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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_52313633_F | TCGTCGGCAGCGTCTTGCAGCAGGAGGATGACAG | 60.0 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313633_R | GTCTCGTGGGCTCGGAGATGGCAGTGGGGAGCTA | 59.9 | 1.00 |
| mm4_intron_Prkd1_chr12_50568199_F | TCGTCGGCAGCGTCAGGAGACCGACAACTTCCCT | 60.1 | 0.35 |
| mm4_intron_Prkd1_chr12_50568199_R | GTCTCGTGGGCTCGGCTCTTCTCTGGATGTGCAGTGA | 59.7 | 0.35 |
| mm4_intergenic_Card10|Cdc42ep1_chr15_78805804_F | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_Card10|Cdc42ep1_chr15_78805804_R | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_exon_Pcdhb9_chr18_37401632_F | TCGTCGGCAGCGTCATACACAGTCAGCCCCAACC | 59.6 | 0.27 |
| mm4_exon_Pcdhb9_chr18_37401632_R | GTCTCGTGGGCTCGGGGTTAAGCTCAGCTCTGCCT | 59.7 | 0.27 |
| mm4_intergenic_Tpd52|Zbtb10_chr3_9098780_F | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_intergenic_Tpd52|Zbtb10_chr3_9098780_R | Primer3: not found at this Tm | N.d. | 0.24 |
| mm4_exon_Bloc1s4_chr5_36748448_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_exon_Bloc1s4_chr5_36748448_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intron_Synpr_chr14_13553135_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intron_Synpr_chr14_13553135_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Klhl38|Gm15943/Klhl38_chr15_58319277_F | TCGTCGGCAGCGTCTGTAGTGTGAAGTCACCAGCA | 59.2 | 0.20 |
| mm4_intergenic_Klhl38|Gm15943/Klhl38_chr15_58319277_R | GTCTCGTGGGCTCGGTCAAGAGATCCACCAGCACG | 59.7 | 0.20 |
| mm3_exon_Hk3_chr13_55012248_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm3_exon_Hk3_chr13_55012248_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Gm26801_chr1_177441627_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Gm26801_chr1_177441627_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_exon_Eml2_chr7_19179423_F | TCGTCGGCAGCGTCCGAGGAGCACCCCTAAGG | 58.7 | 0.15 |
| mm4_exon_Eml2_chr7_19179423_R | GTCTCGTGGGCTCGGCATGCCTTTGTGCATCGTCC | 60.1 | 0.15 |
| mm4_intron_Ctbp2_chr7_133037472_F | TCGTCGGCAGCGTCTAGAGGGCCAACAAAACCCC | 59.8 | 0.14 |
| mm4_intron_Ctbp2_chr7_133037472_R | GTCTCGTGGGCTCGGGACCCATTGACCCTCTGTGG | 60.0 | 0.14 |
| mm4_intergenic_Ccdc147|Sorcs3_chr19_48068790_F | TCGTCGGCAGCGTCCCAGAGTTCCAGCAAGCTCA | 59.9 | 0.13 |
| mm4_intergenic_Ccdc147|Sorcs3_chr19_48068790_R | GTCTCGTGGGCTCGGTTGAAAGATGTGCGGGAGGC | 60.9 | 0.13 |
| mm4_intron_Ptprj_chr2_90470320_F | TCGTCGGCAGCGTCCCAGCTCAAGAACACAGCCT | 60.2 | 0.12 |
| mm4_intron_Ptprj_chr2_90470320_R | GTCTCGTGGGCTCGGCTGTCAGCCCTCTGCAGG | 59.7 | 0.12 |
| mm4_intergenic_Gm22183|mmu-mir-378d_chr10_126653827_F | TCGTCGGCAGCGTCCAGCAGCCTCTGGAGAAACA | 59.9 | 0.11 |
| mm4_intergenic_Gm22183|mmu-mir-378d_chr10_126653827_R | GTCTCGTGGGCTCGGTGGCAGTGAGAGAGAACTTCA | 58.6 | 0.11 |
| mm4_intergenic_Ss18|Psma8_chr18_14706121_F | TCGTCGGCAGCGTCGCCACACAAGCAGGACTTTT | 59.2 | 0.10 |
| mm4_intergenic_Ss18|Psma8_chr18_14706121_R | GTCTCGTGGGCTCGGCCGGAAGCGGTTATTCCTGA | 59.8 | 0.10 |
| mm4_intron_2900026A02Rik_chr5_113104448_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_2900026A02Rik_chr5_113104448_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_Lsm6|Gm8054_chr8_78849085_F | TCGTCGGCAGCGTCACTCTGTGCCAGTGCTGTTT | 60.1 | 0.09 |
