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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_52314139_F | TCGTCGGCAGCGTCGTCGATGGACTAGCAGGCAG | 60.2 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52314139_R | GTCTCGTGGGCTCGGTCTGAGCTACTAGGTTGCCCT | 59.9 | 1.00 |
| mm3_intergenic_1700049L16Rik|Gm9923_chr10_72034907_F | Primer3: not found at this Tm | N.d. | 0.67 |
| mm3_intergenic_1700049L16Rik|Gm9923_chr10_72034907_R | Primer3: not found at this Tm | N.d. | 0.67 |
| mm4_intergenic_Pcdh17|Gm23926_chr14_84866906_F | TCGTCGGCAGCGTCAAGAATGGCCTCCATAGGGG | 58.8 | 0.51 |
| mm4_intergenic_Pcdh17|Gm23926_chr14_84866906_R | GTCTCGTGGGCTCGGGCAAGGAGAAATGGAAATGGTT | 57.4 | 0.51 |
| mm4_intergenic_Gm15762|B230104C08Rik_chr6_147878642_F | Primer3: not found at this Tm | N.d. | 0.50 |
| mm4_intergenic_Gm15762|B230104C08Rik_chr6_147878642_R | Primer3: not found at this Tm | N.d. | 0.50 |
| mm3_exon_Gripap1_chrX_7798968_F | Primer3: not found at this Tm | N.d. | 0.42 |
| mm3_exon_Gripap1_chrX_7798968_R | Primer3: not found at this Tm | N.d. | 0.42 |
| mm4_exon_Rnf121_chr7_102020189_F | TCGTCGGCAGCGTCGGGGACAATTCCTATGCTCCA | 59.5 | 0.37 |
| mm4_exon_Rnf121_chr7_102020189_R | GTCTCGTGGGCTCGGCTGGGTTGGTGGGGAAATGA | 59.8 | 0.37 |
| mm4_intergenic_Cog3|Slc25a30_chr14_75758748_F | TCGTCGGCAGCGTCGGCGTCCCATCTCTTAGGTG | 59.8 | 0.34 |
| mm4_intergenic_Cog3|Slc25a30_chr14_75758748_R | GTCTCGTGGGCTCGGCCCTCAGGCTACCAAGTGAC | 59.7 | 0.34 |
| mm4_intergenic_Rab11a|Dennd4a_chr9_64754626_F | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intergenic_Rab11a|Dennd4a_chr9_64754626_R | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intergenic_Casc5|Rad51_chr2_119108696_F | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intergenic_Casc5|Rad51_chr2_119108696_R | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416793_F | TCGTCGGCAGCGTCAAAGAGGTGGATGTCCGCTG | 60.0 | 0.32 |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416793_R | GTCTCGTGGGCTCGGCACCTCACCTGCCATTAGCT | 59.7 | 0.32 |
| mm3_intron_Zfp536_chr7_37772408_F | TCGTCGGCAGCGTCGCCGCCTCTACTCGGTTTT | 60.0 | 0.32 |
| mm3_intron_Zfp536_chr7_37772408_R | GTCTCGTGGGCTCGGTATCCGTGGTTGTGACGTTG | 58.2 | 0.32 |
| mm3_intron_Megf11_chr9_64537658_F | Primer3: not found at this Tm | N.d. | 0.31 |
| mm3_intron_Megf11_chr9_64537658_R | Primer3: not found at this Tm | N.d. | 0.31 |
