9_71738256_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Cgnl1_chr9_71738256_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Dtx2_chr5_136019516_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Dtx2_chr5_136019516_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_49375526_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_49375526_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm23755|Mylip_chr13_45307485_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm23755|Mylip_chr13_45307485_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm25103|Dph6_chr2_114380017_F | TCGTCGGCAGCGTCGGAGGAGAGAAACTCTGGCA | 58.7 | 0.07 |
| mm4_intergenic_Gm25103|Dph6_chr2_114380017_R | GTCTCGTGGGCTCGGGCAGCATGCATCAGAGATCC | 59.1 | 0.07 |
| mm4_intergenic_Caln1|Wbscr17_chr5_130855732_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Caln1|Wbscr17_chr5_130855732_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Ccdc18|Dr1_chr5_108234434_F | TCGTCGGCAGCGTCTCAGACAAAGTGTACACCCAA | 57.0 | 0.07 |
| mm4_intergenic_Ccdc18|Dr1_chr5_108234434_R | GTCTCGTGGGCTCGGTCTGCTAAAGTCTGGTGTTTGAGA | 59.8 | 0.07 |
| mm4_intergenic_Got2|Gm22780_chr8_96005144_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Got2|Gm22780_chr8_96005144_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Plekhm3_chr1_64789860_F | TCGTCGGCAGCGTCTGTCATTCACTTCTGCATAGCT | 57.7 | 0.06 |
| mm4_exon_Plekhm3_chr1_64789860_R | GTCTCGTGGGCTCGGGCCACTCTTTGTTTGCTTGCT | 60.2 | 0.06 |
| mm4_intron_Pank1_chr19_34827929_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Pank1_chr19_34827929_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Kcnn3_chr3_89645512_F | TCGTCGGCAGCGTCTGTGGCTCATCTCCATCACG | 59.8 | 0.06 |
| mm4_exon_Kcnn3_chr3_89645512_R | GTCTCGTGGGCTCGGCCGGTGAGAAGACAGACACC | 60.0 | 0.06 |
| mm4_exon_Fbxl12/Ubl5_chr9_20642040_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Fbxl12/Ubl5_chr9_20642040_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Grip1_chr10_120061995_F | TCGTCGGCAGCGTCCCAAGGGCAAACAACAGTGT | 59.1 | 0.05 |
| mm4_intron_Grip1_chr10_120061995_R | GTCTCGTGGGCTCGGTTGAGGATTTCTGGGGCCAC | 59.9 | 0.05 |
| mm4_intergenic_Gm12162|Gm22284_chr11_45593415_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm12162|Gm22284_chr11_45593415_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Phox2b_chr5_67097109_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Phox2b_chr5_67097109_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_4930564D02Rik|1700095B22Rik_chr3_105203926_F | TCGTCGGCAGCGTCCTCACTCTCCACCCCAAACC | 59.9 | 0.04 |