| mm4_intergenic_Lsm6|Gm8054_chr8_78849085_R | GTCTCGTGGGCTCGGACCAAAGACAGCTTAGATTTCTGTG | 59.5 | 0.09 |
| mm4_intron_Scube1_chr15_83681769_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Scube1_chr15_83681769_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Ephx2_chr14_66095304_F | TCGTCGGCAGCGTCTGCTCCATGGTTCCCTGTTC | 59.9 | 0.07 |
| mm4_intron_Ephx2_chr14_66095304_R | GTCTCGTGGGCTCGGTCCCCAGACTGCTCTGTCAT | 60.2 | 0.07 |
| mm4_intron_Tacc3_chr5_33660504_F | TCGTCGGCAGCGTCTCCCATCCGAAGCAAAAGCT | 59.9 | 0.06 |
| mm4_intron_Tacc3_chr5_33660504_R | GTCTCGTGGGCTCGGGCATGAGGAAAGGGCACTGA | 60.3 | 0.06 |
| mm4_intergenic_Gm22331|Gm24937_chr1_112769760_F | TCGTCGGCAGCGTCTTCAAGGTGTGGCCAGAGAC | 59.8 | 0.06 |
| mm4_intergenic_Gm22331|Gm24937_chr1_112769760_R | GTCTCGTGGGCTCGGGATGTTGGCTGGGGAGACTC | 60.1 | 0.06 |
| mm4_exon_Lrrc17/Fbxl13_chr5_21543788_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Lrrc17/Fbxl13_chr5_21543788_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm8730|Cdh5_chr8_103331431_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm8730|Cdh5_chr8_103331431_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Tnrc6b_chr15_80783875_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Tnrc6b_chr15_80783875_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Nap1l4_chr7_143548837_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Nap1l4_chr7_143548837_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm14972|Gm382_chrX_127010613_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm14972|Gm382_chrX_127010613_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm23218|Fyb_chr15_6569891_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm23218|Fyb_chr15_6569891_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Tmem45b|Barx2_chr9_31795019_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Tmem45b|Barx2_chr9_31795019_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_A930031H19Rik|Gm25261_chr4_131161046_F | TCGTCGGCAGCGTCGTGGCATTCTGTCCTCTGCT | 60.0 | 0.02 |
| mm4_intergenic_A930031H19Rik|Gm25261_chr4_131161046_R | GTCTCGTGGGCTCGGGTGGGTTTCTGGAGTGAGGG | 59.9 | 0.02 |
| mm4_intergenic_Gm10610|Tmc3_chr7_83564303_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm10610|Tmc3_chr7_83564303_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Tmem19_chr10_115358709_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Tmem19_chr10_115358709_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_S100a4|S100a5_chr3_90606364_F | TCGTCGGCAGCGTCGTTAGCCAGCCCACAGTTCT | 59.9 | 0.02 |
| mm4_intergenic_S100a4|S100a5_chr3_90606364_R | GTCTCGTGGGCTCGGGCAGGCCTGTTGTCTTCTCT | 59.9 | 0.02 |
| mm4_intergenic_mmu-mir-6378|Gm25442_chr3_35313412_F | TCGTCGGCAGCGTCTCAGAGGGGTCTCCAATCCC | 60.3 | 0.02 |
| mm4_intergenic_mmu-mir-6378|Gm25442_chr3_35313412_R | GTCTCGTGGGCTCGGGCTATGAGTGCGTGCTGTTG | 59.9 | 0.02 |
| mm4_intergenic_Gm26008|Slc37a3_chr6_39314861_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm26008|Slc37a3_chr6_39314861_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Pi4ka|Snap29/Pi4ka_chr16_17405953_F | TCGTCGGCAGCGTCACCTGACCACCTGACTCCTC | 60.5 | 0.02 |
