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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_52313837_F | TCGTCGGCAGCGTCAGGGAGCCTGGGATTAGGAG | 60.1 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313837_R | GTCTCGTGGGCTCGGTACCAACCAGAGTGCCAAGC | 60.2 | 1.00 |
| mm4_intron_Stbd1_chr5_92603375_F | TCGTCGGCAGCGTCATTCTTCCTCCCCTCGAGCT | 60.0 | 0.63 |
| mm4_intron_Stbd1_chr5_92603375_R | GTCTCGTGGGCTCGGGAAGGTTCAGTCCGAGGTCG | 60.1 | 0.63 |
| mm4_intergenic_Arf2|Crhr1_chr11_104045266_F | TCGTCGGCAGCGTCGCTAGAGCGTCAAAAGCTGC | 59.9 | 0.43 |
| mm4_intergenic_Arf2|Crhr1_chr11_104045266_R | GTCTCGTGGGCTCGGGCCCTTTGATTTGGCACCAG | 60.0 | 0.43 |
| mm3_intron_Sox5_chr6_143936788_F | TCGTCGGCAGCGTCGGACTCCAGAGTTGCAGATCG | 60.4 | 0.40 |
| mm3_intron_Sox5_chr6_143936788_R | GTCTCGTGGGCTCGGAGCACGAAGGTGTAAGCACA | 59.8 | 0.40 |
| mm4_intergenic_Gm6767|Cblb_chr16_51597206_F | Primer3: not found at this Tm | N.d. | 0.38 |
| mm4_intergenic_Gm6767|Cblb_chr16_51597206_R | Primer3: not found at this Tm | N.d. | 0.38 |
| mm4_intergenic_Maml3|Foxo1/Gm20402_chr3_52141024_F | Primer3: not found at this Tm | N.d. | 0.38 |
| mm4_intergenic_Maml3|Foxo1/Gm20402_chr3_52141024_R | Primer3: not found at this Tm | N.d. | 0.38 |
| mm4_intron_A530013C23Rik_chr2_167709855_F | Primer3: not found at this Tm | N.d. | 0.37 |
| mm4_intron_A530013C23Rik_chr2_167709855_R | Primer3: not found at this Tm | N.d. | 0.37 |
| mm4_intron_Npas3_chr12_53541195_F | TCGTCGGCAGCGTCCCAGGGAGGCCTTTGAATTTC | 59.1 | 0.35 |
| mm4_intron_Npas3_chr12_53541195_R | GTCTCGTGGGCTCGGAACTATCCACTGCAGTTGGC | 58.1 | 0.35 |
| mm4_intron_Iqca_chr1_90109689_F | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intron_Iqca_chr1_90109689_R | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intron_Bcar1_chr8_111718075_F | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intron_Bcar1_chr8_111718075_R | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Olfr972|Olfr229_chr9_39904219_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Olfr972|Olfr229_chr9_39904219_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Gm22762|4930405D11Rik_chr11_90785665_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Gm22762|4930405D11Rik_chr11_90785665_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Sec16b|Brinp2_chr1_158227999_F | TCGTCGGCAGCGTCAGAAAGTCTGCTGTGCCACA | 59.8 | 0.21 |
| mm4_intergenic_Sec16b|Brinp2_chr1_158227999_R | GTCTCGTGGGCTCGGTGGGAAGCTTCTGAACATCGT | 59.6 | 0.21 |
| mm4_intron_Col24a1_chr3_145448800_F | TCGTCGGCAGCGTCAAACCCCACAAGCCAGAGAC | 60.1 | 0.20 |
| mm4_intron_Col24a1_chr3_145448800_R | GTCTCGTGGGCTCGGTCCATGACAGCGTTGGGTAC | 60.0 | 0.20 |
| mm4_intron_Sp4_chr12_118301164_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intron_Sp4_chr12_118301164_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Fez2|Gm10093_chr17_78454274_F | TCGTCGGCAGCGTCGTTGGCAATTGTGGGCGTAG | 60.1 | 0.19 |
