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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_52313890_F | Primer3: not found at this Tm | N.d. | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313890_R | Primer3: not found at this Tm | N.d. | 1.00 |
| mm4_intron_Adcy2_chr13_68697790_F | Primer3: not found at this Tm | N.d. | 0.47 |
| mm4_intron_Adcy2_chr13_68697790_R | Primer3: not found at this Tm | N.d. | 0.47 |
| mm3_intergenic_Mc2r|mmu-mir-6356_chr18_68576328_F | Primer3: not found at this Tm | N.d. | 0.42 |
| mm3_intergenic_Mc2r|mmu-mir-6356_chr18_68576328_R | Primer3: not found at this Tm | N.d. | 0.42 |
| mm4_intergenic_Gm23960|Gm26373_chr6_21088743_F | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Gm23960|Gm26373_chr6_21088743_R | Primer3: not found at this Tm | N.d. | 0.34 |
| mm4_intergenic_Nrxn3|Dio2_chr12_90386006_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intergenic_Nrxn3|Dio2_chr12_90386006_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intergenic_Gm9897|Fzd1_chr5_4699513_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intergenic_Gm9897|Fzd1_chr5_4699513_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Meox2_chr12_37136322_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Meox2_chr12_37136322_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm3_intron_Efna1_chr3_89275964_F | TCGTCGGCAGCGTCCCTTCCCAGCTTCCTCAAGG | 60.0 | 0.30 |
| mm3_intron_Efna1_chr3_89275964_R | GTCTCGTGGGCTCGGGCATCAGGGATGTGGTGTGA | 60.0 | 0.30 |
| mm4_intergenic_Kif20b|Gm24006_chr19_35089346_F | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intergenic_Kif20b|Gm24006_chr19_35089346_R | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intergenic_Gm15026|Gm15025_chrX_136909744_F | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intergenic_Gm15026|Gm15025_chrX_136909744_R | Primer3: not found at this Tm | N.d. | 0.29 |
| mm4_intron_Spock1_chr13_57764855_F | TCGTCGGCAGCGTCTATCCCAATGGCTGCCCAAC | 60.3 | 0.29 |
| mm4_intron_Spock1_chr13_57764855_R | GTCTCGTGGGCTCGGTCCCTTCCAAAGACCTGCAG | 59.5 | 0.29 |
| mm4_exon_Kmo_chr1_175659833_F | TCGTCGGCAGCGTCCCACTGGCTACTGGACTAGG | 58.8 | 0.28 |
| mm4_exon_Kmo_chr1_175659833_R | GTCTCGTGGGCTCGGCACCCTTGAGATGGAAGAGGA | 58.8 | 0.28 |
| mm4_intergenic_Slc35g2|Stag1_chr9_100582820_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_Slc35g2|Stag1_chr9_100582820_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_exon_Hdac9_chr12_34528587_F | TCGTCGGCAGCGTCGCAGGGGATCAACTTCCACA | 59.9 | 0.24 |
| mm4_exon_Hdac9_chr12_34528587_R | GTCTCGTGGGCTCGGAGCATCCAGTCTGCTCTTTCT | 59.0 | 0.24 |
| mm4_intergenic_Kcnh7|Gm23503_chr2_63278313_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intergenic_Kcnh7|Gm23503_chr2_63278313_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intron_Idh3a_chr9_54597070_F | TCGTCGGCAGCGTCGCTCCCAGGACTTAGTTGCT | 59.3 | 0.22 |
| mm4_intron_Idh3a_chr9_54597070_R | GTCTCGTGGGCTCGGTCCTGGCCCCTTCATTTGTC | 59.9 | 0.22 |
| mm4_intron_Cmtm6_chr9_114742457_F | TCGTCGGCAGCGTCGCATTGAAGAGTTGCAGACGG | 60.1 | 0.22 |
| mm4_intron_Cmtm6_chr9_114742457_R | GTCTCGTGGGCTCGGTTAGCAAACCTGGTCGTCCC | 59.9 | 0.22 |
| mm4_intergenic_Med13l|n-R5s175_chr5_119217956_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Med13l|n-R5s175_chr5_119217956_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Agbl4_chr4_110783453_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Agbl4_chr4_110783453_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Gm14802|Ar_chrX_98069630_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Gm14802|Ar_chrX_98069630_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_AC112986.1|Tsn_chr1_117611896_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_AC112986.1|Tsn_chr1_117611896_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Dtl_chr1_191540520_F | TCGTCGGCAGCGTCAGGATGTTGGCAAGTTTCCCA | 60.1 | 0.21 |