| mm4_intergenic_Pi4ka|Snap29/Pi4ka_chr16_17405953_R | GTCTCGTGGGCTCGGCACTACTTCCGCCAGCACTG | 61.0 | 0.02 |
| mm4_intron_Ddr2_chr1_170088027_F | TCGTCGGCAGCGTCTCCACAGTTCCACCTGCTTC | 59.8 | 0.02 |
| mm4_intron_Ddr2_chr1_170088027_R | GTCTCGTGGGCTCGGTGCATCTTCACCTGGCATGT | 59.9 | 0.02 |
| mm4_intergenic_Gm4262|Litaf_chr16_11026825_F | TCGTCGGCAGCGTCTTTGCAGACTGGTCAGCTGG | 60.5 | 0.02 |
| mm4_intergenic_Gm4262|Litaf_chr16_11026825_R | GTCTCGTGGGCTCGGCAAGCACTAGGGTGGCAGAC | 60.6 | 0.02 |
| mm4_intron_Vstm2b_chr7_40929295_F | TCGTCGGCAGCGTCTTCAGAAGCCCAGGAAAGCC | 60.2 | 0.01 |
| mm4_intron_Vstm2b_chr7_40929295_R | GTCTCGTGGGCTCGGCAGAGGATCGGCACTGTAGC | 60.2 | 0.01 |
| mm4_exon_Lef1_chr3_131223382_F | TCGTCGGCAGCGTCTTTTCAGCCCGTGAGAAGGC | 60.8 | 0.01 |
| mm4_exon_Lef1_chr3_131223382_R | GTCTCGTGGGCTCGGGAAGATGCTGGAGGATCGCA | 59.8 | 0.01 |
| mm4_intergenic_Emx2|Gm17203_chr19_59699192_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Emx2|Gm17203_chr19_59699192_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Crx_chr7_15869542_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Crx_chr7_15869542_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Rad54b_chr4_11596717_F | TCGTCGGCAGCGTCCAAGGAGGGGAGAAAGGCAG | 60.0 | 0.01 |
| mm4_intron_Rad54b_chr4_11596717_R | GTCTCGTGGGCTCGGGTGTTCCTGAGGAAGCTGGA | 59.3 | 0.01 |
| mm4_intron_Ccdc57_chr11_120920292_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Ccdc57_chr11_120920292_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Max|Gm22696_chr12_76984591_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Max|Gm22696_chr12_76984591_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Myh14_chr7_44670705_F | TCGTCGGCAGCGTCTTACCTCTCCCTGACCCTGG | 59.9 | 0.01 |
| mm4_intron_Myh14_chr7_44670705_R | GTCTCGTGGGCTCGGCAGAGCCTGTCAGACCTGG | 59.4 | 0.01 |
| mm4_exon_Myh11_chr16_14277578_F | TCGTCGGCAGCGTCGAAGTCCGTCACCCCAAGAC | 60.3 | 0.01 |
| mm4_exon_Myh11_chr16_14277578_R | GTCTCGTGGGCTCGGGAGCTGACGTGCCTCAATGA | 60.3 | 0.01 |
| mm4_intron_Afap1_chr5_35984652_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Afap1_chr5_35984652_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gtdc1|Zeb2_chr2_44935484_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gtdc1|Zeb2_chr2_44935484_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_A530013C23Rik|Gm14321_chr2_167769919_F | TCGTCGGCAGCGTCGGAGACACAGCCTGGAGAAG | 59.7 | 0.01 |
| mm4_intergenic_A530013C23Rik|Gm14321_chr2_167769919_R | GTCTCGTGGGCTCGGCCGAACAGGAACCTCACCAA | 59.8 | 0.01 |
| mm4_intergenic_Ccdc112|Gm24617_chr18_46334071_F | TCGTCGGCAGCGTCGGGCAGACATTTGAGCAGGA | 60.3 | 0.00 |
| mm4_intergenic_Ccdc112|Gm24617_chr18_46334071_R | GTCTCGTGGGCTCGGGCTGGCATTGAGTTATCCCG | 59.0 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095853_F | TCGTCGGCAGCGTCCTGCACTGACTTAGGTCCCC | 59.7 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095853_R | GTCTCGTGGGCTCGGAAGTCAGTGCAGCACAGAGG | 60.2 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095816_F | TCGTCGGCAGCGTCCCTTGGTTCACCTCTGTGCT | 59.8 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095816_R | GTCTCGTGGGCTCGGAAGTCAGTGCAGCACAGAGG | 60.2 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095779_F | TCGTCGGCAGCGTCTGGTTCACTTCTGTGCTGCA | 60.1 