| mm4_intergenic_4930564D02Rik|1700095B22Rik_chr3_105203926_R | GTCTCGTGGGCTCGGCTTCGGAATGAGCCAACCCT | 60.0 | 0.04 |
| mm4_intergenic_Gm14077|Macrod2_chr2_141509938_F | TCGTCGGCAGCGTCTGGAGTCCTTAAACATAGAAGACCA | 59.2 | 0.03 |
| mm4_intergenic_Gm14077|Macrod2_chr2_141509938_R | GTCTCGTGGGCTCGGAGCAAATCCTCCATAGTCATGT | 57.2 | 0.03 |
| mm4_intergenic_Cyp2d9|AC132878.1_chr15_82478825_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Cyp2d9|AC132878.1_chr15_82478825_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_9130019P16Rik_chr6_54401666_F | TCGTCGGCAGCGTCTTATGAGTCAGGCAGCAGGC | 60.1 | 0.03 |
| mm4_intron_9130019P16Rik_chr6_54401666_R | GTCTCGTGGGCTCGGGGGAGTGGGATGGAGACTCT | 60.0 | 0.03 |
| mm4_intergenic_Gm26166|Tsc22d2_chr3_58385857_F | TCGTCGGCAGCGTCTGGCCGTGTTCACTTTGTCA | 60.3 | 0.03 |
| mm4_intergenic_Gm26166|Tsc22d2_chr3_58385857_R | GTCTCGTGGGCTCGGCCAGCGCTCTTCCCACTTAA | 60.0 | 0.03 |
| mm4_intron_Klhl29_chr12_5206751_F | TCGTCGGCAGCGTCTGTTGCTTCCCCTTTCCCTC | 59.8 | 0.02 |
| mm4_intron_Klhl29_chr12_5206751_R | GTCTCGTGGGCTCGGGAATCAGCACACGTGGCAAG | 60.1 | 0.02 |
| mm4_intergenic_Mir690|Mb21d2_chr16_28600155_F | TCGTCGGCAGCGTCAATCAACGTGGCCTTCAGGT | 59.8 | 0.02 |
| mm4_intergenic_Mir690|Mb21d2_chr16_28600155_R | GTCTCGTGGGCTCGGCGGTAGAATAGCAGCCTGGG | 59.9 | 0.02 |
| mm4_intron_AK129341_chr9_8112829_F | TCGTCGGCAGCGTCAGAATGCTGCCTCTCTTGAGT | 59.0 | 0.02 |
| mm4_intron_AK129341_chr9_8112829_R | GTCTCGTGGGCTCGGTCTGTTCTACCTGTAGGCTTGA | 58.2 | 0.02 |
| mm4_intron_Rgma_chr7_73412083_F | TCGTCGGCAGCGTCATGTCTGCCCTCTTCAGTGC | 60.0 | 0.02 |
| mm4_intron_Rgma_chr7_73412083_R | GTCTCGTGGGCTCGGAGACCTACTGCCTCCTAGCC | 60.1 | 0.02 |
| mm4_exon_Zc3h12b_chrX_95924484_F | TCGTCGGCAGCGTCACGTAAACTGGAGAAGGAAAAGA | 57.7 | 0.02 |
| mm4_exon_Zc3h12b_chrX_95924484_R | GTCTCGTGGGCTCGGTCATAGCAGACCACCCTCCT | 59.6 | 0.02 |
| mm2_intron_Ncapd3_chr9_27031919_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm2_intron_Ncapd3_chr9_27031919_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Agbl4_chr4_111662962_F | TCGTCGGCAGCGTCAAAAGCCCCTCCTTGCAAGC | 61.4 | 0.01 |
| mm4_exon_Agbl4_chr4_111662962_R | GTCTCGTGGGCTCGGCTCCTGGCGCCATGTCTTTA | 60.1 | 0.01 |
| mm4_intron_Ube2ql1_chr13_69704852_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ube2ql1_chr13_69704852_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ddx26b_chrX_56460762_F | TCGTCGGCAGCGTCGGAGAGCACTGACGACATTGT | 60.3 | 0.00 |
| mm4_intron_Ddx26b_chrX_56460762_R | GTCTCGTGGGCTCGGAGGACAAGACTCGCTGAATGT | 59.3 | 0.00 |
| mm4_intron_C030046E11Rik_chr19_29546537_F | TCGTCGGCAGCGTCACTAGCATTTATTAGTAGGATGGGT | 57.1 | 0.00 |