| mm4_intron_Dtl_chr1_191540520_R | GTCTCGTGGGCTCGGACTGCTTGACTCACTAAAGCCT | 59.6 | 0.21 |
| mm4_intergenic_Sorcs2|Psapl1_chr5_36182518_F | TCGTCGGCAGCGTCGTGTCGCTGTCAACTGGAGA | 59.9 | 0.21 |
| mm4_intergenic_Sorcs2|Psapl1_chr5_36182518_R | GTCTCGTGGGCTCGGCCGGGCAAGCTGTCTATCAA | 60.1 | 0.21 |
| mm4_intergenic_Olfr786|Olfr787_chr10_129459355_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Olfr786|Olfr787_chr10_129459355_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm25727|F830104G03Rik_chr3_56748678_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm25727|F830104G03Rik_chr3_56748678_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm12913|Gm25836_chr4_78829822_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm12913|Gm25836_chr4_78829822_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm11644|Gm11645_chr2_143372554_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm11644|Gm11645_chr2_143372554_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Ceacam14|Gm5155_chr7_17842898_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Ceacam14|Gm5155_chr7_17842898_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Gm26911|Pdzrn3_chr6_101282226_F | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intergenic_Gm26911|Pdzrn3_chr6_101282226_R | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_exon_2610507B11Rik_chr11_78268882_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_exon_2610507B11Rik_chr11_78268882_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Olfr1099|Olfr1100_chr2_86974263_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Olfr1099|Olfr1100_chr2_86974263_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Stpg2|mmu-let-7j_chr3_139865502_F | TCGTCGGCAGCGTCACATTTTCATAGACAACCTACTCCC | 58.5 | 0.15 |
| mm4_intergenic_Stpg2|mmu-let-7j_chr3_139865502_R | GTCTCGTGGGCTCGGCTAACGAAAACCCCAGGGCT | 59.9 | 0.15 |
| mm4_intergenic_Pigt|Gm14317_chr2_164541071_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Pigt|Gm14317_chr2_164541071_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Slc22a19|Slc22a26_chr19_7731679_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Slc22a19|Slc22a26_chr19_7731679_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Gm281_chr14_13816974_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Gm281_chr14_13816974_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Gm5742|Gm22223_chr8_100590072_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Gm5742|Gm22223_chr8_100590072_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Vmn2r71|Vmn2r-ps73_chr7_85696078_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Vmn2r71|Vmn2r-ps73_chr7_85696078_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_n-R5s61|Gm15571_chr12_68911275_F | TCGTCGGCAGCGTCGCCAACCTGCCATAAGACCT | 60.0 | 0.14 |
| mm4_intergenic_n-R5s61|Gm15571_chr12_68911275_R | GTCTCGTGGGCTCGGAGAGGAGGTGACATGGGGTT | 60.1 | 0.14 |
| mm4_intergenic_Fgfr4|Nsd1_chr13_55204911_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Fgfr4|Nsd1_chr13_55204911_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_G730013B05Rik_chr16_50547209_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_G730013B05Rik_chr16_50547209_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Gm11784|Gm11785_chr4_3395019_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm11784|Gm11785_chr4_3395019_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm2574|Gm24728_chr3_143305644_F | TCGTCGGCAGCGTCGTGGGACTTTTCACCCTGTCT | 59.8 | 0.12 |