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095779_R | GTCTCGTGGGCTCGGAAGTCAGTGCAGCACAGAGG | 60.2 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095742_F | TCGTCGGCAGCGTCTGGTTCACTTCTGTGCTGCA | 60.1 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095742_R | GTCTCGTGGGCTCGGAAGTCAGTGCAGCACAGAGG | 60.2 | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095668_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095668_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm11569|Gm11554_chr11_99802255_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm11569|Gm11554_chr11_99802255_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm11554|Krtap4-13_chr11_99807788_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm11554|Krtap4-13_chr11_99807788_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Clvs1_chr4_9426993_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Clvs1_chr4_9426993_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Las1l|Msn_chrX_95968259_F | TCGTCGGCAGCGTCGCTTCTAACCACCATGGCCT | 60.0 | 0.00 |
| mm4_intergenic_Las1l|Msn_chrX_95968259_R | GTCTCGTGGGCTCGGGGCGGAAGGAAAGAGAGGTC | 60.1 | 0.00 |
| mm4_intron_Slit3_chr11_35690585_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Slit3_chr11_35690585_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Mro_chr18_73873506_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Mro_chr18_73873506_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Man2a1_chr17_64611803_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Man2a1_chr17_64611803_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Trpm7|Sppl2a_chr2_126881574_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Trpm7|Sppl2a_chr2_126881574_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ptprg|3830406C13Rik_chr14_12283376_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ptprg|3830406C13Rik_chr14_12283376_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mir598|Xkr6_chr14_63777419_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mir598|Xkr6_chr14_63777419_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm24505|Gpatch1_chr7_35245335_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm24505|Gpatch1_chr7_35245335_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23180|Gm22977_chr16_54965979_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23180|Gm22977_chr16_54965979_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Gsg1l_chr7_126032486_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Gsg1l_chr7_126032486_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Actrt2|Gm13113_chr4_154695069_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Actrt2|Gm13113_chr4_154695069_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm5432|Lpin1_chr12_16491462_F | TCGTCGGCAGCGTCCCTTGGGCGATGTTCTCAGA | 59.7 | 0.00 |
| mm4_intergenic_Gm5432|Lpin1_chr12_16491462_R | GTCTCGTGGGCTCGGTGGCACACACCTTGAATTCTG | 59.0 | 0.00 |
| mm4_intron_Wdr96_chr19_47811833_F | TCGTCGGCAGCGTCAGCCAAGAGACATGGAAGGC | 60.0 | 0.00 |
| mm4_intron_Wdr96_chr19_47811833_R | GTCTCGTGGGCTCGGCCAACAGAGGAGAGCGTGAG | 60.1 | 0.00 |