| mm4_intergenic_Fez2|Gm10093_chr17_78454274_R | GTCTCGTGGGCTCGGCTAAGCTTGAGACGGAGCCC | 60.1 | 0.19 |
| mm4_intergenic_5033426O07Rik|Gm26815_chr8_121249013_F | TCGTCGGCAGCGTCCCCTCATGTCACACTTCCCC | 60.0 | 0.18 |
| mm4_intergenic_5033426O07Rik|Gm26815_chr8_121249013_R | GTCTCGTGGGCTCGGGGACCCATGATGCAATGGGA | 60.1 | 0.18 |
| mm4_intergenic_Atxn7l1|Gm11052_chr12_33179942_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intergenic_Atxn7l1|Gm11052_chr12_33179942_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm3_intergenic_4933402E13Rik|Gm14679_chrX_62338518_F | TCGTCGGCAGCGTCGTTTGTGCAACACCACGGAC | 60.5 | 0.16 |
| mm3_intergenic_4933402E13Rik|Gm14679_chrX_62338518_R | GTCTCGTGGGCTCGGGTGCCCTCAGCTGTCACATA | 59.7 | 0.16 |
| mm4_intergenic_2310007B03Rik|E030010N08Rik_chr1_93199675_F | TCGTCGGCAGCGTCATGTGCCATGATGACCAGCA | 60.0 | 0.16 |
| mm4_intergenic_2310007B03Rik|E030010N08Rik_chr1_93199675_R | GTCTCGTGGGCTCGGTGGCCTCTCTCACCGTCTAA | 59.9 | 0.16 |
| mm4_intron_Filip1_chr9_79828429_F | TCGTCGGCAGCGTCTTTGCCACCCTGATGCATCC | 60.9 | 0.16 |
| mm4_intron_Filip1_chr9_79828429_R | GTCTCGTGGGCTCGGGAGGGACCGAGGTGAAAGTG | 60.0 | 0.16 |
| mm4_intergenic_Efnb1|Gm14812_chrX_99223341_F | TCGTCGGCAGCGTCTTGAAGGATCACACAGGGCC | 59.9 | 0.15 |
| mm4_intergenic_Efnb1|Gm14812_chrX_99223341_R | GTCTCGTGGGCTCGGGCAAAGATGACAGGTTCCATCC | 59.5 | 0.15 |
| mm4_intergenic_Gm5611|Chordc1_chr9_18232753_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Gm5611|Chordc1_chr9_18232753_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intron_Gm26691_chr3_134034986_F | TCGTCGGCAGCGTCGCATGCTCTGGGGTTTACCT | 60.0 | 0.15 |
| mm4_intron_Gm26691_chr3_134034986_R | GTCTCGTGGGCTCGGGCCTCACCCCATCTTTACCC | 60.1 | 0.15 |
| mm4_intron_Erbb2_chr11_98415643_F | TCGTCGGCAGCGTCCCTTTCTCTTGGGCCCTCTG | 60.0 | 0.15 |
| mm4_intron_Erbb2_chr11_98415643_R | GTCTCGTGGGCTCGGCCTGCCCACATCATTCCCAT | 60.1 | 0.15 |
| mm4_intergenic_Gm14318|B230312C02Rik_chr2_180352654_F | TCGTCGGCAGCGTCGCATCCTCACAAGGTGGGAA | 59.9 | 0.14 |
| mm4_intergenic_Gm14318|B230312C02Rik_chr2_180352654_R | GTCTCGTGGGCTCGGAGGAGGATGTGGTACTGGCA | 60.2 | 0.14 |
| mm4_intergenic_Gm25658|Atp2b1_chr10_98907192_F | TCGTCGGCAGCGTCATGGCATGCCTGTTCCTCTG | 60.3 | 0.14 |
| mm4_intergenic_Gm25658|Atp2b1_chr10_98907192_R | GTCTCGTGGGCTCGGCCTCAAATGTTTGTGGGCGG | 60.0 | 0.14 |
| mm4_intron_Ttll3_chr6_113393746_F | TCGTCGGCAGCGTCGCCTCTCTCCTTGAGCTTGG | 60.1 | 0.13 |
| mm4_intron_Ttll3_chr6_113393746_R | GTCTCGTGGGCTCGGTGGGTTGAGACATCCAACCG | 59.9 | 0.13 |
| mm4_intergenic_4930526L06Rik|Ms4a1_chr19_11241771_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_4930526L06Rik|Ms4a1_chr19_11241771_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_4732487G21Rik_chr12_86300858_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_4732487G21Rik_chr12_86300858_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Mettl15_chr2_109205878_F | TCGTCGGCAGCGTCACAAGCATTTCTTCTCTGTTCCT | 58.2 | 0.12 |
| mm4_intron_Mettl15_chr2_109205878_R | GTCTCGTGGGCTCGGTGCTAGATATGTCTGGGACTGA | 57.8 | 0.12 |