| mm4_intron_Hsd17b4_chr18_50161975_F | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intron_Hsd17b4_chr18_50161975_R | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intergenic_Krt19|Krt9_chr11_100177686_F | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intergenic_Krt19|Krt9_chr11_100177686_R | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intron_Faah_chr4_115995427_F | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intron_Faah_chr4_115995427_R | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intergenic_Gm12158|Ebf1_chr11_44820254_F | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intergenic_Gm12158|Ebf1_chr11_44820254_R | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_exon_Cacna1h_chr17_25391224_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_exon_Cacna1h_chr17_25391224_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm2_intergenic_Tnfsf13b|Myo16_chr8_10196560_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm2_intergenic_Tnfsf13b|Myo16_chr8_10196560_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm3_intergenic_Fgf9|Gm25614_chr14_58171687_F | TCGTCGGCAGCGTCTTCTGTTGAGGCCAGTTCCC | 59.8 | 0.16 |
| mm3_intergenic_Fgf9|Gm25614_chr14_58171687_R | GTCTCGTGGGCTCGGTGAAAGAAAACTGACTTAGCTCACA | 58.8 | 0.16 |
| mm4_exon_Hck_chr2_153136740_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_exon_Hck_chr2_153136740_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Pacsin2_chr15_83443646_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Pacsin2_chr15_83443646_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Fbxo15|Gm25453_chr18_85432231_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Fbxo15|Gm25453_chr18_85432231_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Habp2_chr19_56300996_F | TCGTCGGCAGCGTCTTCAAAGCTGGCTTGGCTCT | 60.1 | 0.12 |
| mm4_intron_Habp2_chr19_56300996_R | GTCTCGTGGGCTCGGCTGCCTGTGACATTTCCAGC | 59.4 | 0.12 |
| mm4_intergenic_Gm24503|Ccrn4l_chr3_51115347_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm24503|Ccrn4l_chr3_51115347_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm25905|Dcp1b_chr6_118955735_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Gm25905|Dcp1b_chr6_118955735_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_exon_Ankrd52_chr10_128389267_F | TCGTCGGCAGCGTCAGAAGAGCAGCCCTGTTTCA | 59.2 | 0.11 |
| mm4_exon_Ankrd52_chr10_128389267_R | GTCTCGTGGGCTCGGCATTCACTTCGGCTTGGTGC | 60.1 | 0.11 |
| mm4_exon_Nudt8/Gm16312_chr19_4000658_F | TCGTCGGCAGCGTCCACTGTGTCCCGGACGTC | 60.0 | 0.10 |
| mm4_exon_Nudt8/Gm16312_chr19_4000658_R | GTCTCGTGGGCTCGGCAGTGGTCCGTGCTAGCAG | 60.4 | 0.10 |
| mm3_exon_Nr0b1_chrX_86192828_F | TCGTCGGCAGCGTCGAAATGCTTACCACCAGGCG | 59.5 | 0.10 |
| mm3_exon_Nr0b1_chrX_86192828_R | GTCTCGTGGGCTCGGAACTCTTGATGGCCTGGACC | 59.6 | 0.10 |
