← return to the list of all guides
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 |
|---|---|---|---|
| mm0_exon_Pop5_chr5_115238108_F | TCGTCGGCAGCGTCTGCGGTTCAAGCACAGGTAA | 60.1 | 1.00 |
| mm0_exon_Pop5_chr5_115238108_R | GTCTCGTGGGCTCGGGCTCGCACAGAAGGTACCTG | 60.7 | 1.00 |
| mm3_exon_Prdm8/A730035I17Rik_chr5_98186391_F | Primer3: not found at this Tm | N.d. | 0.65 |
| mm3_exon_Prdm8/A730035I17Rik_chr5_98186391_R | Primer3: not found at this Tm | N.d. | 0.65 |
| mm3_exon_Galc_chr12_98259124_F | TCGTCGGCAGCGTCCACCGCACTCCTGCCTCC | 62.7 | 0.44 |
| mm3_exon_Galc_chr12_98259124_R | GTCTCGTGGGCTCGGATTGTTGTGTGCGCTGCTAG | 59.4 | 0.44 |
| mm4_intron_Sec24d_chr3_123358254_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Sec24d_chr3_123358254_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_3110035E14Rik_chr1_9613187_F | TCGTCGGCAGCGTCTTTCTGACTTCCTGCCACCC | 59.8 | 0.31 |
| mm4_intron_3110035E14Rik_chr1_9613187_R | GTCTCGTGGGCTCGGGCACCCACCTAATGTCCACT | 59.6 | 0.31 |
| mm4_intergenic_A930011G23Rik|Gm16228_chr5_99605734_F | Primer3: not found at this Tm | N.d. | 0.31 |
| mm4_intergenic_A930011G23Rik|Gm16228_chr5_99605734_R | Primer3: not found at this Tm | N.d. | 0.31 |
| mm4_exon_Gnb1_chr4_155491567_F | TCGTCGGCAGCGTCGACCAGCCTCGCCGACTC | 62.5 | 0.29 |
| mm4_exon_Gnb1_chr4_155491567_R | GTCTCGTGGGCTCGGCAGGCTCAGCTCACAGACC | 60.0 | 0.29 |
| mm4_exon_Ipo4_chr14_55629998_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_exon_Ipo4_chr14_55629998_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm3_intron_Akt3_chr1_177246439_F | TCGTCGGCAGCGTCTCTTAGCCGGAAACCCAACC | 59.9 | 0.23 |
| mm3_intron_Akt3_chr1_177246439_R | GTCTCGTGGGCTCGGTTGAAGGCCGGCTTATCCTG | 60.1 | 0.23 |
| mm4_exon_Zpbp/4930415F15Rik_chr11_11462106_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_exon_Zpbp/4930415F15Rik_chr11_11462106_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm23526|Grik4_chr9_42903111_F | TCGTCGGCAGCGTCTCACACACAGAGACAGTGTCC | 59.5 | 0.17 |
| mm4_intergenic_Gm23526|Grik4_chr9_42903111_R | GTCTCGTGGGCTCGGTGCAAAGAGAATGAGGCCAAC | 59.1 | 0.17 |
| mm4_intron_Gtf2ird1_chr5_134363148_F | TCGTCGGCAGCGTCTCCTATCTCCGACAGACCGC | 60.8 | 0.13 |
| mm4_intron_Gtf2ird1_chr5_134363148_R | GTCTCGTGGGCTCGGTCAACCAGCTCCAGTGAGTG | 59.6 | 0.13 |
| mm4_intron_Map4k4_chr1_39936266_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Map4k4_chr1_39936266_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936212_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936212_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936149_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936149_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936140_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936140_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936131_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936131_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936041_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intron_Map4k4_chr1_39936041_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_exon_Rnf111_chr9_70503310_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_exon_Rnf111_chr9_70503310_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intron_Atp9a_chr2_168675160_F | TCGTCGGCAGCGTCGTCCTTGGACAGGTGAGGTG | 59.9 | 0.11 |