| mm4_intron_C030046E11Rik_chr19_29546537_R | GTCTCGTGGGCTCGGCGAGCTGCTTCGCTCATCTA | 59.9 | 0.00 |
| mm4_intergenic_Rps7|Rnaseh1_chr12_28646494_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Rps7|Rnaseh1_chr12_28646494_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_RP24-378F2.1|RP24-338F2.1_chr6_7239572_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_RP24-378F2.1|RP24-338F2.1_chr6_7239572_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_RP24-308I2.1|RP24-86O15.2_chr9_33009802_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_RP24-308I2.1|RP24-86O15.2_chr9_33009802_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Lmo4|Hs2st1_chr3_144359029_F | TCGTCGGCAGCGTCATCCAAGGGTGGGAAACGAC | 59.9 | 0.00 |
| mm4_intergenic_Lmo4|Hs2st1_chr3_144359029_R | GTCTCGTGGGCTCGGCAGCCTTCCAGTGCTATCCC | 60.1 | 0.00 |
| mm4_intergenic_Hspbap1|Gm26838_chr16_35804172_F | TCGTCGGCAGCGTCTCGTGCTCTCTTGGATGCTC | 59.8 | 0.00 |
| mm4_intergenic_Hspbap1|Gm26838_chr16_35804172_R | GTCTCGTGGGCTCGGAAGGGCTTACACGGAACTCC | 59.6 | 0.00 |
| mm4_intergenic_Gm25884|Gm22582_chr10_92571460_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm25884|Gm22582_chr10_92571460_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm25796|Gm23337_chr3_45904258_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm25796|Gm23337_chr3_45904258_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23153|Rps6kc1_chr1_190679487_F | TCGTCGGCAGCGTCCCTGCCTAACATGTGGCTCT | 59.7 | 0.00 |
| mm4_intergenic_Gm23153|Rps6kc1_chr1_190679487_R | GTCTCGTGGGCTCGGTGGTCAGCAGGCAAAGGTAA | 59.5 | 0.00 |
| mm4_intergenic_Eif3s6-ps1|Gm11995_chr11_10072610_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Eif3s6-ps1|Gm11995_chr11_10072610_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Dpf3|Dcaf4_chr12_83505345_F | TCGTCGGCAGCGTCCATGTCACCACTGCACAAGC | 60.0 | 0.00 |
| mm4_intergenic_Dpf3|Dcaf4_chr12_83505345_R | GTCTCGTGGGCTCGGGATCGTCAGTGTCCAGGTCC | 59.8 | 0.00 |
| mm4_intergenic_Bnip1|Nkx2-5_chr17_26835204_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Bnip1|Nkx2-5_chr17_26835204_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Acaa1b|Gm10608_chr9_119158323_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Acaa1b|Gm10608_chr9_119158323_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_1700049L16Rik|Gm9923_chr10_72208049_F | TCGTCGGCAGCGTCAGTACATGGCATTAAACAAGTTCTT | 57.4 | 0.00 |
| mm4_intergenic_1700049L16Rik|Gm9923_chr10_72208049_R | GTCTCGTGGGCTCGGTCAGCCATAGGTCACATAGAGC | 59.3 | 0.00 |
| mm4_exon_Kmt2d_chr15_98856646_F | TCGTCGGCAGCGTCGATCGTCAGTGTCCAGGTCC | 59.8 | 0.00 |