| mm4_intergenic_Snx7|Gm26871_chr3_118130295_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Snx7|Gm26871_chr3_118130295_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_exon_1110032A03Rik/Alg9_chr9_50775377_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_exon_1110032A03Rik/Alg9_chr9_50775377_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Rpl22-ps1|Gm14799_chrX_8041791_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Rpl22-ps1|Gm14799_chrX_8041791_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Tlr2|D930015E06Rik_chr3_83854121_F | TCGTCGGCAGCGTCCCCCTACTGTGTGGAGTTCG | 59.7 | 0.11 |
| mm4_intergenic_Tlr2|D930015E06Rik_chr3_83854121_R | GTCTCGTGGGCTCGGTACTCCTAGCAGTGGGGACG | 60.3 | 0.11 |
| mm3_intron_Spats2l_chr1_57898698_F | TCGTCGGCAGCGTCACATGCTTGTCTCCTGCTTAA | 57.5 | 0.10 |
| mm3_intron_Spats2l_chr1_57898698_R | GTCTCGTGGGCTCGGTGGCATAGTAAATTAGTTGCAGCC | 59.6 | 0.10 |
| mm4_intron_Ptprg_chr14_12177266_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Ptprg_chr14_12177266_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Helz_chr11_107556199_F | TCGTCGGCAGCGTCCACAGCTGGGTCAGACAGAT | 59.3 | 0.09 |
| mm4_intron_Helz_chr11_107556199_R | GTCTCGTGGGCTCGGTGCTGTCGCCACATAACACT | 59.9 | 0.09 |
| mm4_intron_Lhfp_chr3_53081997_F | TCGTCGGCAGCGTCCCTCTTCTCATCCCTCACGC | 59.8 | 0.09 |
| mm4_intron_Lhfp_chr3_53081997_R | GTCTCGTGGGCTCGGTGTCTTCAGAGGACCCAGTC | 58.3 | 0.09 |
| mm4_intergenic_Nlrp4f|Gm10775_chr13_65258587_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Nlrp4f|Gm10775_chr13_65258587_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm22273|Gm24079_chr5_62134128_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm22273|Gm24079_chr5_62134128_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Cxcr4|Gm26686_chr1_128690465_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Cxcr4|Gm26686_chr1_128690465_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Ece1_chr4_137922949_F | TCGTCGGCAGCGTCTCAGAGCATCCTGTTGCCAG | 60.0 | 0.08 |
| mm4_intron_Ece1_chr4_137922949_R | GTCTCGTGGGCTCGGGGGCACTCTTTGAGTCCTGG | 60.3 | 0.08 |
| mm4_intergenic_Gm16087|Gm16086_chr12_107027852_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm16087|Gm16086_chr12_107027852_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm23666|U7_chr8_53024981_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm23666|U7_chr8_53024981_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm23934|Fam124b_chr1_80193196_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm23934|Fam124b_chr1_80193196_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm26624|C230088H06Rik_chr4_147477592_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm26624|C230088H06Rik_chr4_147477592_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Gm14040_chr2_129515345_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Gm14040_chr2_129515345_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Shroom4_chrX_6400137_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Shroom4_chrX_6400137_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Setd7_chr3_51542725_F | TCGTCGGCAGCGTCGAAGATCAGCCTCCCGTCAG | 59.8 | 0.07 |