| mm4_intron_Atp9a_chr2_168675160_R | GTCTCGTGGGCTCGGCAGATCATCCGCTTCCTGCT | 59.8 | 0.11 |
| mm4_intergenic_Gm12566|Frmpd1_chr4_45159556_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_Gm12566|Frmpd1_chr4_45159556_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_exon_Eif4g1_chr16_20686199_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_exon_Eif4g1_chr16_20686199_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_4930529M08Rik_chr2_146196926_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_4930529M08Rik_chr2_146196926_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Ski_chr4_155222587_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Ski_chr4_155222587_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Ttc28_chr5_111126018_F | TCGTCGGCAGCGTCTTCCTGGTCTCCTCGTCCTT | 59.8 | 0.08 |
| mm4_intron_Ttc28_chr5_111126018_R | GTCTCGTGGGCTCGGTGGCACTTTAGACATGCGGT | 59.9 | 0.08 |
| mm4_intergenic_Tiam1|Sod1_chr16_90051996_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Tiam1|Sod1_chr16_90051996_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Maf/Gm15655|Dynlrb2_chr8_116490805_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Maf/Gm15655|Dynlrb2_chr8_116490805_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Myh9_chr15_77780226_F | TCGTCGGCAGCGTCCTGCTCCTTCCCTGGCTAAA | 59.3 | 0.07 |
| mm4_intron_Myh9_chr15_77780226_R | GTCTCGTGGGCTCGGTGTCTGAAGTGTGCCAGGTC | 59.8 | 0.07 |
| mm4_exon_Fignl2_chr15_101053853_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_Fignl2_chr15_101053853_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Fam78a|Ppapdc3_chr2_32088783_F | TCGTCGGCAGCGTCAGCCTCTGGGGAAAGACAGA | 60.1 | 0.06 |
| mm4_intergenic_Fam78a|Ppapdc3_chr2_32088783_R | GTCTCGTGGGCTCGGCCTGATCCTTCGCTCGGTTT | 60.1 | 0.06 |
| mm4_intron_Zc3h11a/Zbed6_chr1_133629984_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Zc3h11a/Zbed6_chr1_133629984_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Ube2ql1_chr13_69739736_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Ube2ql1_chr13_69739736_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm4945|Trerf1_chr17_47122012_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm4945|Trerf1_chr17_47122012_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Wnt3a_chr11_59290749_F | TCGTCGGCAGCGTCGGGAGTCCACCCCGAGAG | 60.7 | 0.06 |
| mm4_exon_Wnt3a_chr11_59290749_R | GTCTCGTGGGCTCGGCGTGTACCGGTGCACACC | 61.0 | 0.06 |
| mm4_exon_1700017B05Rik_chr9_57256375_F | TCGTCGGCAGCGTCCAACACAGCTCCAGTGGCTA | 59.9 | 0.06 |
| mm4_exon_1700017B05Rik_chr9_57256375_R | GTCTCGTGGGCTCGGTCTATCCTGACCTGCTGGGC | 61.0 | 0.06 |
| mm4_intron_Sh3glb1_chr3_144719817_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Sh3glb1_chr3_144719817_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Map4k4_chr1_39936248_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936248_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936221_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936221_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936194_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936194_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936158_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936158_