| mm4_exon_Kmt2d_chr15_98856646_R | GTCTCGTGGGCTCGGCATGTCACCACTGCACAAGC | 60.0 | 0.00 |
| mm4_exon_Gjd2_chr2_114010812_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Gjd2_chr2_114010812_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_intron_D6Wsu163e_chr6_126974259_F | TCGTCGGCAGCGTCAGTGCCTTTTATTTCAGCCACA | 58.7 | 0.00 |
| mm3_intron_D6Wsu163e_chr6_126974259_R | GTCTCGTGGGCTCGGGACCCACACTTCCCAATTCTCT | 59.9 | 0.00 |
These only list off-targets that have primers in the table above. Primers underlined, off-targets in bold.
| ontarget_mm0_exon_Kcnq4_chr4_120715325 |
TGCCCAGCCATGTATGTGGCGTCTTGTCACCATAGCCAATGGTCGTCAGTGTGATCTGGAGATACAAACAGGTTGCCCAT AGGACTGGGCACAGGGACCTGACACAAGGAC |
| mm3_exon_Kcnq3_chr15_66023721 |
GCAATCAGACGTCCTTCCCAGGTTTTAGGTGTCTTGTCTCCATAACCAATGGTGGCCAGTGTGATCTGAAAAAGAGAAGC GTTCAGACAGGGTTTCC |
| mm3_exon_Kcnq5_chr1_21487297 |
CAGAGAGCAGTCTTCCCAGCCACGTTAGGGGTGTTTTGTCTCCATAGCCAATGGTTGTCAGTGTGATCTGGAAACAAAGT CAACAGAACATCCAGCTTAAGTACTTGAGAAGGAAGTTAGGACCTAGGAATGGGAGACA |
| mm4_intron_Kcnq4_chr4_120731814 |
ACGCGGTAGTACTGAGTCCTAGATACCCCTCTTCCTCCCACCATAGCCAAAGGTGCTGATCACCCTCCTCGGGGCCTTCT TGGAGACCCCTGAGGCCAGGAAGATCCTGGTAAGGGGCTCA |
| mm4_intergenic_Gm13577|Gm13576_chr2_64561481 |
GCATCAAGGCAGCACACAAACAAATGTTGACCTCTGATCTGGTTCTAAAGTATAGCTTCCTCTCTCCATAGCCAATGGGG CACTGAAGTCTGCAGAAATGAATTGAAGAAAATGGGAGGTCCTGTCTGTTAGT |
| mm4_intron_Macrod2_chr2_141542106 |
GATTCGAGTTCCTGCTGGGGCTCCAGGAGAAGCTGGTGCTTGAGGTCAGTTTCTCCCACAACTGCCTCCAGTCACCATAG CCTATGGTTCTCTGTGACTCTCTGGGTGTGATCCTTTGTGGTCCTCCTGCCTTC |
| mm4_intergenic_Ccnd1|Tpcn2_chr7_145009185 |
TTGTGCTGAGGCTGAGGAAGAGTGGAGTTCGTGAACTTTACAGATGCCCATCCAGTGTTGGCACCATAGCCAGGGGGACA ATAGGTGGCAATCTCTGTCCCCATAGCAGAGACACTCACACCCAGAGCTCAG |
| mm4_intron_Raly_chr2_154828057 |
AAGCAAGCACACCCATCTCTATGGGAAGTGTTCTTGGTTTTTATTCTGACACTGGTAGGGTCTGTGTCTTTTCTCCATAG CCTAGGGTTCAGCCTCCTATAGTCTCTTAAAATTGG |
| mm4_intergenic_Siglece|Ctu1_chr7_43664311 |
GACACCGAGTTCCAGAATGGAAGTGCTAAAGTCCCTACAACACAAATGTTAAGATCCTTTTCCCCAAGGCTATGGTGTTA AGACGTGGGTCCTTGTGGGTGGAGGGAA |
| mm4_exon_Dlk2/Abcc10_chr17_46302664 |
TGACTTTGACTGCCTGTGCCCCAGTGGCTATGGTGGTAAGACTTGTGAACTTGTCCTACCTGCTCCAGAGCCTGCCTCAG TGGGCACCCCACAAATGCCCACCTCAGCTGTAG |
| mm4_exon_Elavl2_chr4_91259192 |
GCCCTTGCCTCTTACTCAGTTGCCACTACTTGTCACCAAGGCCAAAGGTGATATACATTTTGTTTTCCTCAATGTTTTTT TTTTTTTTCTTTTTCTCCTACAATTACAGCAAATGAACTCAATGGACCAGGGAGCTG |
| mm3_intergenic_Gm24288|Gm17215_chr8_7235577 | TGGATCAGTGGTTGAAGCACTAGGTATGCAAACTTCAGTATTGTCACCATTGCCAATGGCAGGTAGATGTGGGAGCCCC |
| mm4_exon_Kcnn1_chr8_70850647 |