| mm4_intergenic_Gm2574|Gm24728_chr3_143305644_R | GTCTCGTGGGCTCGGTCAGGAAGATGGCTATCCCCA | 60.0 | 0.12 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_50017797_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_50017797_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_50015367_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_C230029F24Rik|PCGEM1_chr1_50015367_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Ube2q1|She_chr3_89803029_F | TCGTCGGCAGCGTCAGAGGGTTAAAGGTGGCGTG | 59.9 | 0.12 |
| mm4_intergenic_Ube2q1|She_chr3_89803029_R | GTCTCGTGGGCTCGGGCCGCAGTGACTACTTCCTT | 60.0 | 0.12 |
| mm4_intergenic_Kcna6/Gm26673|Ndufa9_chr6_126801815_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_Kcna6/Gm26673|Ndufa9_chr6_126801815_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intergenic_Vmn2r79|Nox4_chr7_87132668_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Vmn2r79|Nox4_chr7_87132668_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Olfr1467|Olfr1469_chr19_13404248_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Olfr1467|Olfr1469_chr19_13404248_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Ralyl_chr3_14134714_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Ralyl_chr3_14134714_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Ccdc50|Fgf12_chr16_27535771_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Ccdc50|Fgf12_chr16_27535771_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Capn10|Gpr35_chr1_92958317_F | TCGTCGGCAGCGTCGGTGTAGGTAGGAGAGGTCACT | 60.0 | 0.09 |
| mm4_intergenic_Capn10|Gpr35_chr1_92958317_R | GTCTCGTGGGCTCGGGGTGTCTTCTGTCAGATGCCT | 59.7 | 0.09 |
| mm4_intergenic_1700040L02Rik|Tmem26_chr10_68667744_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_1700040L02Rik|Tmem26_chr10_68667744_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Mfap3|Gm12243_chr11_57572072_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Mfap3|Gm12243_chr11_57572072_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Lamc3_chr2_31924718_F | TCGTCGGCAGCGTCACATTCTGCAGGGAGAAGCC | 60.0 | 0.08 |
| mm4_intron_Lamc3_chr2_31924718_R | GTCTCGTGGGCTCGGGTCCCCTCACCTCTACCAGT | 59.9 | 0.08 |
| mm3_intergenic_Fam71b|Med7_chr11_46421322_F | TCGTCGGCAGCGTCAGTACAGTGAAGCAACAGGC | 58.1 | 0.08 |
| mm3_intergenic_Fam71b|Med7_chr11_46421322_R | GTCTCGTGGGCTCGGCCCTCTCTGTTCTCGTTGCA | 59.6 | 0.08 |
| mm4_intergenic_Slc22a22|Zhx2_chr15_57482660_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Slc22a22|Zhx2_chr15_57482660_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Duox1_chr2_122319193_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Duox1_chr2_122319193_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Myo3b_chr2_70218187_F | TCGTCGGCAGCGTCGGTCCGGAGATAGCCCTGTA | 60.1 | 0.07 |
| mm4_intron_Myo3b_chr2_70218187_R | GTCTCGTGGGCTCGGTGCTGCAGAAACCTGTGACA | 60.1 | 0.07 |
| mm4_intergenic_Gm12855|Olfr1335_chr4_118793770_F | TCGTCGGCAGCGTCTCATCCCTGAGGCTCCCTAC | 60.1 | 0.07 |
| mm4_intergenic_Gm12855|Olfr1335_chr4_118793770_R | GTCTCGTGGGCTCGGGGAGGAGACAGCTGTGTGTT | 59.6 | 0.07 |
| mm4_intron_Gm7073_chrX_60528827_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Gm7073_chrX_60528827_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Abcb10|Taf5l_chr8_123993678_F | TCGTCGGCAGCGTCGCCCCGCCCATTCTCTTTAG | 60.8 | 0.06 |