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936113_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936113_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936086_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936086_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936068_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936068_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936050_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936050_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936023_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936023_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936005_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39936005_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39935987_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Map4k4_chr1_39935987_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Scrt2_chr2_152093350_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Scrt2_chr2_152093350_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Chtf8_chr8_106893425_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Chtf8_chr8_106893425_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_exon_Camkk1_chr11_73019014_F | TCGTCGGCAGCGTCTGATTGGACATCTCTGCGGG | 59.8 | 0.05 |
| mm3_exon_Camkk1_chr11_73019014_R | GTCTCGTGGGCTCGGCTTGCCGGGCTAGGATCG | 59.9 | 0.05 |
| mm4_exon_Bod1_chr11_31671843_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Bod1_chr11_31671843_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm3_intron_Gtf2ird1_chr5_134360920_F | TCGTCGGCAGCGTCTCAGGAGCCTGTCTCTGACA | 59.8 | 0.03 |
| mm3_intron_Gtf2ird1_chr5_134360920_R | GTCTCGTGGGCTCGGTCAACCAGCTCCAGTGAGTG | 59.6 | 0.03 |
| mm4_exon_Shank1_chr7_44352670_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Shank1_chr7_44352670_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm3_intergenic_Epsti1|Gm19301_chr14_78032645_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm3_intergenic_Epsti1|Gm19301_chr14_78032645_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Bcan_chr3_88000345_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Bcan_chr3_88000345_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Hnrnpl_chr7_28811155_F | TCGTCGGCAGCGTCGCTGAAGACTGAAAACGCCG | 60.1 | 0.02 |
| mm4_exon_Hnrnpl_chr7_28811155_R | GTCTCGTGGGCTCGGCCCTTCCTTCCGGGAGTCTA | 60.0 | 0.02 |
| mm3_exon_A230020J21Rik/Mfsd7b_chr1_191025799_F | TCGTCGGCAGCGTCAAGATGAGCAGCACCACGAA | 59.9 | 0.02 |
| mm3_exon_A230020J21Rik/Mfsd7b_chr1_191025799_R | GTCTCGTGGGCTCGGCGGAGGAGGAGACCCAGG | 60.4 | 0.02 |
| mm4_intron_Gm26801_chr1_177441990_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Gm26801_chr1_177441990_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm16578|Cplx2_chr13_54303342_F | TCGTCGGCAGCGTCGCTCAGCTAGGACTGGGAGA | 60.3 | 0.02 |
| mm4_intergenic_Gm16578|Cplx2_chr13_54303342_R | GTCTCGTGGGCTCGGGTGGCCGTTTGCAGGAAAG | 60.0 | 0.02 |
| mm4_exon_Epc2_chr2_49451752_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Epc2_chr2_49451752_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Sh3glb1_chr3_144720135_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Sh3glb1_chr3_144720135_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Syne2_chr12_75818653_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Syne2_chr12_75818653_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Ngfr|Gm11528_chr11_95618216_F | TCGTCGGCAGCGTCGTTTATCCTGGCCAGCCCTT | 60.0 | 0.02 |