AGGGGCTCTACACTCACCATGATGCCAGTGAGCAGACACACACCCTTCCCACAGTAGGTATGCGGCACCATGTCTCCATA GCCAATGGACAAGAAGGTGATGGAGATGAGCCACATGGCTCCCAGGAAGTT |
| mm4_intron_Grb10_chr11_11936307 |
GTGGATGCTTGTAGGGCAGTCTGCTACAACATGCATTCAGTCATCTAGTCACCTTGGCCAATGGCGGCCATCATCCACAT CCTCTGTTGTCCAGAGTGGTTAGTAGTGAGACAACCACAGCCATCTGAGG |
| mm4_exon_Apod_chr16_31311077 |
CTCTTGCACAGGAGGAGACGGGCATTTCCCAAGATGGAAATTTTGTCCTTTGGCTGTGGTGAAGAGACCCGCCAGCGTGG CCAGGAACATCAGCATGGTCACCATCTTGGG |
| mm4_intron_Pvrl1_chr9_43751313 |
GGACATTAGTTCCGCTGGCTCGTGGCTCCTTTGGGACTCAGCTGCAGGCGTGGTCCAGGAGGCGAAATGGGCCATTGGCC ATGGGCACAAGACTGTCCCATTGAGAGGCTGAGG |
| mm4_intron_Gm8298_chr3_59862142 |
ACCAAAATATGCTTCTGTCAGGAAGCCTTTGGCTATTATGACAATAGGAATGTTTGGGAAGTAGACAAAGAATCAATAGT CAGAGAAGATGTGGCAATGA |
| mm4_intergenic_Pdzd4|L1cam_chrX_73845378 |
GAGTCACCTCACATGCTGCTGAGTTCATGGATGGTCCTACACTTGTCACCATAGCCACAGGCTTCAACACCCAGTGAGCA CT |
| mm4_intergenic_Gli3|Inhba_chr13_15944307 |
GCCCACTCAGCACACATTGAGTTTTCCAGAAAAGCTGGTCTACCTCTTGTGGCCATAGACAAAGGGATATAGGATAATCA CCTTCATTCTGAATAGGATAATCTGCCTTCATTCTGAATTTGATGAGC |
| mm4_intergenic_Blmh|Slc6a4_chr11_76993341 |
GTCACCTCCCACATGGAAGGCCATTGTCTATGGTGTCAAGGGGATCCAGTAGTTTTCCAGGGCTTGACAGCTTTGCAAGA CGC |
| mm4_intergenic_Gm25103|Dph6_chr2_114380017 |
GGAGGAGAGAAACTCTGGCAAATTTGGTTCAGAATTATGCCTTGTCCCCATAGCAAAAGGGTTATAGTTGCTCTAATTTG ATCAGATGATATGTGCTCAAGTTGACTAAGGATCTCTGATGCATGCTGC |
| mm4_intergenic_Ccdc18|Dr1_chr5_108234434 |
TCAGACAAAGTGTACACCCAAAAGATGTGTTGTCATCATAGACAAAGGATGTTTCCTAATTGTACCTGAAGATATTCTCT TAAATGTATACATCTCAAACACCAGACTTTAGCAGA |
| mm4_exon_Plekhm3_chr1_64789860 |
TGTCATTCACTTCTGCATAGCTAGTTTTCTTTCTTTCCCCATTGACTGTGGTGACATGACATTCCCCTGAGTTTGGTTAA TGAAAGCAAGCAAACAAAGAGTGGC |
| mm4_exon_Kcnn3_chr3_89645512 |
TGTGGCTCATCTCCATCACGTTCCTTTCCATTGGCTATGGGGACATGGTGCCCCACACATACTGTGGGAAAGGTGTCTGT CTTCTCACCGG |
| mm4_intron_Grip1_chr10_120061995 |
CCAAGGGCAAACAACAGTGTGAACACTGTTGGGGGACCATTGGCTAGGGTGACAAGGAACAGACTTTGGGTTGCACATTT CAATTAAACAGTGGCCCCAGAAATCCTCAA |
| mm4_intergenic_4930564D02Rik|1700095B22Rik_chr3_105203926 |
CTCACTCTCCACCCCAAACCCCCACTCCAGATCTCTGTATCCGGATGCAAAGGAGGAGGAGGTCTCAGGAGGAAACCAGG ACTGTTGGCTATGGAGACATGGTGAGTGACAGAAAAGGGTTGGCTCATTCCGAAG |
| mm4_intergenic_Gm14077|Macrod2_chr2_141509938 |
TGGAGTCCTTAAACATAGAAGACCAACTGTTTTCTGTAATTACCCTTTTTATCTCTAATAGTTCTTCAGTTTTTTCCCAA TTCTTTGGCTATGGAGACAATTCTGAAATATATTACTACATGACTATGGAGGATTTGCT |
| mm4_intron_9130019P16Rik_chr6_54401666 |
TTATGAGTCAGGCAGCAGGCTCCCTTTGGCTAAGCTGACATGACCAGAAAGGAAAAGCACAGAGTCTCCATCCCACTCCC |
| mm4_intergenic_Gm26166|Tsc22d2_chr3_58385857 |
TGGCCGTGTTCACTTTGTCATTCCCTGTGTTTGGTTACAGTGATCCTCATCTCTGACACTCATTTTCCTTGAACACCTTG GGCTATGCTCACAAGACAGTGTTAAGTGGGAAGAGCGCTGG |