| mm4_intron_Tle3_chr9_61380674_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Tle3_chr9_61380674_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Ush2a_chr1_188838420_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Ush2a_chr1_188838420_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Myh13_chr11_67351769_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Myh13_chr11_67351769_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_exon_Kcnb2_chr1_15711175_F | TCGTCGGCAGCGTCTGACTTTCCGCTCACCACTC | 59.9 | 0.09 |
| mm4_exon_Kcnb2_chr1_15711175_R | GTCTCGTGGGCTCGGGGATGGTCCCTGACAGTGTG | 60.0 | 0.09 |
| mm4_intergenic_Bach1|Gm23994_chr16_87748259_F | TCGTCGGCAGCGTCCCCCTTAGTCCTAGAGCTGT | 57.5 | 0.08 |
| mm4_intergenic_Bach1|Gm23994_chr16_87748259_R | GTCTCGTGGGCTCGGCTGGGCTCTGACAGTTGGAG | 60.0 | 0.08 |
| mm4_intron_2310045N01Rik_chr8_70145639_F | TCGTCGGCAGCGTCACCCCTCCCACTGAATCTGT | 60.1 | 0.08 |
| mm4_intron_2310045N01Rik_chr8_70145639_R | GTCTCGTGGGCTCGGCCAAGACCCATAGCCTGAGC | 60.1 | 0.08 |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797405_F | TCGTCGGCAGCGTCCACTGGACAGTTGGACCCTC | 59.9 | 0.08 |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797405_R | GTCTCGTGGGCTCGGCTACAGGGCAGCTGCTTTCT | 60.0 | 0.08 |
| mm4_exon_Pnpla6_chr8_3541368_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Pnpla6_chr8_3541368_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm3_intergenic_Actb|Fscn1_chr5_142955074_F | TCGTCGGCAGCGTCCAACCGTGAACAGCCCTACT | 59.9 | 0.08 |
| mm3_intergenic_Actb|Fscn1_chr5_142955074_R | GTCTCGTGGGCTCGGGCAGAAGACACAGAAGGCCT | 59.9 | 0.08 |
| mm4_intron_Sh3pxd2a_chr19_47342762_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Sh3pxd2a_chr19_47342762_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Tlx1_chr19_45152625_F | TCGTCGGCAGCGTCAGTTACCCTAGGCCCCTCTG | 60.0 | 0.07 |
| mm4_intron_Tlx1_chr19_45152625_R | GTCTCGTGGGCTCGGATTTCTGCTGTGGCCCCAAA | 60.4 | 0.07 |
| mm4_intron_Ppp1r16a_chr15_76671925_F | TCGTCGGCAGCGTCGTGAGGGGCCTGCAGAAG | 60.0 | 0.06 |
| mm4_intron_Ppp1r16a_chr15_76671925_R | GTCTCGTGGGCTCGGATGGATTTGCCCGACCAACA | 60.2 | 0.06 |
| mm4_intergenic_ZNFX1-AS1_2|Wnt6_chr1_74769640_F | TCGTCGGCAGCGTCTGGGACCAACTGTGTGTGTT | 59.6 | 0.06 |
| mm4_intergenic_ZNFX1-AS1_2|Wnt6_chr1_74769640_R | GTCTCGTGGGCTCGGGCAGGGATCAGCTCAGGAAA | 59.7 | 0.06 |
| mm4_intergenic_Cand1|Gm16320_chr10_119362793_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Cand1|Gm16320_chr10_119362793_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Smco4_chr9_15545068_F | TCGTCGGCAGCGTCTGTGCCTTTCAGACTTCAAAGC | 59.6 | 0.05 |
| mm4_exon_Smco4_chr9_15545068_R | GTCTCGTGGGCTCGGCGACTCTGATCCCAACAGCA | 59.7 | 0.05 |