| mm4_intron_Tmod3_chr9_75535512_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Tmod3_chr9_75535512_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ryr1_chr7_29075547_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ryr1_chr7_29075547_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ptprm_chr17_67280142_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ptprm_chr17_67280142_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Pgf_chr12_85169295_F | TCGTCGGCAGCGTCGGATTCCCTGTTCTCATCGCA | 60.1 | 0.00 |
| mm4_intron_Pgf_chr12_85169295_R | GTCTCGTGGGCTCGGCACAGACTGAGGAACCCCAC | 59.9 | 0.00 |
| mm4_intron_Oaf_chr9_43236392_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Oaf_chr9_43236392_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Neurl1a_chr19_47193025_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Neurl1a_chr19_47193025_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Myo9a_chr9_59791307_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Myo9a_chr9_59791307_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Gm15155_chrX_155798379_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Gm15155_chrX_155798379_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Dpp10_chr1_123632813_F | TCGTCGGCAGCGTCTCATACCCAGCACTCAGGGA | 59.9 | 0.00 |
| mm4_intron_Dpp10_chr1_123632813_R | GTCTCGTGGGCTCGGTGAGCAAATAAACAAACATGGGAGA | 59.4 | 0.00 |
| mm4_intron_Cntnap5c_chr17_58220442_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Cntnap5c_chr17_58220442_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ankrd40_chr11_94333024_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ankrd40_chr11_94333024_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_AI314180_chr4_58872883_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_AI314180_chr4_58872883_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_1600014C10Rik_chr7_38191810_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_1600014C10Rik_chr7_38191810_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Uimc1|Zfp346_chr13_55105188_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Uimc1|Zfp346_chr13_55105188_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Uimc1|Zfp346_chr13_55105172_F | TCGTCGGCAGCGTCTTCACTGGACTCCTAAGGCG | 59.1 | 0.00 |
| mm4_intergenic_Uimc1|Zfp346_chr13_55105172_R | GTCTCGTGGGCTCGGAGTTTGGGCTCTGCAGAGTC | 59.9 | 0.00 |
| mm4_intergenic_Psg22|Gm24464_chr7_18743452_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Psg22|Gm24464_chr7_18743452_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Psat1|Gm3329_chr19_15943240_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Psat1|Gm3329_chr19_15943240_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Nmbr|Gm23892_chr10_14955014_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Nmbr|Gm23892_chr10_14955014_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Msr1|Fgf20_chr8_39814339_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Msr1|Fgf20_chr8_39814339_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mrpl42|Ube2n_chr10_95508272_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mrpl42|Ube2n_chr10_95508272_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mir5127|Gm17383_chr18_82234781_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Mir5127|Gm17383_chr18_82234781_