| mm4_intergenic_Abcb10|Taf5l_chr8_123993678_R | GTCTCGTGGGCTCGGTGTCCCCTGTGGTTGAAGTG | 59.8 | 0.06 |
| mm4_intergenic_Actn2|Gm5445_chr13_12344853_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Actn2|Gm5445_chr13_12344853_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Nav2_chr7_49505460_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Nav2_chr7_49505460_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm3_intergenic_Gm27039|Adcyap1_chr17_92846541_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm3_intergenic_Gm27039|Adcyap1_chr17_92846541_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Arpc3|Anapc7_chr5_122414339_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Arpc3|Anapc7_chr5_122414339_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Enpep|Elovl6_chr3_129436662_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Enpep|Elovl6_chr3_129436662_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Fam83a_chr15_58000870_F | TCGTCGGCAGCGTCTCAGTCAAGGGAGCAAGTCC | 59.3 | 0.04 |
| mm4_intron_Fam83a_chr15_58000870_R | GTCTCGTGGGCTCGGCCTGTATCAAGAGCAGCTGTCA | 60.0 | 0.04 |
| mm4_intergenic_Gm12161|Gm12162_chr11_45327584_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm12161|Gm12162_chr11_45327584_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Msra_chr14_64235646_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Msra_chr14_64235646_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Pdzrn3|Gm26911_chr6_101187283_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Pdzrn3|Gm26911_chr6_101187283_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Pwwp2b|Inpp5a_chr7_139298915_F | TCGTCGGCAGCGTCGGAGGTGCAGGAAACATCGA | 60.0 | 0.03 |
| mm4_intergenic_Pwwp2b|Inpp5a_chr7_139298915_R | GTCTCGTGGGCTCGGGTCAAGACCAGGGACTCTGC | 60.0 | 0.03 |
| mm4_intergenic_Gm9881|Olig2_chr16_91191789_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm9881|Olig2_chr16_91191789_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm11801|Gm22473_chr4_6545338_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm11801|Gm22473_chr4_6545338_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_C2cd3_chr7_100404217_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_C2cd3_chr7_100404217_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Il10rb|A930006K02Rik_chr16_91432551_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Il10rb|A930006K02Rik_chr16_91432551_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm12367|Gm12368_chr4_35376390_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm12367|Gm12368_chr4_35376390_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Fam179a_chr17_71714382_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Fam179a_chr17_71714382_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Crry-ps|AC161214.1_chr8_74105403_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Crry-ps|AC161214.1_chr8_74105403_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Lrrc28_chr7_67515869_F | TCGTCGGCAGCGTCGTGAGTCACGAGTTCCCTGG | 60.0 | 0.01 |
| mm4_intron_Lrrc28_chr7_67515869_R | GTCTCGTGGGCTCGGAACAGCAAAGCACTCTCCCC | 60.5 | 0.01 |
| mm4_intergenic_Gm22670|Gm12434_chr4_47944779_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm22670|Gm12434_chr4_47944779_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm23176|Nt5e_chr9_88209614_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm23176|Nt5e_chr9_88209614_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Vwc2l_chr1_70824414_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Vwc2l_chr1_70824414_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_5730446D14Rik_chr6_52166091_F | TCGTCGGCAGCGTCTTGGTCCCTCTTTCCCTCCT | 59.8 | 0.00 |