| mm4_intron_Pik3c2b_chr1_133054531_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Pik3c2b_chr1_133054531_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Tnfaip3|Olig3_chr10_19333622_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Tnfaip3|Olig3_chr10_19333622_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_B630005N14Rik_chr6_13677721_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_B630005N14Rik_chr6_13677721_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Igsf23_chr7_19950574_F | TCGTCGGCAGCGTCAGAAGAACCTCGAGGACCCA | 59.8 | 0.04 |
| mm4_exon_Igsf23_chr7_19950574_R | GTCTCGTGGGCTCGGTAGGTTAGCCCACTCCCCTC | 60.0 | 0.04 |
| mm4_intergenic_Kap|Etv6_chr6_133902221_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Kap|Etv6_chr6_133902221_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm10709|Tmem123_chr9_7752665_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm10709|Tmem123_chr9_7752665_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_E230015B07Rik|E230015B07Rik/1810020O05Rik_chr6_87674310_F | TCGTCGGCAGCGTCCCTGTGCTCTAGGTTTGTCCC | 60.3 | 0.04 |
| mm4_intergenic_E230015B07Rik|E230015B07Rik/1810020O05Rik_chr6_87674310_R | GTCTCGTGGGCTCGGGGATAGCACGGTTCCCTCAG | 59.8 | 0.04 |
| mm4_intergenic_Ap3m2|1700041G16Rik_chr8_22807962_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Ap3m2|1700041G16Rik_chr8_22807962_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm3_intron_Aim2_chr1_173407420_F | TCGTCGGCAGCGTCTTACCCCAGGAGGACCCATT | 59.8 | 0.03 |
| mm3_intron_Aim2_chr1_173407420_R | GTCTCGTGGGCTCGGTGGGAAACTGCTGCAGAAGT | 59.8 | 0.03 |
| mm4_intron_Gpr125_chr5_50021541_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Gpr125_chr5_50021541_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Lemd2|mmu-mir-7216_chr17_27320772_F | TCGTCGGCAGCGTCCTCAGCCCCAGAGCATACAG | 59.8 | 0.03 |
| mm4_intergenic_Lemd2|mmu-mir-7216_chr17_27320772_R | GTCTCGTGGGCTCGGTGCTGGTTGACTGCTAGTGG | 59.9 | 0.03 |
| mm4_intergenic_Mrps6|Kcne2_chr16_92119672_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Mrps6|Kcne2_chr16_92119672_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Prmt7_chr8_106249757_F | TCGTCGGCAGCGTCCTCTCCTCTCAGCGCTTCC | 59.5 | 0.03 |
| mm4_intron_Prmt7_chr8_106249757_R | GTCTCGTGGGCTCGGAGGCAAGATACAAAGGGGTGG | 59.9 | 0.03 |
| mm4_exon_Unc80_chr1_66685650_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Unc80_chr1_66685650_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Klf11|Cys1_chr12_24665397_F | TCGTCGGCAGCGTCATACCTGGTACCTGGGCAGT | 59.9 | 0.03 |
| mm4_intergenic_Klf11|Cys1_chr12_24665397_R | GTCTCGTGGGCTCGGGCCGACTGATGAGCTGTGAT | 60.1 | 0.03 |
| mm4_exon_Gm22501_chr2_104228224_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Gm22501_chr2_104228224_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Ptpn1_chr2_167961806_F | TCGTCGGCAGCGTCAAGGAAGCGTACAGTCAGGC | 60.0 | 0.03 |