| mm4_intergenic_Ngfr|Gm11528_chr11_95618216_R | GTCTCGTGGGCTCGGACGTTGGAAATGCGCATACG | 59.9 | 0.02 |
| mm3_exon_Gng10_chr4_59035134_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm3_exon_Gng10_chr4_59035134_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Aff3_chr1_38627664_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Aff3_chr1_38627664_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm24283|Gm26812_chr8_121841666_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm24283|Gm26812_chr8_121841666_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Pappa_chr4_65241141_F | TCGTCGGCAGCGTCTCACACCCTTTCCCCAATAGC | 59.9 | 0.02 |
| mm4_intron_Pappa_chr4_65241141_R | GTCTCGTGGGCTCGGTCCTGGCCACCATTCTTGAC | 59.9 | 0.02 |
| mm4_exon_Ankrd52_chr10_128377099_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Ankrd52_chr10_128377099_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm23198|Parp8_chr13_116844160_F | TCGTCGGCAGCGTCTCTCATCCTGTCTCGCCAGA | 60.0 | 0.01 |
| mm4_intergenic_Gm23198|Parp8_chr13_116844160_R | GTCTCGTGGGCTCGGTCCAGCACAAGGTCATTGCA | 60.1 | 0.01 |
| mm4_intron_Map4k4_chr1_39936257_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936257_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936239_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936239_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936203_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936203_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936185_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936185_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936122_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936122_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936104_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936104_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936077_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936077_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936059_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936059_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936032_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936032_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936014_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39936014_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39935996_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39935996_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39935978_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Map4k4_chr1_39935978_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Smpdl3b_chr4_132734391_F | TCGTCGGCAGCGTCCGCTCTTCACAGACGCTCTA | 59.5 | 0.01 |
| mm4_intron_Smpdl3b_chr4_132734391_R | GTCTCGTGGGCTCGGTCATAACATCCGCCAGCCAG | 60.1 | 0.01 |
| mm4_intergenic_Gm4799|Chst11_chr10_82960706_F | TCGTCGGCAGCGTCCCTGTTACCCCTGCATCGTT | 60.0 | 0.01 |
| mm4_intergenic_Gm4799|Chst11_chr10_82960706_R | GTCTCGTGGGCTCGGTCGGCCCTTCTTATTGCACA | 59.6 | 0.01 |