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Lmnb2|Gadd45b_chr10_80921876_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Lmnb2|Gadd45b_chr10_80921876_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm6569/Mroh5|Gm7935_chr15_74048708_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm6569/Mroh5|Gm7935_chr15_74048708_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26651|Diras2_chr13_52195738_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26651|Diras2_chr13_52195738_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26350|Prlr_chr15_10106199_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26350|Prlr_chr15_10106199_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23986|Gm24929_chr8_50853373_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23986|Gm24929_chr8_50853373_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm17177|Speer6-ps1_chr13_3185164_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm17177|Speer6-ps1_chr13_3185164_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm12026|Gm12027_chr11_19533100_F | TCGTCGGCAGCGTCGTCATCATCCTTCCCCGGTC | 59.8 | 0.00 |
| mm4_intergenic_Gm12026|Gm12027_chr11_19533100_R | GTCTCGTGGGCTCGGCTTACTTCAGGCAGGCTGGG | 60.3 | 0.00 |
| mm4_intergenic_Alpl|Ece1_chr4_137829669_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Alpl|Ece1_chr4_137829669_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Actbl2|Gm15285_chr13_111348192_F | TCGTCGGCAGCGTCGGAAATTCCTTCGGGGCTGT | 60.3 | 0.00 |
| mm4_intergenic_Actbl2|Gm15285_chr13_111348192_R | GTCTCGTGGGCTCGGGGCGCTGCTAATTTCTGCTG | 60.2 | 0.00 |
| mm4_intergenic_Abca4|Gm4609_chr3_122189972_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Abca4|Gm4609_chr3_122189972_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_A230028O05Rik|Tprg_chr16_25254842_F | TCGTCGGCAGCGTCTACACATGTGGCAGGACACG | 60.3 | 0.00 |
| mm4_intergenic_A230028O05Rik|Tprg_chr16_25254842_R | GTCTCGTGGGCTCGGTACCGCTCCTCTAGATGCCT | 59.5 | 0.00 |
| mm4_intergenic_1700017J07Rik|Gm14260_chr2_168980940_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_1700017J07Rik|Gm14260_chr2_168980940_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Strap_chr6_137735277_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Strap_chr6_137735277_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Mvb12b_chr2_33731991_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Mvb12b_chr2_33731991_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Hydin_chr8_110597952_F | TCGTCGGCAGCGTCCCACCCCACTGAGATAGGGA | 60.0 | 0.00 |
| mm4_exon_Hydin_chr8_110597952_R | GTCTCGTGGGCTCGGCCATGCAATGCCTACTTGCC | 59.8 | 0.00 |
| mm4_exon_Hira_chr16_18877250_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Hira_chr16_18877250_R | Primer3: not found at this Tm | N.d. | 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_52313633 |
TTGCAGCAGGAGGATGACAGCTTAGAAAGAAGAGGGCAATGGGGCTTCCTCCCAGAGGCGGTGCGGCACAGAGGAGCGCT CGCATCACAAGGTGACCCTAGCTCCCCACTGCCATCT |
| mm4_intron_Prkd1_chr12_50568199 |
AGGAGACCGACAACTTCCCTTCTCTAATAGATCTTCTGAAATAAAAAACCCATTACGTTCAAACCAGAGACGGTGTGTCT CAGAGGAAATGGATTCTGATAATGTCAAATACATTCACTGCACATCCAGAGAAGAG |
| mm4_exon_Pcdhb9_chr18_37401632 |