| mm4_intron_Ptpn1_chr2_167961806_R | GTCTCGTGGGCTCGGACCCCTTCTCTGGACTGTGT | 60.1 | 0.03 |
| mm4_exon_Cntln_chr4_84884727_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Cntln_chr4_84884727_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Prkrir|Wnt11_chr7_98749660_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Prkrir|Wnt11_chr7_98749660_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Dgki_chr6_36890358_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Dgki_chr6_36890358_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Ppp2r3a|Gm24638_chr9_101366804_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Ppp2r3a|Gm24638_chr9_101366804_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Ankrd42_chr7_92591167_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Ankrd42_chr7_92591167_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Sec14l3|Mtfp1_chr11_4080651_F | TCGTCGGCAGCGTCACTGAGGCAGTGGAGTCAGA | 60.1 | 0.02 |
| mm4_intergenic_Sec14l3|Mtfp1_chr11_4080651_R | GTCTCGTGGGCTCGGGAGTCTCTCTGCTCAGCTGC | 60.1 | 0.02 |
| mm4_exon_Dpy19l1_chr9_24502914_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Dpy19l1_chr9_24502914_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Spata2|Rnf114/Spata2_chr2_167492120_F | TCGTCGGCAGCGTCGGGCCTTCCAAAGCTCTGAA | 60.2 | 0.02 |
| mm4_intergenic_Spata2|Rnf114/Spata2_chr2_167492120_R | GTCTCGTGGGCTCGGTAGAGAGGGGACTTGGCTCC | 60.0 | 0.02 |
| mm4_intron_Tmcc3_chr10_94500417_F | TCGTCGGCAGCGTCAATCTGCTCGCTGGCTTCC | 60.4 | 0.01 |
| mm4_intron_Tmcc3_chr10_94500417_R | GTCTCGTGGGCTCGGATTCTTATGGCACCCTCCCC | 59.1 | 0.01 |
| mm4_exon_Tssc4/Trpm5_chr7_143070090_F | TCGTCGGCAGCGTCCCTAGTGGTGTGGAGGTCCA | 60.5 | 0.01 |
| mm4_exon_Tssc4/Trpm5_chr7_143070090_R | GTCTCGTGGGCTCGGGAGGTGGAATGGCTGCACT | 60.0 | 0.01 |
| mm4_intron_Trabd2b_chr4_114540584_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Trabd2b_chr4_114540584_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Npy2r|Gm22038_chr3_82723756_F | TCGTCGGCAGCGTCCCAGCAGGCTTGAGTTCAGA | 59.9 | 0.00 |
| mm4_intergenic_Npy2r|Gm22038_chr3_82723756_R | GTCTCGTGGGCTCGGAGCAATCTCCAGCATGAGGC | 60.4 | 0.00 |
| mm4_intergenic_Gm7746|4932411N23Rik_chrX_126658793_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm7746|4932411N23Rik_chrX_126658793_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Scml4_chr10_42881769_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Scml4_chr10_42881769_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm24726|Zc3h12d_chr10_7849731_F | TCGTCGGCAGCGTCTCCGGCTGGTATCTTCTCCT | 59.7 | 0.00 |
| mm4_intergenic_Gm24726|Zc3h12d_chr10_7849731_R | GTCTCGTGGGCTCGGTGGGGATTTCTTCAGCTTCAGT | 59.6 | 0.00 |