| mm4_intergenic_Gm13012|Ece1_chr4_137886357_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm13012|Ece1_chr4_137886357_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Eif3b_chr5_140419592_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Eif3b_chr5_140419592_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Rmnd5a|Rnf103_chr6_71440672_F | TCGTCGGCAGCGTCTTCTGAAGGTGTGGGCCGTA | 61.1 | 0.01 |
| mm4_intergenic_Rmnd5a|Rnf103_chr6_71440672_R | GTCTCGTGGGCTCGGAAGTTCCCTGTTCAGCTGCG | 60.8 | 0.01 |
| mm4_intergenic_Slit3|Gm12123_chr11_35247259_F | TCGTCGGCAGCGTCAATGAGACCGGAAAGCAGCA | 59.9 | 0.01 |
| mm4_intergenic_Slit3|Gm12123_chr11_35247259_R | GTCTCGTGGGCTCGGCTCCCTGACCTTCTTGCCAG | 60.0 | 0.01 |
| mm4_intergenic_Mir3089|1700001O22Rik_chr2_30771456_F | TCGTCGGCAGCGTCTGCTCAAACTTTCCCAGGCG | 61.1 | 0.00 |
| mm4_intergenic_Mir3089|1700001O22Rik_chr2_30771456_R | GTCTCGTGGGCTCGGGCACTCCTCGGCATCCCC | 62.5 | 0.00 |
| mm4_intron_Slc38a2_chr15_96699349_F | TCGTCGGCAGCGTCCTAACGGGAGGCTGTGGC | 60.1 | 0.00 |
| mm4_intron_Slc38a2_chr15_96699349_R | GTCTCGTGGGCTCGGCAGGGAGAGCACCGAGGT | 60.6 | 0.00 |
| mm3_exon_Aldh4a1/Gm21969_chr4_139642119_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_exon_Aldh4a1/Gm21969_chr4_139642119_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Hmgb2_chr8_57512459_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Hmgb2_chr8_57512459_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Lrrc59_chr11_94629790_F | TCGTCGGCAGCGTCACGGAAGTGGTCGTCGTC | 59.3 | 0.00 |
| mm4_exon_Lrrc59_chr11_94629790_R | GTCTCGTGGGCTCGGCCACGCCTGCGCCTTAAG | 61.5 | 0.00 |
| mm4_intergenic_Bcl11b|Setd3_chr12_108057582_F | TCGTCGGCAGCGTCACCAGGCACATACATACCTCA | 58.5 | 0.00 |
| mm4_intergenic_Bcl11b|Setd3_chr12_108057582_R | GTCTCGTGGGCTCGGGACAGCACAGGAAGCAGAGA | 59.6 | 0.00 |
| mm4_intergenic_Zfp46|Gm13013_chr4_136306673_F | TCGTCGGCAGCGTCGCTAGCCGATGACCTTCTCC | 59.9 | 0.00 |
| mm4_intergenic_Zfp46|Gm13013_chr4_136306673_R | GTCTCGTGGGCTCGGTGGCCAGAAGAGATACCTCCA | 59.9 | 0.00 |
| mm4_exon_Agap1_chr1_89455384_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Agap1_chr1_89455384_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Dgkg|Crygs_chr16_22789455_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Dgkg|Crygs_chr16_22789455_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Helz_chr11_107692979_F | TCGTCGGCAGCGTCTGTCCAGGTTGAAGTCCCAA | 58.7 | 0.00 |
| mm4_exon_Helz_chr11_107692979_R | GTCTCGTGGGCTCGGACATGGAAATCAGGGACCCT | 58.3 | 0.00 |
| mm4_intron_Cyth2_chr7_45813919_F | TCGTCGGCAGCGTCCGTTAAGCCTAGGTCCGCAG | 60.5 | 0.00 |
| mm4_intron_Cyth2_chr7_45813919_R | GTCTCGTGGGCTCGGGGTCCCGGGCCATTGTTT | 60.2 | 0.00 |
| mm3_intergenic_4933404K08Rik|Gm11333_chr13_23286916_F | TCGTCGGCAGCGTCTAAAGCCTCGGACAGCAGAC | 59.7 | 0.00 |
| mm3_intergenic_4933404K08Rik|Gm11333_chr13_23286916_R | GTCTCGTGGGCTCGGTCTGCCGAGTCTGTCTCTGA | 59.9 | 0.00 |
| mm4_intergenic_Wrn|Purg_chr8_33386233_F | TCGTCGGCAGCGTCCAGAGGGGATGCTGTGTGC | 60.7 | 0.00 |
| mm4_intergenic_Wrn|Purg_chr8_33386233_R | GTCTCGTGGGCTCGGGGGAGGGGTGTTGAGAACAA | 59.5 | 0.00 |
| mm4_exon_Vta1_chr10_14705434_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Vta1_chr10_14705434_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Pou3f3_chr1_42697447_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Pou3f3_chr1_42697447_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Irx3_chr8_91801402_F | TCGTCGGCAGCGTCGCGTTCGCCTATTGATCTGC | 59.7 | 0.00 |