| mm4_intron_5730446D14Rik_chr6_52166091_R | GTCTCGTGGGCTCGGTGGTGTGGGAGGCAATTCAG | 60.2 | 0.00 |
| mm4_intron_Rgma_chr7_73399608_F | TCGTCGGCAGCGTCGGGAGCTAAGCTTGGGAACC | 60.3 | 0.00 |
| mm4_intron_Rgma_chr7_73399608_R | GTCTCGTGGGCTCGGTGCATGTGAGTGGCTCTGAG | 60.0 | 0.00 |
| mm4_intron_Prss12_chr3_123486661_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Prss12_chr3_123486661_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Nedd4l_chr18_65094870_F | TCGTCGGCAGCGTCTGGAAGGTCATGGTCCCTGA | 60.1 | 0.00 |
| mm4_intron_Nedd4l_chr18_65094870_R | GTCTCGTGGGCTCGGACCTCCTCAGAGAACTGACGA | 59.9 | 0.00 |
| mm4_intron_Jakmip1_chr5_37048384_F | TCGTCGGCAGCGTCGTAGGAGGCAGATGGACAGC | 59.8 | 0.00 |
| mm4_intron_Jakmip1_chr5_37048384_R | GTCTCGTGGGCTCGGCTCATCCCCATACCAGCGAC | 59.9 | 0.00 |
| mm4_intron_Ggta1_chr2_35429500_F | TCGTCGGCAGCGTCTGGTAGCTGTCTGGGGCTAT | 60.0 | 0.00 |
| mm4_intron_Ggta1_chr2_35429500_R | GTCTCGTGGGCTCGGGCGCTGGAGACTTGGTACAT | 60.1 | 0.00 |
| mm4_intron_Cass4_chr2_172397996_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Cass4_chr2_172397996_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_B630005N14Rik_chr6_13655348_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_B630005N14Rik_chr6_13655348_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Atg4a_chrX_140965186_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Atg4a_chrX_140965186_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ak8_chr2_28746848_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ak8_chr2_28746848_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Zkscan16|Ptgr1_chr4_58963907_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Zkscan16|Ptgr1_chr4_58963907_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ttc12|Ncam1_chr9_49491218_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ttc12|Ncam1_chr9_49491218_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Syt3|Lrrc4b_chr7_44409992_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Syt3|Lrrc4b_chr7_44409992_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Pcsk1|Gm4149/Mir682_chr13_75547504_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Pcsk1|Gm4149/Mir682_chr13_75547504_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm7627|Gm24120_chr7_69645685_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm7627|Gm24120_chr7_69645685_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26514|Slc35b3_chr13_38954072_F | TCGTCGGCAGCGTCTGCACGTTTAGCAAGCTGAC | 59.4 | 0.00 |
| mm4_intergenic_Gm26514|Slc35b3_chr13_38954072_R | GTCTCGTGGGCTCGGGGAGAAGGTATGTGGTGGGC | 60.1 | 0.00 |
| mm4_intergenic_Gm26349|Mrps30_chr13_118101416_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26349|Mrps30_chr13_118101416_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm16004|Sox14_chr9_99833717_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm16004|Sox14_chr9_99833717_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm15076|Gm8261_chrX_146596311_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm15076|Gm8261_chrX_146596311_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gata4|Blk_chr14_63315657_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gata4|Blk_chr14_63315657_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Fzd10|Piwil1_chr5_128731424_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Fzd10|Piwil1_chr5_128731424_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ccl20|Daw1_chr1_83148901_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Ccl20|Daw1_chr1_83