ATACACAGTCAGCCCCAACCCTTATTTTCACGTCCTCACTCAAAATAATAGTAAAGGCAAAAAATACCCAGAGTTGGTGC AGGACAGAGGCCTGGACAGAGAGGAGCAGGCAGAGCTGAGCTTAACC |
| mm4_intergenic_Klhl38|Gm15943/Klhl38_chr15_58319277 |
TGTAGTGTGAAGTCACCAGCATAATTTGTTGATTCTCTTATGGAAAAACAGCCAGAGACGGTGGGGCATGGAGGGCGGGG TTCTAGCTTTCCACACATGCGTGCTGGTGGATCTCTTGA |
| mm4_exon_Eml2_chr7_19179423 |
CGAGGAGCACCCCTAAGGGCCGGGCGCCCCCGCGTCTGGGCACCACCGCCTCGGGTATTTTGGTCGGGGTGGAGGGTATG AGGACGATGCACAAAGGCATG |
| mm4_intron_Ctbp2_chr7_133037472 |
TAGAGGGCCAACAAAACCCCTTTTAATTGTCCTCTGACCAGCTCCGCCTCTGGGGTCCCCTGTCTGGGATCCTGACAGGC AAATAGTCTTTGTTCACCCACAGAGGGTCAATGGGTC |
| mm4_intergenic_Ccdc147|Sorcs3_chr19_48068790 |
CCAGAGTTCCAGCAAGCTCACCACCACTCCTGCGCCTCAGTGGGGAACTTCTCTTTGCTGCACAGCCTCCGGCTCTGCCT CTCACCGCCTCCCGCACATCTTTCAA |
| mm4_intron_Ptprj_chr2_90470320 |
CCAGCTCAAGAACACAGCCTGCCGCTGTGTGCTGTGAGGAGACCAGGGGCGGTGCTGCACACAGAGAAGAGCCCTGCCTG CGGCCTGCAGAGGGCTGACAG |
| mm4_intergenic_Gm22183|mmu-mir-378d_chr10_126653827 |
CAGCAGCCTCTGGAGAAACACTGCTTAGGGCTTTTGTCCTGAGATTACCTAAAAACCCCCTTGACTTGGACCAACATCCC GAGTTGGTGAGGAACAGAGGTCTTTTCTATGAAGTTCTCTCTCACTGCCA |
| mm4_intergenic_Ss18|Psma8_chr18_14706121 |
GCCACACAAGCAGGACTTTTTGGAGACAGCCAAAGGCGCTCAGACTTGGGGGGAGAGGGGACCAAAGTCTGGAACTCCAG GACTTCCGGAGGCGGTTGGGCGCACAGGGCGTTCAGGAATAACCGCTTCCGG |
| mm4_intergenic_Lsm6|Gm8054_chr8_78849085 |
ACTCTGTGCCAGTGCTGTTTATTTAAAATAAAACAAATCTTTTAAAAAAGAAACCCTGTACTAGCACAGAAGGCCACTGG GCCACACAGCCTCAGGAACCATTGACAGATCACAGAAATCTAAGCTGTCTTTGGT |
| mm4_intron_Ephx2_chr14_66095304 |
TGCTCCATGGTTCCCTGTTCTCTCCCTCCATTGCTACTGGCCTAGACCATCCGTCCTCTCCAGACCACCCTGCAGTGCAT TCCATTCCAGCCTAAGGCGGTGAGGCAGAGAGCATGACAGAGCAGTCTGGGGA |
| mm4_intron_Tacc3_chr5_33660504 |
TCCCATCCGAAGCAAAAGCTGAACCGATTGTTCTGCTTTCTTGCCTGAAAGACTTCACCTGAGGCTGTACAGCCCAGAGG CCTATGCTTGTAAATTCCACATCCATTTCAGTGCCCTTTCCTCATGC |
| mm4_intergenic_Gm22331|Gm24937_chr1_112769760 |
TTCAAGGTGTGGCCAGAGACCAGACAACCCAAGGTGGTAAGGCACAGAGGAATATGCAGCCCGGAGTCTCCCCAGCCAAC ATC |
| mm4_intergenic_A930031H19Rik|Gm25261_chr4_131161046 |
GTGGCATTCTGTCCTCTGCTCTCTGCTGGGACGTGGCAGGCTTCACAGATGACATCGGGATGTCAGAGCCCTGGGCTCTC CGTGCCCCACTGCCTCCGGGCAGTTCACAGAAGGCCCCTCACTCCAGAAACCCAC |
| mm4_intergenic_S100a4|S100a5_chr3_90606364 |
GTTAGCCAGCCCACAGTTCTCCCTCCTCTCTCCAGCACTGCCTCTGGGCTCAAACTGAAGTTGGGATGGGATTAAAGGTC ACATCTGCTGCTGGTTGGGGTCTGGAGAGAAGACAACAGGCCTGC |
| mm4_intergenic_mmu-mir-6378|Gm25442_chr3_35313412 |
TCAGAGGGGTCTCCAATCCCTATCCACAGCAATTAAGGGCAACAAACTGCAAACCAGTGTACTGCACCGCCTCAGACTTC AGCCAACAGCACGCACTCATAGC |
| mm4_intergenic_Pi4ka|Snap29/Pi4ka_chr16_17405953 |
ACCTGACCACCTGACTCCTCCCCTCTCCCCTCCCCCGCACTGGGTGGGGCCTGGTCCCCCTCTGCCGCTCCGCCGCCGGG TTGGCTCTGGAGGCGGGGCTCTAGCGCAGTGCTGGCGGAAGTAGTG |
| mm4_intron_Ddr2_chr1_170088027 |
TCCACAGTTCCACCTGCTTCGCTCAGTCATTCAACACTCAACAGTATTCCAGAGGCAGTGTGGGACACAGGCAAGTCTAA GGCAATCCCCACTGAGCAGTCTTCACATGCCAGGTGAAGATGCA |
| mm4_intergenic_Gm4262|Litaf_chr16_11026825 |
TTTGCAGACTGGTCAGCTGGTCTAGAATGCACTGTCTAAGGAACAACTCATTAATTGGAGGTCCTAGTATGAATTTGCTT CAAACCACCCAGAGGCAGTGGGGCATAGTGGACACGTCTGCCACCCTAGTGCTTG |
| mm4_intron_Vstm2b_chr7_40929295 |
TTCAGAAGCCCAGGAAAGCCTCCCTCTGTCCTGGACTGCCTCAGGGCTCCAGGTTCTCAGGATTCAAGCTGACTGTCTTT TTTTTTTCTTCACTTGCAGGTACCGGCCCAGGCTACAGTGCCGATCCTCTG |
| mm4_exon_Lef1_chr3_131223382 |
TTTTCAGCCCGTGAGAAGGCTAGCAGGCCCTGCCCACTGAGCGGCACTGCCTCCGGTCTCTGTGCGATCCTCCAGCATCT TC |