| mm4_exon_Irx3_chr8_91801402_R | GTCTCGTGGGCTCGGGCCAATCTGTTCGGACCTGA | 60.0 | 0.00 |
| mm4_exon_Fgf13_chrX_59567324_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Fgf13_chrX_59567324_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_exon_Sdk2_chr11_113827056_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_exon_Sdk2_chr11_113827056_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_exon_Klhdc10_chr6_30402049_F | TCGTCGGCAGCGTCAATCGTTAGCGGGCCATGTC | 60.8 | 0.00 |
| mm3_exon_Klhdc10_chr6_30402049_R | GTCTCGTGGGCTCGGAATCGGTTGAGCTGTCCGG | 60.0 | 0.00 |
These only list off-targets that have primers in the table above. Primers underlined, off-targets in bold.
| mm0_exon_Pop5_chr5_115238108 |
TGCGGTTCAAGCACAGGTAAGCAGCGCTGTCCCCGCGCCGTCCCCGCGACCCGGGCCGCGCTCACCCCGCTGTCGCCGCA GGTACCTTCTGTGCGAGC |
| mm3_exon_Galc_chr12_98259124 |
CACCGCACTCCTGCCTCCCGCCAGCCCGCGCTCACCCCGCCGCCGCTGACTGCGCCGATGCCATCGAACTCCCGGCCCAG CCCGTCGGAGTCGTCTAGCACGTAGGCGCCACCGGGCACTAGCAGCGCACACAACAAT |
| mm4_intron_3110035E14Rik_chr1_9613187 |
TTTCTGACTTCCTGCCACCCTGGTCCAGGCTCACCTCGCTGTGGCCATTTATTCATTCCTTACAGTTCCCTAGTGGACAT TAGGTGGGTGC |
| mm4_exon_Gnb1_chr4_155491567 |
GACCAGCCTCGCCGACTCCTGCCCGCAGGCCGCGAGCGCGACGACCAGGCGGCGGCGTGGGCGCCAGACCGGGCGAGGGC GAGGTGAGCGCGGCTGGGGTCTGTGAGCTGAGCCTG |
| mm3_intron_Akt3_chr1_177246439 |
TCTTAGCCGGAAACCCAACCCCACCCAAAAAAGGAGGGTGAATTGGTGAGCGGGGAGAGCAGGGTGAGCGGGGTGAGCAG GATAAGCCGGCCTTCAA |
| mm4_intergenic_Gm23526|Grik4_chr9_42903111 |
TCACACACAGAGACAGTGTCCTTTGATCAACCCCCCCCCCCCCGTAATCATCCCCTCTCACCCCTCTCTCGCCTCCAGTT GGCCTCATTCTCTTTGCA |
| mm4_intron_Gtf2ird1_chr5_134363148 |
TCCTATCTCCGACAGACCGCTGCTACCTGCTGGCTCGTGTCCTGCAGCACTGGGGGACCCTCCCACCCCGCTCGCCCTGC TGTCCCCACGGCACTCACTGGAGCTGGTTGA |
| mm4_intron_Atp9a_chr2_168675160 |
GTCCTTGGACAGGTGAGGTGGCTGAGGGGTGACAGTCCCCAGCCCACGCTCAGCATGCTGACGCCGGCCCCGCCCCAGCT CACCTGATAGGAATGATGTTGGAAAACAGGAGCAGGAAGCGGATGATCTG |
| mm4_intron_Ttc28_chr5_111126018 |
TTCCTGGTCTCCTCGTCCTTGTTATCGAGTTGCAGAGACAGTGGGGTGAGGGTGGTGGTGGGGACCGCATGTCTAAAGTG CCA |
| mm4_intron_Myh9_chr15_77780226 | CTGCTCCTTCCCTGGCTAAACGGCTACAGGGGAGTGAGCTTGGCGAGGACCTGGCACACTTCAGACA |
| mm4_intergenic_Fam78a|Ppapdc3_chr2_32088783 |
AGCCTCTGGGGAAAGACAGAGGGGGGCGACAGCAGGCTGGGCGCGGCCTCGGATCCGGTGCGGCACTGAGAGTTCTCCAA GGTGCTAAAATAAACCGAGCGAAGGATCAGG |
| mm4_exon_Wnt3a_chr11_59290749 |
GGGAGTCCACCCCGAGAGCGCGGACGCCTGGGCTGGCCCGGCCCTGGGAGGTGGCGCGGCTGCAGTGGCGCTGGGCCCTC TGTGGCAGCGGGGTGCGCGGGGTTCCCGGGTGTGCACCGGTACACG |
| mm4_exon_1700017B05Rik_chr9_57256375 |
CAACACAGCTCCAGTGGCTACAGAGCTGCCCCATGCTCACCCAGCTGGCGGCGGACACAGTCATGCCACTGTAGGCCCAG CAGGTCAGGATAGA |
| mm3_exon_Camkk1_chr11_73019014 |
TGATTGGACATCTCTGCGGGGCGCTGCGCGGCACAGCCAATGATCGTNNNNNNNNNNNNNNNNNNNNNNNNNNAGCGAGC GCAGCCTGGAGCTGCGGCGCCAGCGGGTTGAGCCGGGCGATCCTAGCCCGGCAAG |
| mm3_intron_Gtf2ird1_chr5_134360920 |
TCAGGAGCCTGTCTCTGACAGACCACTGCTGACCTGCTGGCTCGTGCCCTGCAGCACTGGGGGACCTTCCCATCCCGCTC ACCCTGCTGTCCCCACGGCACTCACTGGAGCTGGTTGA |
| mm4_exon_Hnrnpl_chr7_28811155 |
GCTGAAGACTGAAAACGCCGGCGACCAGCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGG TGAGGCTGGGGCTTTAGACTCCCGGAAGGAAGGG |
| mm3_exon_A230020J21Rik/Mfsd7b_chr1_191025799 |