| mm4_intron_Klhl29_chr12_5206751 |
TGTTGCTTCCCCTTTCCCTCCCCTTCTGGGATGGCGGGGTCTGGACCTTCCTTTGAGGAAAGAACCTTTGGCTAGGCTGA CAAAAAGCTTTCACAGCCTCTGTCTCCACCACCTGCTTGCCACGTGTGCTGATTC |
| mm4_intergenic_Mir690|Mb21d2_chr16_28600155 |
AATCAACGTGGCCTTCAGGTTAAGAAAATAAACCACAAATAGAAAACAGTCTTTTGTCTTATAATTTGACAGATAGTTTT TTGTCCACTTCTTCTTACCATAGGCAAGGGATAATCATCACCCAGGCTGCTATTCTACCG |
| mm4_intron_AK129341_chr9_8112829 |
AGAATGCTGCCTCTCTTGAGTCCTTTGCCTATGGTGACATTATGTTGCACTTATCAAATGCTATACATAGTTCTTCAAGC CTACAGGTAGAACAGA |
| mm4_intron_Rgma_chr7_73412083 |
ATGTCTGCCCTCTTCAGTGCCTGGCCTCTGTTGCTGCCCGCCCTGTCACCATAGCCCCAGGGGCTTCCGGGCTGGCTAGG AGGCAGTAGGTCT |
| mm4_exon_Zc3h12b_chrX_95924484 | ACGTAAACTGGAGAAGGAAAAGATTCTCGTCTTCACACCATCGCGAAGGGTCCAAGGCAGGAGGGTGGTCTGCTATGA |
| mm4_exon_Agbl4_chr4_111662962 |
AAAAGCCCCTCCTTGCAAGCACCCACCCCCAAGGGGCTCAACCAGCAACGTCTCCATTGGCAAAGGGGACAAGAAGAACT CACTGAACCACAAAGACCCATCAACCCCCTTTTAAAGACATGGCGCCAGGAG |
| mm4_intron_Ddx26b_chrX_56460762 |
GGAGAGCACTGACGACATTGTAGAGATCTACCTTCTATCCTAGACCTCTCTTACGTATATCTAGCCATTCTTGAAATGTC AGTGTTTGCCACTTGTCACCAGAGCCACTGGTGTGGCTGACATTCAGCGAGTCTTGTCCT |
| mm4_intron_C030046E11Rik_chr19_29546537 |
ACTAGCATTTATTAGTAGGATGGGTTAAAATATTATTACTTAATTCAAAAACTCCTCTTGTAGCCATATCCAATGGTGCC ATCTGAGTGCAGAGACTGATAGAATCATTAGATGAGCGAAGCAGCTCG |
| mm4_intergenic_Lmo4|Hs2st1_chr3_144359029 |
ATCCAAGGGTGGGAAACGACTTTGGAGTTAATCCCCAGAGTGCCCTTGGCTCAGGTGACAAGTCAGCTGGTCTCAGTTTC TCTGCCCACCCCCAACTCAGCCAGGGGCCTTATTTGGGATAGCACTGGAAGGCTG |
| mm4_intergenic_Hspbap1|Gm26838_chr16_35804172 |
TCGTGCTCTCTTGGATGCTCCCAGCAGATGTGGTGAAGGTGTTTGATTCATCCCAGGCATAGCTGCCACTGGCACACATA CAACCAGGCCATTGGGTATGGTAATAAGAAGCTGGAGTTCCGTGTAAGCCCTT |
| mm4_intergenic_Gm23153|Rps6kc1_chr1_190679487 |
CCTGCCTAACATGTGGCTCTCTGCAGCCCTGGGTTCTGGTGACAAGACTGCTTTCAAAATCAGTTGTAGTAGCTTCATAG GACCTCAGCATGAGACAACTTAGTCTGTACCATGGCAAAGTTACCTTTGCCTGCTGACCA |
| mm4_intergenic_Dpf3|Dcaf4_chr12_83505345 |
CATGTCACCACTGCACAAGCGGCGCCAGCGGCGAGGACGGCTAGGCCTCCCAGGCGAGGCAGGGCTGGAGGTTCTGAGCC CTCAGATGCCCTTGGCCCTGATGACAAGAAGGATGGGGACCTGGACACTGACGATC |
| mm4_intergenic_1700049L16Rik|Gm9923_chr10_72208049 |
AGTACATGGCATTAAACAAGTTCTTATGAAACCTTTGCAAATGGTGACAAGACATATCTACTTATGTAAATGATAGATAT GAACATCACAGCTCTATGTGACCTATGGCTGA |
| mm4_exon_Kmt2d_chr15_98856646 |
GATCGTCAGTGTCCAGGTCCCCATCCTTCTTGTCATCAGGGCCAAGGGCATCTGAGGGCTCAGAACCCTCCAGCCCTGCC TCGCCTGGGAGGCCTAGCCGTCCTCGCCGCTGGCGCCGCTTGTGCAGTGGTGACATG |
| mm3_intron_D6Wsu163e_chr6_126974259 |
AGTGCCTTTTATTTCAGCCACATGTGAATTTATCTTTCATAATCTGTTTTATCTAAAGCCTATAAAGGTGACGTAGGCCT TTGGGTATGTTGACAAGACCGTTACACCTCTCTGGTATAGAGAATTGGGAAGTGTGGGTC |