| mm4_exon_Setd7_chr3_51542725_R | GTCTCGTGGGCTCGGGCCAGGGCGTTTACACCTAT | 60.1 | 0.07 |
| mm4_intron_Numb_chr12_83921453_F | TCGTCGGCAGCGTCCTCCCAGAGCACCGAGAAAC | 60.3 | 0.06 |
| mm4_intron_Numb_chr12_83921453_R | GTCTCGTGGGCTCGGGCGACTTCCTGAAGAGACCC | 60.1 | 0.06 |
| mm4_intergenic_Adarb2|Gm10357_chr13_8207567_F | TCGTCGGCAGCGTCAGATTGCGCACTGGATGAGG | 60.4 | 0.06 |
| mm4_intergenic_Adarb2|Gm10357_chr13_8207567_R | GTCTCGTGGGCTCGGTCCGTTGAGATGACAGCCAC | 60.0 | 0.06 |
| mm4_intron_Gsg1l_chr7_125887265_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Gsg1l_chr7_125887265_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Cpb2_chr14_75242493_F | TCGTCGGCAGCGTCTTCCCACTTGTGTGCCTCTC | 59.8 | 0.05 |
| mm4_intron_Cpb2_chr14_75242493_R | GTCTCGTGGGCTCGGGTCTCTGAAGGAACTGGCCT | 59.0 | 0.05 |
| mm4_intron_Cad_chr5_31062090_F | TCGTCGGCAGCGTCTTGTCGTGGTTTGGGTTGGA | 60.0 | 0.05 |
| mm4_intron_Cad_chr5_31062090_R | GTCTCGTGGGCTCGGTCACTGACACCTGGCCTAGA | 59.8 | 0.05 |
| mm4_intergenic_Gm26963|Ypel5_chr17_72737229_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm26963|Ypel5_chr17_72737229_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Ephb2_chr4_136660633_F | TCGTCGGCAGCGTCAATTATGCCCAGCAGCCCTT | 60.0 | 0.04 |
| mm4_exon_Ephb2_chr4_136660633_R | GTCTCGTGGGCTCGGTCACCAAGAGCACACCTGTC | 59.8 | 0.04 |
| mm4_intergenic_Gm23591|Speer2_chr16_69482570_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm23591|Speer2_chr16_69482570_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Nfasc_chr1_132727299_F | TCGTCGGCAGCGTCTTCTCCGGTCTCACCAATGC | 60.0 | 0.04 |
| mm4_intron_Nfasc_chr1_132727299_R | GTCTCGTGGGCTCGGGGATTGGCGACAGGGGTATG | 60.5 | 0.04 |
| mm4_intergenic_Fbxo2|Ptchd2_chr4_148173938_F | TCGTCGGCAGCGTCAGTATCGGGCTGCGTTTGAA | 60.0 | 0.04 |
| mm4_intergenic_Fbxo2|Ptchd2_chr4_148173938_R | GTCTCGTGGGCTCGGTCGGCGAGCAGAGTAATTGG | 60.1 | 0.04 |
| mm4_intergenic_Eif4g2|Galnt18_chr7_111368990_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Eif4g2|Galnt18_chr7_111368990_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Foxn3_chr12_99217870_F | TCGTCGGCAGCGTCAAAACTCAGTGCGGCACTTG | 59.6 | 0.03 |
| mm4_intron_Foxn3_chr12_99217870_R | GTCTCGTGGGCTCGGTGATATTTCCTTGGCCAAACGA | 58.3 | 0.03 |
| mm4_intron_Men1_chr19_6337719_F | TCGTCGGCAGCGTCTCACAAGGTGAGGGCATCTC | 59.3 | 0.03 |
| mm4_intron_Men1_chr19_6337719_R | GTCTCGTGGGCTCGGGGCAGGAAATACCCTCCAACA | 59.9 | 0.03 |
| mm4_intron_Otud3_chr4_138898181_F | TCGTCGGCAGCGTCTGCTCCGTCTTGATGAAGCA | 59.6 | 0.03 |
| mm4_intron_Otud3_chr4_138898181_R | GTCTCGTGGGCTCGGATTGGATGGTTCGGGAGTCG | 59.8 | 0.03 |
| mm4_intergenic_RP23-304I16.1|Gm26262_chr18_45899210_F | TCGTCGGCAGCGTCTTCATCCAGAGCCATTGCGT | 60.0 | 0.03 |