| mm4_intergenic_Rab28|Nkx3-2_chr5_41755690_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Rab28|Nkx3-2_chr5_41755690_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Isoc1_chr18_58660603_F | TCGTCGGCAGCGTCCCCAGCATCTATGGCTCCAA | 59.5 | 0.00 |
| mm4_intron_Isoc1_chr18_58660603_R | GTCTCGTGGGCTCGGGCAGCTCTCCATCTGGACAG | 60.1 | 0.00 |
| mm4_intron_Srp68_chr11_116265651_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Srp68_chr11_116265651_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Slc39a8_chr3_135869808_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Slc39a8_chr3_135869808_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Rbms2_chr10_128154150_F | TCGTCGGCAGCGTCTGTGAGCTATCCCAGGGTGA | 59.9 | 0.00 |
| mm4_intron_Rbms2_chr10_128154150_R | GTCTCGTGGGCTCGGGGCAGACATAGTTGGGCACT | 60.0 | 0.00 |
| mm4_intron_Lrrn3_chr12_41485181_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Lrrn3_chr12_41485181_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Eefsec_chr6_88260915_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Eefsec_chr6_88260915_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Cdc42bpb_chr12_111330553_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Cdc42bpb_chr12_111330553_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_4930452B06Rik_chr14_8646322_F | TCGTCGGCAGCGTCGCAACCAGAGTTCTGACCCA | 59.8 | 0.00 |
| mm4_intron_4930452B06Rik_chr14_8646322_R | GTCTCGTGGGCTCGGGAGACCACTGTGGAATGGCA | 59.9 | 0.00 |
| mm4_intergenic_Sult2b1|Lmtk3_chr7_45778576_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Sult2b1|Lmtk3_chr7_45778576_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Fut2|Sec1_chr7_45666381_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Fut2|Sec1_chr7_45666381_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Fam126a_chr5_24030660_F | TCGTCGGCAGCGTCCTCTGACTGACAACCCAGCC | 60.3 | 0.00 |
| mm4_exon_Fam126a_chr5_24030660_R | GTCTCGTGGGCTCGGTAGGCTGATCCAGTGTGGGA | 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_5730457N03Rik/Evx1_chr6_52314139 |
GTCGATGGACTAGCAGGCAGTGCTGCAGGGCTGGGCGCCGAGCCACGGTCTGCTGGAGCGGCCATGCTTGGCCCGGGACC CCCAGTCCCCTCCGCGGACAGCCTCTCTGGCCAAGGGCAACCTAGTAGCTCAGA |
| mm4_intergenic_Pcdh17|Gm23926_chr14_84866906 |
AAGAATGGCCTCCATAGGGGGTTACACTTCAATATATTGCATAGAAGTAGTCTCTTCTACAAGGAATTGAACTCCCTCGC TGACAGCCTCTTAGGCATTGAACTAAGTTCAATTTGGAAACCATTTCCATTTCTCCTTGC |
| mm4_exon_Rnf121_chr7_102020189 |
GGGGACAATTCCTATGCTCCACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCCCCCACTGC TGACAGCCCCACTGGCTGGTTCTCCATCATTTCCCCACCAACCCAG |
| mm4_intergenic_Cog3|Slc25a30_chr14_75758748 |
GGCGTCCCATCTCTTAGGTGAGAGAAGAAAGTGCTCACCCCCCACTCTTAGACCAGAGACGCTGTCAGCAGTGGTGAAGA AGCACAGCTAACCACTGTCACTTGGTAGCCTGAGGG |