| mm4_intron_Rad54b_chr4_11596717 |
CAAGGAGGGGAGAAAGGCAGAACAGAGTTAGAACCCTGTGGCAGTGCTGCACATAGGATGGACACATACATTCCAGTAGC ATAGGCTTTACAGCTCATTTGCATACTTCCAGCTTCCTCAGGAACAC |
| mm4_intron_Myh14_chr7_44670705 |
TTACCTCTCCCTGACCCTGGGGTCGCTTGCACCCAGGGTGAATGTCTTGACCCACCCCTCTCCAAGACCCCCCGCTGTAC CCCACCGGCTCCGGCCTCCCCAGGTCTGACAGGCTCTG |
| mm4_exon_Myh11_chr16_14277578 |
GAAGTCCGTCACCCCAAGACACTCACATAGATGAGGCCTGAGAAGTATCGCTCCCTCAGGTTGTGCAGCACAGAGGCCTC ATTGAGGCACGTCAGCTC |
| mm4_intergenic_A530013C23Rik|Gm14321_chr2_167769919 |
GGAGACACAGCCTGGAGAAGGGCTGGCAACCCCACGGCCCAGAGGCTGGGAGGCCCAGAGGCGGGGAGGCCCAGTCGGAA CTTCTGGTTTCCGTGTTGTCCAGTTGGTGAGGTTCCTGTTCGG |
| mm4_intergenic_Ccdc112|Gm24617_chr18_46334071 |
GGGCAGACATTTGAGCAGGATTTACAGCCTGCCAGACGTAGTGCGGCACAGAGAGATTTCCCCATCAAATCTCACAGCAT CATGGCTATTTCGGGATAACTCAATGCCAGC |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095853 |
CTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTACAC TGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTT |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095816 |
CCTTGGTTCACCTCTGTGCTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTTAGGTCCCCCTTGG TTCACCTCTGTGCTGCACTGACTT |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095779 |
TGGTTCACTTCTGTGCTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTTAGGTACCCCTTGGTTC ACCTCTGTGCTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTT |
| mm4_intergenic_Klhl25|Gm5597_chr7_76095742 |
TGGTTCACTTCTGTGCTGCACTGACTTAGGTCCCCCTTGGTTCACCTCTGTGCTGCACTGACTTAGGTACCCCTTGGTTC ACCTCTGTGCTGCACTGACTT |
| mm4_intergenic_Las1l|Msn_chrX_95968259 |
GCTTCTAACCACCATGGCCTCTCTGGCTCTTTGCACTCCAGCCTCTATGCCCCTCGGCCTCTGGACCTACATCTCTGTAG CCTAGGCATCTCTGTCCCTCGCTCTATGCCCCTAGACCTCTCTTTCCTTCCGCC |
| mm4_intergenic_Gm5432|Lpin1_chr12_16491462 |
CCTTGGGCGATGTTCTCAGAAAGAAGCTGTGATGCAGTTAAGTGGAGCCAGCTTCACCTCTGTGCCCCTCTGCCCCTGGG GGTCAGAATTCAAGGTGTGTGCCA |
| mm4_intron_Wdr96_chr19_47811833 |
AGCCAAGAGACATGGAAGGCGAACCCCCCCGGGGGGGTGGGGCATAGAGGACCCTGGATTTGAACTCACGCTCTCCTCTG TTGG |
| mm4_intron_Pgf_chr12_85169295 |
GGATTCCCTGTTCTCATCGCAAGACCTCATCCCCAGTGCCCCACCCCCTCAGGCTCAGCCTTTGTGCCAGTCCTGGGCCC CAGCATACTCACGGGTGGGGTTCCTCAGTCTGTG |
| mm4_intron_Dpp10_chr1_123632813 |
TCATACCCAGCACTCAGGGAGCCCACCATGTTCCTCTCTGCTGCACCCACTCTGGGGCCTTTCATGACTGTATTCTATAT GTGCTTAAAAGCATTATCTCCCATGTTTGTTTATTTGCTCA |
| mm4_intergenic_Uimc1|Zfp346_chr13_55105172 |
TTCACTGGACTCCTAAGGCGCCAGAGGAACCAAAACAAAATGAGCCTCTGGGCCCCGCCTCCTCTGGGCCCCGCCCCCTC AGGGCCCCGCCCCAGCGGGACTCTGCAGAGCCCAAACT |
| mm4_intergenic_Gm12026|Gm12027_chr11_19533100 |
GTCATCATCCTTCCCCGGTCCAGCAGCTGCAGCATGAGATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNTGCGCCTCAGGCCCCAGCCTGCCTGAAGTAAG |
| mm4_intergenic_Actbl2|Gm15285_chr13_111348192 |
GGAAATTCCTTCGGGGCTGTGGTCGCCCGACATTTGCCATCACAAAAGATAGCCATACCAGAGGAGGTACAGCAAAGAGG TAGAACCCCAAGAAAAATCTGACGCAGCAGAAATTAGCAGCGCC |
| mm4_intergenic_A230028O05Rik|Tprg_chr16_25254842 |
TACACATGTGGCAGGACACGACAGGATTTGCTCAGAAGCTATCAGAAGCCCCCCTGAGCAGGTGAGGCACAGAGCCAACA AGTCCGCGAGGCATCTAGAGGAGCGGTA |
| mm4_exon_Hydin_chr8_110597952 |
CCACCCCACTGAGATAGGGAAGGAGAGTCTCTATAAAAACATTCTCTGCTTCATCCAAGGAGGAAATCCTCTGTGCCTCA CCCTGTCTGGAACCTGTGTGGGACCACCTGTGGTAAAAGAGGCAAGTAGGCATTGCATGG |