| mm4_intergenic_RP23-304I16.1|Gm26262_chr18_45899210_R | GTCTCGTGGGCTCGGTCCAAAAGCTCCCTCTGCAG | 59.9 | 0.03 |
| mm4_intergenic_Park2|Agpat4_chr17_11901316_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Park2|Agpat4_chr17_11901316_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Map2k2_chr10_81121046_F | TCGTCGGCAGCGTCAGGACCGGCTCTCTCAAGAT | 60.0 | 0.03 |
| mm4_exon_Map2k2_chr10_81121046_R | GTCTCGTGGGCTCGGAGCAGCTCAAAGATGGCCAT | 60.0 | 0.03 |
| mm4_intergenic_Pglyrp2|Cyp4f39_chr17_32436035_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Pglyrp2|Cyp4f39_chr17_32436035_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Akap10_chr11_61929503_F | TCGTCGGCAGCGTCAGTCTTCTGAATACGGAACTTCAGT | 59.7 | 0.02 |
| mm4_intron_Akap10_chr11_61929503_R | GTCTCGTGGGCTCGGACCACGTGCAACTGTTATTTCT | 58.7 | 0.02 |
| mm4_intron_Adcy2_chr13_68973571_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Adcy2_chr13_68973571_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Dab2ip_chr2_35606824_F | TCGTCGGCAGCGTCACCCCTCCTTCCTGTCTTCT | 59.5 | 0.02 |
| mm4_intron_Dab2ip_chr2_35606824_R | GTCTCGTGGGCTCGGGAGAAGCCCAGGGTTAGGTC | 59.4 | 0.02 |
| mm4_intergenic_Mir133a-2|Slco4a1_chr2_180436666_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Mir133a-2|Slco4a1_chr2_180436666_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Alox15_chr11_70349566_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Alox15_chr11_70349566_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Pkib_chr10_57665569_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Pkib_chr10_57665569_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Abcc4_chr14_118491481_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Abcc4_chr14_118491481_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm12129|Gm12130_chr11_38473120_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm12129|Gm12130_chr11_38473120_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Lsr|Fam187b_chr7_30973497_F | TCGTCGGCAGCGTCCGCCCAGGTACACAAGGG | 60.0 | 0.01 |
| mm4_intergenic_Lsr|Fam187b_chr7_30973497_R | GTCTCGTGGGCTCGGAAGCGGTCACTTGGTTCAGG | 60.5 | 0.01 |
| mm4_intron_Nav2_chr7_49057906_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Nav2_chr7_49057906_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Lcmt1_chr7_123411928_F | TCGTCGGCAGCGTCTGGGAGGAGGGTAGGAATGG | 60.0 | 0.01 |
| mm4_intron_Lcmt1_chr7_123411928_R | GTCTCGTGGGCTCGGACATTGGGCAGATGAGTGGG | 60.0 | 0.01 |
| mm4_intergenic_Gm14337|Vamp7-ps_chr2_174024693_F | TCGTCGGCAGCGTCACCCAGACATGTGGTTTGCT | 59.8 | 0.01 |
| mm4_intergenic_Gm14337|Vamp7-ps_chr2_174024693_R | GTCTCGTGGGCTCGGGCCTCAGTGTGCTGCTTACT | 60.3 | 0.01 |
| mm4_intergenic_Gm5446|Elmo1_chr13_20062938_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm5446|Elmo1_chr13_20062938_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Vangl2|Nhlh1_chr1_172049694_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Vangl2|Nhlh1_chr1_172049694_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Ifna-ps1|Ifna9_chr4_88585044_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ifna-ps1|Ifna9_chr4_88585044_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Wnt2|Asz1_chr6_18032391_F | TCGTCGGCAGCGTCGCCCAGGGAATTATATGGCCA | 59.9 | 0.00 |