| mm4_intergenic_Mrpl36|Lpcat1_chr13_73416793 |
AAAGAGGTGGATGTCCGCTGCTGACCCAAATGCAAGTCCCACTACTGACAGCCTCTCTGGGACTTTCCACCCAGGGGCTG CTGTCCTGAGCTCCCAGAATCCCTAGCTAATGGCAGGTGAGGTG |
| mm3_intron_Zfp536_chr7_37772408 |
GCCGCCTCTACTCGGTTTTTCTCCTCCTGTTTTTTTTTTTCTTCCACATACCCCCCCCCTTTTCCTCTTAACCCCCGCTG ACAGCTTCTCTCGCCAACGTCACAACCACGGATA |
| mm3_intergenic_Fgf9|Gm25614_chr14_58171687 |
TTCTGTTGAGGCCAGTTCCCTTTCTGTTTTTCTGCCATGTGGTGGCACAGCCAGAGAGGCTGTCACCAGGGGTACTACCT GATTTTGTACTTTGACCTTTTAAAAATTGTGAGCTAAGTCAGTTTTCTTTCA |
| mm4_intron_Habp2_chr19_56300996 |
TTCAAAGCTGGCTTGGCTCTGCCCAGCACCACAGGCTGTGCCCATCCGTCAGCTGTCCTGCTGCCTGCCAGCGAGGCTCT CAGCTGTGGTTGCCTGCCAGCGGGGCTGGAAATGTCACAGGCAG |
| mm4_exon_Ankrd52_chr10_128389267 |
AGAAGAGCAGCCCTGTTTCATTCTACTCTGGCCCCCAGGACTCCCCTTCACGCCGCTGCCTTCGCGGACAACGTCTCTGG GCTCCGGATGCTGTTGCAGCACCAAGCCGAAGTGAATG |
| mm4_exon_Nudt8/Gm16312_chr19_4000658 |
CACTGTGTCCCGGACGTCTGGGACATGCTGCCTGATGGCCTGTCCGCGGAGGACGAGCAGCGCTGCCGGCAGCTGCTAGC ACGGACCACTG |
| mm3_exon_Nr0b1_chrX_86192828 |
GAAATGCTTACCACCAGGCGGCAGGAGACCGAAGGTCCAGAGCCTGCAGAGCCCCAGGCCACAGAGCAGCCACAGATGGT GTCCGCGGAGGCTGGGCACTTGCTCCCAGCTGCTGCGGTCCAGGCCATCAAGAGTT |
| mm4_exon_Kcnb2_chr1_15711175 |
TGACTTTCCGCTCACCACTCCCCAGCACATGAGTACCATTCTTCTAGAAGAAGCCCTCCCCCAGGGACAGCCTCCCTTGC TGGAGGCTGATGATTCGGCACACTGTCAGGGACCATCC |
| mm4_intergenic_Bach1|Gm23994_chr16_87748259 |
CCCCTTAGTCCTAGAGCTGTAAGGAATGAGCTCTGTTGTGTACAGATTGAGAGCATAAAGCTTAAAGACTTGAAAGAAGC AGACGACAGAGAGGCTGTAAGAGGAGGACCCTGCTCATACTCCAACTGTCAGAGCCCAG |
| mm4_intron_2310045N01Rik_chr8_70145639 |
ACCCCTCCCACTGAATCTGTGTCACACCCAACCTTCCCTGACAGCCTGTCTGGCCTCTGAAGTGACCCCATATCCTTACA GCACACCCAAGAGCTCAGGCTATGGGTCTTGG |
| mm4_intergenic_Wdr20a|Stk30_chr12_110797405 |
CACTGGACAGTTGGACCCTCCTGTCTGTCCTGCTTGCCCACCGCAGACAACCTTTCTGGTGACTCGAGAAAGCAGCTGCC CTGTAG |
| mm3_intergenic_Actb|Fscn1_chr5_142955074 | CAACCGTGAACAGCCCTACTGAGCCATCCTCCTGGGACAGCCTCTCAGGCCAGGCCTTCTGTGTCTTCTGC |
| mm4_intron_Tlx1_chr19_45152625 |
AGTTACCCTAGGCCCCTCTGCTTCTGTTACAGACAGCACAGGCAGAGAGGCTGTCCCTAGGGGCCCTAACCAAACTTTGG GGCCACAGCAGAAAT |
| mm4_intron_Ppp1r16a_chr15_76671925 |
GTGAGGGGCCTGCAGAAGGGGCGCCAGCGAGGCGGCCAGCGGAGGGTGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNGAAACCTATCAGTGAAGGAAGTTCTTGCAACCTGTTGGTCGGGCAAATCCAT |
| mm4_intergenic_ZNFX1-AS1_2|Wnt6_chr1_74769640 |
TGGGACCAACTGTGTGTGTTTAGAGGAAAGGTGGGGGGTGGGGGCAGAAAGGCTGCCTGCGGGGGAGCAGGCTTCTTGGC AAACGCCCCAGTTTCCTGAGCTGATCCCTGC |
| mm4_exon_Smco4_chr9_15545068 |
TGTGCCTTTCAGACTTCAAAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCCCTTTTTCTCCTGAAATCGATG CATCGCTGCCCCTGAGGAGAGCCTCTCTGGGTGATGCTGTTGGGATCAGAGTCG |
| mm4_exon_Igsf23_chr7_19950574 |