AAGATGAGCAGCACCACGAAGCGCCTCGGCGACAGCGCTGTGCGCGGGGGACACGCGGGGCATGGGACGTCCTCCCCGTC GCCCGCGGGCAACAGCCGGGCCTGGGTCTCCTCCTCCG |
| mm4_intergenic_Gm16578|Cplx2_chr13_54303342 |
GCTCAGCTAGGACTGGGAGAGAGGGTGGAGGGGACCGGCACAGGAGGGTCCCCGGCTCCAGCGGGGCGAGCTGGGCCTAG TCTGCACTGGGAGGCAGGAGTGCGCCGCCCCCCTTTCCTGCAAACGGCCAC |
| mm4_intergenic_Ngfr|Gm11528_chr11_95618216 |
GTTTATCCTGGCCAGCCCTTTGTCCAGGCGGATTTCTGAAAGAGGAGTGGAAAGCCCACCTACTTACCTGGCTCCAGCGG GGTGGGCGTGGCCTCGTATGCGCATTTCCAACGT |
| mm4_intron_Pappa_chr4_65241141 |
TCACACCCTTTCCCCAATAGCTCTAATGAGTCAGAGAAGAGAGACTGGAGAGGGGTCGGGGACTGAGGGGTGAGGGCGGG TGCTGTGTACAGGTGAGCATTCTTATCATTGTATGTGTCAAGAATGGTGGCCAGGA |
| mm4_intergenic_Gm23198|Parp8_chr13_116844160 |
TCTCATCCTGTCTCGCCAGACAAGACAGTGAATGTAACCACTTCTAACAAGTTCCCCCGCTCCCCCCGCTCTGGCCTCTA AAGTCTTTTGCAATGACCTTGTGCTGGA |
| mm4_intron_Smpdl3b_chr4_132734391 |
CGCTCTTCACAGACGCTCTAATGCTCAGGAAATCTTCACAGAGTGAAGGGGAATAAAAATNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCTGGCTGGCGGATGTTATGA |
| mm4_intergenic_Gm4799|Chst11_chr10_82960706 |
CCTGTTACCCCTGCATCGTTTGGCACAAACGGTGTTGTTCTAACACCTGTCTGGGTTGTGGAGAAAGGGGAATTTTCATG GGCATGGGCGGCAGCGGGGTGGGGGTGGGGTGGGGTGTGCAATAAGAAGGGCCGA |
| mm4_intergenic_Rmnd5a|Rnf103_chr6_71440672 |
TTCTGAAGGTGTGGGCCGTACCACGCGGGAGGCCGTGAGGGAGCGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGACGC AATTGGCCCGCGCAGCTGAACAGGGAACTT |
| mm4_intergenic_Slit3|Gm12123_chr11_35247259 |
AATGAGACCGGAAAGCAGCAGAGACAGGGCTTCCCTGGGAGAGAGCACGCGACCCCCACCACCCACGCTCCCCCCTGTGT CCCCGGCCCAGTGGATGGGGACTGGCAAGAAGGTCAGGGAG |
| mm4_intergenic_Mir3089|1700001O22Rik_chr2_30771456 |
TGCTCAAACTTTCCCAGGCGCCCAGCTGCCCAGCCCTCGGCAGTGGCAGGCCTGCTGAGGAGGACAGGGCGGTCAACTGA GCGCCAGTGGACCGCGGGGTGAGCGGGAGTAGGGGGATGCCGAGGAGTGC |
| mm4_intron_Slc38a2_chr15_96699349 |
CTAACGGGAGGCTGTGGCCGGGTGGCCGCAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNTCACCTCGGTGCTCTCCCTG |
| mm4_exon_Lrrc59_chr11_94629790 |
ACGGAAGTGGTCGTCGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTTAAGGCGCAGGCGTGG |
| mm4_intergenic_Bcl11b|Setd3_chr12_108057582 |
ACCAGGCACATACATACCTCAAGAGAACTTGAGCCCCCACCCACCCACACCCCGCCCTCGCCGTCTCTGCTTCCTGTGCT GTC |
| mm4_intergenic_Zfp46|Gm13013_chr4_136306673 |
GCTAGCCGATGACCTTCTCCAACGGGGACTGCGGGGTGGGGGAGGAGAGCTATCACGTTATACAAGGAGGTTTATAGAAG GAAGGATGATTTTACTGGCTGGAGGTATCTCTTCTGGCCA |
| mm4_exon_Helz_chr11_107692979 |
TGTCCAGGTTGAAGTCCCAAAGTGTCAGTTTTACCTAAGATTGTTTCTCAACGACCCCCCCTCCCCCCGCCGCCGCCGAA GGGTCCCTGATTTCCATGT |
| mm4_intron_Cyth2_chr7_45813919 |
CGTTAAGCCTAGGTCCGCAGGAAGAAAGCCAGGCCGCCGCTCCCGCGGGTGTANNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNGCCGTCGCCGGAAGCGGGCTCGGCCCAAACAATGGCCCGGGACC |
| mm3_intergenic_4933404K08Rik|Gm11333_chr13_23286916 |
TAAAGCCTCGGACAGCAGACTAGGGACTCAGGCTACAGCGGGGTGAGGGTGAGGAGAATAACTGCTGGCCTGCAAAGGAG AAGCTCCAGCTTCTAATTCAGAGACAGACTCGGCAGA |
| mm4_intergenic_Wrn|Purg_chr8_33386233 |
CAGAGGGGATGCTGTGTGCGCGGTGCGGAGCCGGCCGAGGCCGGAGCGCGAGAGCCGGGCCAGAGTAGGGGTTCCGGGCG GCGGCAGCGGGGGCAGTGCGGACCCAGGGGCGTCTGCGATTGTTCTCAACACCCCTCCC |
| mm4_exon_Irx3_chr8_91801402 |
GCGTTCGCCTATTGATCTGCTCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGAGTCAGGTCAGGTCCGAACA GATTGGC |
| mm3_exon_Klhdc10_chr6_30402049 |
AATCGTTAGCGGGCCATGTCGGCTGCCCAGGGCTGGGACCGGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCGGGGCACCGGACAGCTCAACCGATT |