| mm4_intergenic_Wnt2|Asz1_chr6_18032391_R | GTCTCGTGGGCTCGGGTGAAGCTCTTTGGGGAGGA | 59.3 | 0.00 |
| mm4_intron_Unc5cl_chr17_48474146_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Unc5cl_chr17_48474146_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm5908|Gm3985_chr8_32876294_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm5908|Gm3985_chr8_32876294_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm22645|Gng13_chr17_25702592_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm22645|Gng13_chr17_25702592_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Six3|Six2_chr17_85632342_F | TCGTCGGCAGCGTCGGCCAAGTGAGATTCAGGCT | 60.0 | 0.00 |
| mm4_intergenic_Six3|Six2_chr17_85632342_R | GTCTCGTGGGCTCGGCCCTCCACTGAGTCCAATCC | 59.4 | 0.00 |
| mm4_intergenic_Gm12450|Spag17_chr3_99768059_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm12450|Spag17_chr3_99768059_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Golm1_chr13_59674222_F | TCGTCGGCAGCGTCTGAAAAGACCAAAGCCCTGC | 58.9 | 0.00 |
| mm4_intron_Golm1_chr13_59674222_R | GTCTCGTGGGCTCGGAGTTGGAGGACAGAGGGAGG | 60.2 | 0.00 |
| mm4_intron_Lag3_chr6_124904992_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Lag3_chr6_124904992_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_52313837 |
AGGGAGCCTGGGATTAGGAGCTTACTTGGGGGTTTTCCCCCTCCCCCCCTCTGGAGAGTCCGGGGATGGAGAGCCGAAAG GACATGGTTATGTTTCTGGATGGGGGTCAGCTTGGCACTCTGGTTGGTA |
| mm4_intron_Stbd1_chr5_92603375 |
ATTCTTCCTCCCCTCGAGCTAGTTGTTTTGAAGTTCTCCGGGGAAGGGGAAACGAAAGGCACTTGGAGCCATGCGGGTGG GTTCTGGTGGACCACCTTCCCCGACCTCGGACTGAACCTTC |
| mm4_intergenic_Arf2|Crhr1_chr11_104045266 |
GCTAGAGCGTCAAAAGCTGCCCTGGAGAAGGTGGGGATGGAGAACCGAAAGGGACCCCGGGCTGAGGGAGGGAGTTAGTC AGAGCAAGAGAATCTGGTGCCAAATCAAAGGGC |
| mm3_intron_Sox5_chr6_143936788 |
GGACTCCAGAGTTGCAGATCGAGTCTCCCGGGCATGGAGAGCCAAATGGAATTATTGAAACTGTGGAGTTTGAGCTCTGT GCTTACACCTTCGTGCT |
| mm4_intron_Npas3_chr12_53541195 |
CCAGGGAGGCCTTTGAATTTCTATCCTCATTCCCATATCTTGGGTTCCTTTCTTTGATGGGTCCATCCATACATTGCTTT TTGTCACCTTCCTTAAGCCTTTCATCTCTCCATCCTCTGAGCCAACTGCAGTGGATAGTT |
| mm4_intergenic_Sec16b|Brinp2_chr1_158227999 |
AGAAAGTCTGCTGTGCCACAGGGATGTCAGAGTGATGTCTCAAATTACTCTTTTCTGCTGGAATTGGAGGAACTCCTTAT GGATCGAGGGATGAAGAGCAGAAAGGTGAAGAGAACGAACGATGTTCAGAAGCTTCCCA |
| mm4_intron_Col24a1_chr3_145448800 |
AAACCCCACAAGCCAGAGACCATCTCTTTACCTTTGTGCTCTCCATCCCTGGTGCAGTGCCCAGCAAACTCCATTTACTC AATGTGTGCTGGTTCCACTGAATAAGCAAAGGGTCTGGTACCCAACGCTGTCATGGA |
| mm4_intergenic_Fez2|Gm10093_chr17_78454274 |
GTTGGCAATTGTGGGCGTAGAGGTTTGGCGGCTCCTGACTTACTCTGAATGTATTCATTTTAAGAGCTGAGATCCACCGC TCGGCTCTCGTTCCCCGCAACTGACTGGGGCTCCGTCTCAAGCTTAG |
| mm4_intergenic_5033426O07Rik|Gm26815_chr8_121249013 |