AGAAGAACCTCGAGGACCCAGCCCCACTCCTCCGCAGACAGGGTCTCTGCCCTTGCTCCACCTCCTGCTAGGAGTCCCGC CTCAGCCTCTTCCTCCAGCACCCCTATTAGTGGTGGGAGGGGAGTGGGCTAACCTA |
| mm4_intergenic_E230015B07Rik|E230015B07Rik/1810020O05Rik_chr6_87674310 |
CCTGTGCTCTAGGTTTGTCCCAAGACTATTTCCCCAGCAGAAAGCCTCACTGGCTACACACATACACACACCATATATTC CATATGGCTGGTTGCTGCTCTCTGATAATCTGAGGGAACCGTGCTATCC |
| mm3_intron_Aim2_chr1_173407420 |
TTACCCCAGGAGGACCCATTGTCTCCACCTGGGACAACCTCTCTGGCAGACATTTTTTCAGACCTCTTTTTCTGCATACT TCTGCAGCAGTTTCCCA |
| mm4_intergenic_Lemd2|mmu-mir-7216_chr17_27320772 |
CTCAGCCCCAGAGCATACAGCCAAGGCCAGAGAAGCTCTCTGCCGAGGCTCGGCTCCTAGCAGTCCAGACCCACTAGCAG TCAACCAGCA |
| mm4_intron_Prmt7_chr8_106249757 |
CTCTCCTCTCAGCGCTTCCCCCCCAGGTTGCAGGGAGCTCCAGCCCTGTCAGCCTCTCTGGCCTGGCCTCCTACCTCCCC CACCCCTTTGTATCTTGCCT |
| mm4_intergenic_Klf11|Cys1_chr12_24665397 |
ATACCTGGTACCTGGGCAGTACAGGAGATGCTCCTGTAGGCTGCAGTGATACCCAAGCCCACCTCGTGCAGCCTCTCTGG AGCCTGAGTTTCCCAGGATCACAGCTCATCAGTCGGC |
| mm4_intron_Ptpn1_chr2_167961806 |
AAGGAAGCGTACAGTCAGGCTGTGCTGCCCTTCCACCGTGAACTGCCTCTCAGGCTCTGGGGCTACACAGTCCAGAGAAG GGGT |
| mm4_intergenic_Sec14l3|Mtfp1_chr11_4080651 |
ACTGAGGCAGTGGAGTCAGAAGACAGAGTATGAGCTCTCTGCACACTGGGAGCCAGTGAAGCTGTGAGCGGTGGTGTTGG TATTTTTTTGTTAGGGCTCCTCTCCCTGCAGCTGAGCAGAGAGACTC |
| mm4_intergenic_Spata2|Rnf114/Spata2_chr2_167492120 |
GGGCCTTCCAAAGCTCTGAAAACAACCTTGGCTGTGCTGGAGCCTGGCTTCCCTCCCCGGAGAGCCTCTCTCGGTTCTGA AGGGAGCCAAGTCCCCTCTCTA |
| mm4_intron_Tmcc3_chr10_94500417 |
AATCTGCTCGCTGGCTTCCCCTGTGCCCCGCCTCTTCGCTCCTCCACGCACAGCCTCTCTTCCCGTCCACTCTTCGTGAG TGTTCAATGTAGAGGGGGGGGAGGGTGCCATAAGAAT |
| mm4_exon_Tssc4/Trpm5_chr7_143070090 |
CCTAGTGGTGTGGAGGTCCAAGTGTTGTCCCCAGAGAGGCTTTCGGAGGAGGGCCAGGAGGACTCCGGCCCTGAGGACCC TCCATCGCCCCCCACGGGCACCCTCACCACTGCAGTGCAGCCATTCCACCTC |
| mm4_intergenic_Npy2r|Gm22038_chr3_82723756 |
CCAGCAGGCTTGAGTTCAGACCTCTCGCCAGAGAGGCTATGTGCTGAGGCCAGCGCTCGGGGCCTCATGCTGGAGATTGC T |
| mm4_intergenic_Gm24726|Zc3h12d_chr10_7849731 |
TCCGGCTGGTATCTTCTCCTTACTGTTTGCACAAGCCTCCTAGCACAGCCTCTGTGGCTGAGAAGAGAAACGTCAAGTCA GGATCCTTATGGCTACTGAAGCTGAAGAAATCCCCA |
| mm4_intron_Isoc1_chr18_58660603 |
CCCAGCATCTATGGCTCCAAAGGGAGTGCTTTAACTTGATTAAAGTTCATATGTTCAGAGGACAGAGTTCATGGGCTATC TGCCAGAGAGGCTGCAGGGGGTGGAGTGATCTGCCCTGCTGTCCAGATGGAGAGCTGC |
| mm4_intron_Rbms2_chr10_128154150 | TGTGAGCTATCCCAGGGTGACCTCAGACTCCTCCTGGGCCAGCCTCACTGGCTGAGTGCCCAACTATGTCTGCC |
| mm4_intron_4930452B06Rik_chr14_8646322 |
GCAACCAGAGTTCTGACCCACAAAACCAATGTGAAATGGGGACTGAGGTTACTTCAAATAAGCCCCACCAGCCAGCCTCT CTGGCTCTCCCACTGATTGGTCTGTTTGAGTGTCTTGCCATTCCACAGTGGTCTC |
| mm4_exon_Fam126a_chr5_24030660 |
CTCTGACTGACAACCCAGCCCGGACAGCCGCCACTGCCGCCAGCCTCTCTGACAGGCACCACCAGAGACCCGTCCCCAAG CAGCCAACCACCACCGTCCCACACTGGATCAGCCTA |