CCCTCATGTCACACTTCCCCTGCATTGAGTCACCGTTCTGCCTGTCCCTAGCAGGCTGGCCCAAGGCCACCCGTGGGTGA AGAGCCGAAAGGTCAGCTGGGGTGTTCCCATTGCATCATGGGTCC |
| mm3_intergenic_4933402E13Rik|Gm14679_chrX_62338518 |
GTTTGTGCAACACCACGGACCCGAAACAACTTTCACGATGACCCTTAGGGTCTCCATCCCTGGACACTTGTCCTAGCTCT TCTTCCTTTTAGTTCAAGTGGGAGAAGTAGTCAGAGTGTTATGTGACAGCTGAGGGCAC |
| mm4_intergenic_2310007B03Rik|E030010N08Rik_chr1_93199675 |
ATGTGCCATGATGACCAGCAGAAGCCTTGGTGGCAGGGCTGCTGGGGGCATGCCTGATCCATACGTCTCTCCATTCACGG AGTGCTGACTGCTCTTAGACGGTGAGAGAGGCCA |
| mm4_intron_Filip1_chr9_79828429 | TTTGCCACCCTGATGCATCCATCCCCTTGGGCTCTCCTTCCCAGGTGTCACTTTCACCTCGGTCCCTC |
| mm4_intergenic_Efnb1|Gm14812_chrX_99223341 |
TTGAAGGATCACACAGGGCCATTCCTTTCTGCTCTCCAACCCCTAAACCTCCTAAGGTAATTTGTGATGTAGCAAATGTA TGGATGGAACCTGTCATCTTTGC |
| mm4_intron_Gm26691_chr3_134034986 |
GCATGCTCTGGGGTTTACCTTTGATCATCCAGGGAGCCCGCTCTGCTGCTTCTGGAATGGAGAGCTGAATGGCATGCTAG AAACTAGAAGGGTAAAGATGGGGTGAGGC |
| mm4_intron_Erbb2_chr11_98415643 |
CCTTTCTCTTGGGCCCTCTGCAGTGCCAGGGATGGAGGGCCGGAAGGTGCAGAGATCACTAGGACATACAGGCTCATGGG AATGATGTGGGCAGG |
| mm4_intergenic_Gm14318|B230312C02Rik_chr2_180352654 |
GCATCCTCACAAGGTGGGAAGAGACCAAAGGTCTGGTTCACCCTTCTGGCTCTCCCTCCCTGGACAGCTGTTTGCCAGTA CCACATCCTCCT |
| mm4_intergenic_Gm25658|Atp2b1_chr10_98907192 |
ATGGCATGCCTGTTCCTCTGCCTTTGAGTTCTCCATCCCCAGACTTACAAATTTCCTGTGTCTTTCTACTCAGTTCCATA TCAGTATTGGTTCCTACATTCTCAGTACCATTTATATGCACCGCCCACAAACATTTGAGG |
| mm4_intron_Ttll3_chr6_113393746 |
GCCTCTCTCCTTGAGCTTGGGAGTCCAAGGTCACACTATGCCCTGTACTACTCTTTTTTTGCCTCCAACCCCCTCTGCTC TCCAACCCTGGAGATCCAGCCATCGGTTGGATGTCTCAACCCA |
| mm4_intron_Mettl15_chr2_109205878 |
ACAAGCATTTCTTCTCTGTTCCTTCCATACAGCTCTCCATACCTGGAGTTAAGCATGATAACATGGATTTTTATTCTCAG TAGCCAGTACTTGGCAAGTTGATAGAGAAATATAATCAGTCCCAGACATATCTAGCA |
| mm4_intergenic_Tlr2|D930015E06Rik_chr3_83854121 | CCCCTACTGTGTGGAGTTCGATGTGCCCCATTCAGGTCTCCATCCCCTGTCCGTCCCCACTGCTAGGAGTA |
| mm3_intron_Spats2l_chr1_57898698 |
ACATGCTTGTCTCCTGCTTAAAATTCATTTGTATCCTAACTGAATAATCATCTGTTCTTCTACCTGAGGTCATTATTTCC ATTGGGCTATCCATCCCCGTATTCTCAAGGCTGCAACTAATTTACTATGCCA |
| mm4_intron_Helz_chr11_107556199 |
CACAGCTGGGTCAGACAGATGATCTGGGGTTGGAGGGCCTAATGGACCTGGCTACTTCAGGACAGATTGGACAGAACCAG CTCTTGAGGTACTGCCTGCCGCTCTGTCAGTGTTATGTGGCGACAGCA |
| mm4_intron_Lhfp_chr3_53081997 |
CCTCTTCTCATCCCTCACGCTGCTTCCTGGCCATTATGTGGTGACCACCTTTGCGCCTTTCTGCTCTCCCTCCCATGAGC AGAGCCATGGACTGGGTCCTCTGAAGACA |
| mm4_intron_Ece1_chr4_137922949 |
TCAGAGCATCCTGTTGCCAGTGTAGGCCCAGAACTGTCTGCCCAGCTCTTGGCCCAGGGATGGAGAGCAGACAGGCTGCT CTGGGACTCCCCTTAAGAACCCTAATACGTGTCTCCAGGACTCAAAGAGTGCCC |
| mm4_exon_Setd7_chr3_51542725 |
GAAGATCAGCCTCCCGTCAGAGTCGTACTCCTGGGCCGGTCCATTCAGCTCTCCATCCACATAGGTGCCTTGGAGAACAC CTCCATCCTCATAGGTGTAAACGCCCTGGC |
| mm4_intron_Numb_chr12_83921453 |
CTCCCAGAGCACCGAGAAACCCCGGTATCCCCTAGACTCTCCAGCCCCGGAGCCGCTCGCTCCGGGTCCCCCCCTCGCTC GCAGACCCCCGCCGCTCGGGTCTCTTCAGGAAGTCGC |
| mm4_intergenic_Adarb2|Gm10357_chr13_8207567 |
AGATTGCGCACTGGATGAGGGTGCAGCGGCCGTGTTGCTCTCCATCCCCGGCGATGCTTTAGTAATCCGTGTGGCTGTCA TCTCAACGGA |
| mm4_intron_Cpb2_chr14_75242493 |
TTCCCACTTGTGTGCCTCTCACAGAGCAGAAGTAGTGTCCTGGGATAGAGAGCCAACTGGGTAGAGGCCAGTTCCTTCAG AGAC |
| mm4_intron_Cad_chr5_31062090 |
TTGTCGTGGTTTGGGTTGGAGCTTGGGGAGGCCCTTTCCTCTCTCCATCCCTGGTAGAGGCCCAATCATTTCTCCTCCCC CTTTTGAGCCCTTTTCTAGGCCAGGTGTCAGTGA |
| mm4_exon_Ephb2_chr4_136660633 |
AATTATGCCCAGCAGCCCTTCTCCTGCCCTGTTCACACCCCTGAGGCTCTCCCTACCCGGAGGAAGGAGTCCAGAGATCC GTTCTCCATGAATTCAGTGATGATCATGACAGGTGTGCTCTTGGTGA |
| mm4_intron_Nfasc_chr1_132727299 |
TTCTCCGGTCTCACCAATGCTAATGCTGCTGCTTCTGCTTTGACAAAATCCAGGGATGGAGAGGTTAAGGGCCTGGCCTC AGCATACCCCTGTCGCCAATCC |
| mm4_intergenic_Fbxo2|Ptchd2_chr4_148173938 |
AGTATCGGGCTGCGTTTGAAATCAGACCATCCCGGGGAGGGAGCGCCGGAGGGAGGGAGCGCCAGCCCCCGGACCAATTA CTCTGCTCGCCGA |
| mm4_intron_Foxn3_chr12_99217870 |
AAAACTCAGTGCGGCACTTGGACGTAAATAGGACTGTGGATATTGCAGAAAGAGAATTACAGTTGGAGAGTTACAGGGAT GGAGAGAGGAAAGGCTCGTTTGGCCAAGGAAATATCA |
| mm4_intron_Men1_chr19_6337719 |
TCACAAGGTGAGGGCATCTCAGAAAACAGCAGCTCCTTTCTGGGGATGGAGAGGAGAGAGGTGAAAAGGGAAGAACTCTG TGTGTTGGAGGGTATTTCCTGCC |
| mm4_intron_Otud3_chr4_138898181 |
TGCTCCGTCTTGATGAAGCATCTGGAACTAAATGAAAGAAACAGCATAGGAACCATTGCTCCAGCAAATCCCACTCGACT CTCCAACCCAGGAAGACTCCGACTCCCGAACCATCCAAT |
| mm4_intergenic_RP23-304I16.1|Gm26262_chr18_45899210 |
TTCATCCAGAGCCATTGCGTCAGTGGGCTCAGCGGGCTGTGCCAGGGAGGTCTTTGCTTTCCGGAGATCAGGGGATGGAG AGCTGGCAGGGCGCCCTCTCTAGTAGCCAAATACCTGCAGAGGGAGCTTTTGGA |
| mm4_exon_Map2k2_chr10_81121046 |
AGGACCGGCTCTCTCAAGATTTGTGTCCCTCACAGTTATGTGTTCTTTGTACTGTCAAGTAGGTCATGGGATGGACAGCC GACCGGCCATGGCCATCTTTGAGCTGCT |
| mm4_intron_Akap10_chr11_61929503 |
AGTCTTCTGAATACGGAACTTCAGTAGTAAGAAATTTTATTTTAGGAATAACAGTGGGCCCCCTTCCGCTCTCCACCCCC GCCCCCAAAAGAGGAAACTAGAAAATAGCGCTAGTTGAAGAAATAACAGTTGCACGTGGT |
| mm4_intron_Dab2ip_chr2_35606824 |
ACCCCTCCTTCCTGTCTTCTACTCAGCTTTACTGTAGTGAGGCCCATGCTGCTCCCCATCCCAGGAAGGGTGGGAATGAA AATTCCCCCTCCTGGTAGGGGGACCTAACCCTGGGCTTCTC |
| mm4_intergenic_Lsr|Fam187b_chr7_30973497 |
CGCCCAGGTACACAAGGGTGGGAGCCCGGGGGCTGGACTTGGGGGTGGGCGGCGGGGGCGGGCCTTGCGGGCCTCCCTCC CCGGAAGTGGGCTGACTCAGGTGCGCTCCTGCCTCCAGGGCCTGAACCAAGTGACCGCTT |
| mm4_intron_Lcmt1_chr7_123411928 |
TGGGAGGAGGGTAGGAATGGATGTGAAATGTGGTGAACTCTGGGGATGGATAGGAGAACGGGGAACATCAAGTCTCCGTG GCTTTCCCACTCATCTGCCCAATGT |
| mm4_intergenic_Gm14337|Vamp7-ps_chr2_174024693 |
ACCCAGACATGTGGTTTGCTAAGTTCTGGAATGTTCTCAGTCCCGTAAAGGTGACGATAAACATTAACTATCAAGTGACC CAGTCGCCTCTCCAGCCCCGGCCTCTGAGTCTCGGAGAAGTAAGCAGCACACTGAGGC |
| mm4_intergenic_Wnt2|Asz1_chr6_18032391 |
GCCCAGGGAATTATATGGCCAGGAGACCTGCCCTTCCGTGGATGGTGAGGCCAATGGAATGACCTAAACCTGAAACAGGC CTCCTAGAAAAGGGATGGACCATTCTTAGAGCCAATTAAATCCTCCCCAAAGAGCTTCAC |
| mm4_intergenic_Six3|Six2_chr17_85632342 |
GGCCAAGTGAGATTCAGGCTTACCTTCAAGGTGGAAGGGACAGTTGAGAAAACAGGTGCACACAGGATGCACGGGGATGG AGAGGGGAAAGGACAACATTGATCCAGACAAATGGATTGGACTCAGTGGAGGG |
| mm4_intron_Golm1_chr13_59674222 |
TGAAAAGACCAAAGCCCTGCTCCCTTCCCCTCACCATCCCAGGACTTCCAGGGCTGCTCTGCAGGCCCAGGCTTCCTGCA AGCTCCCTCCCTCTGTCCTCCAACT |