148901_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Bet1|RP23-447L9.1_chr6_4272194_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Bet1|RP23-447L9.1_chr6_4272194_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Adamts18|Nudt7_chr8_113888294_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Adamts18|Nudt7_chr8_113888294_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_9430069I07Rik/Matn2|9430069I07Rik_chr15_34356132_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_9430069I07Rik/Matn2|9430069I07Rik_chr15_34356132_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_intergenic_Gm7008|Ifrd1_chr12_40246327_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm3_intergenic_Gm7008|Ifrd1_chr12_40246327_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.
| mm3_intron_Efna1_chr3_89275964 |
CCTTCCCAGCTTCCTCAAGGACAGGGGCTAGGAGTGTTTTTGACCTTTGTTCCCATTTACCAAACAGAGTGCCTAAGACA CCTGAAGCTCACACCACATCCCTGATGC |
| mm4_intron_Spock1_chr13_57764855 |
TATCCCAATGGCTGCCCAACTCTGTGGGCACCACAGGGAGTTTTAGGGGCACTGGTTGGTAAGGGGAGAGGACTGGCTTT ACACTGACTAGTGTCCATGACTCGGTGCCTGCAGGTCTTTGGAAGGGA |
| mm4_exon_Kmo_chr1_175659833 |
CCACTGGCTACTGGACTAGGAGTACAGACATTTCTCTGCAAGTTCCATGGAGTTACTAGGACAAATTCCCCCGTTCACCA ACCATAGTGTCAAAGTTCTGGGTAGCAAATGTTTGATTCCTCTTCCATCTCAAGGGTG |
| mm4_exon_Hdac9_chr12_34528587 |
GCAGGGGATCAACTTCCACAATAATTTCCTTTCTGCTTAGATGGACATACCCTTTAAAAAGACCTAGTACCCCCCCCCCC AGACCCCTCCAATTACCAACCTGTGTGCAAAGCAGAAAGAGCAGACTGGATGCT |
| mm4_intron_Idh3a_chr9_54597070 |
GCTCCCAGGACTTAGTTGCTAGTTGGCTTTCTGAGTCCCAGAATTTGGAAAAGAACCACATACCAGCCAGAGTGGCATTT TTTCCTTTGAGACCTTACTGGGGAGATGATAGGGACAAATGAAGGGGCCAGGA |
| mm4_intron_Cmtm6_chr9_114742457 |
GCATTGAAGAGTTGCAGACGGTGCTGTGCCAGTCTGATTGGTAAGGGGACAAACAGATGCAGTCGAGCCCAGAACAGACT CCACAGGGGACGACCAGGTTTGCTAA |
| mm4_intron_Dtl_chr1_191540520 |
AGGATGTTGGCAAGTTTCCCAAGAATAAAGTTTACCTNNNNNNNNNNNNNNNNNNNNNNNNCCCATACTGTCTACCAGGA GAGATATTTTTGAATCGACACTCTGGATGGTGAGAGGAAGGCTTTAGTGAGTCAAGCAGT |
| mm4_intergenic_Sorcs2|Psapl1_chr5_36182518 |
GTGTCGCTGTCAACTGGAGATTTATTTCCATGGTCCTCTTACCAAGCACAGTGCTGAGCTCCCTGGCATATGGTATGTAT GATTTTCATGCTAGGCTTGATAGACAGCTTGCCCGG |
| mm4_intergenic_Stpg2|mmu-let-7j_chr3_139865502 |
ACATTTTCATAGACAACCTACTCCCTCCACTTACCAAGCAGAGTAGCCACAAGGTTGTACCGTGATTTTTCTTGTAACTA TTGGAATTGTGAGTGAATGAAAACACAATGAAAATATTAGCCCTGGGGTTTTCGTTAG |
| mm4_intergenic_n-R5s61|Gm15571_chr12_68911275 |
GCCAACCTGCCATAAGACCTAGTAGACCTGGCAATAATCATAACAAAAGGAGGCAGCACATTCAAAATAATAAGGTTCCA GTTACCAACCAGTGCTCCAAAACCCCATGTCACCTCCTCT |
| mm4_intergenic_Gm2574|Gm24728_chr3_143305644 |
GTGGGACTTTTCACCCTGTCTTCCTTTGTCTTTCTACTTTTGTTTCCCCTTTCCAACCCCAGTGCTAAAAGGCTGATTAA GATGTTTCCCTAATACATACAAATAGACTATGGGGATAGCCATCTTCCTGA |
| mm4_intergenic_Ube2q1|She_chr3_89803029 |
AGAGGGTTAAAGGTGGCGTGGCGCGTTCCGAGATGCCACTTTGCCAAGTGTTTCACCTACACCATCCACATACCAACCAG AGTGGACAGAGGGGGAGCAGCTTTCCAAACCAGACAAGGAAGTAGTCACTGCGGC |
| mm4_intergenic_Capn10|Gpr35_chr1_92958317 |
GGTGTAGGTAGGAGAGGTCACTCTGAATTGGCAAATTTTAGGGAAAATTGGCATTTGGGGTGGTAAGAGGGGTAGATGAG GAAGTCATCTAGACACAAACTGATTGTAAAGTACTTTGGAGGCATCTGACAGAAGACACC |
| mm4_intron_Lamc3_chr2_31924718 |
ACATTCTGCAGGGAGAAGCCCCTCTGGGGGATGTCTACCAAGGTCACCACCTACTTCAAGGTACAGAGGATGGCACACTG GGTGGTGAGGGGACTGGTAGAGGTGAGGGGAC |
| mm3_intergenic_Fam71b|Med7_chr11_46421322 |
AGTACAGTGAAGCAACAGGCTGCTGATTACCAACCAGTGTTCCAAACTGAAGGTGCAGACTCACAGAGATGCAACGAGAA CAGAGAGGG |
| mm4_intron_Myo3b_chr2_70218187 |
GGTCCGGAGATAGCCCTGTATTGTGCAGAAGCCCGTTTACAAACCAGAAAGCCAAAGCCAGACTTACCAGAGATGGAATG TCAAGGTGACTGTGTTGTGCTGATTTTTTCTCTTGTCACAGGTTTCTGCAGCA |
| mm4_intergenic_Gm12855|Olfr1335_chr4_118793770 |
TCATCCCTGAGGCTCCCTACACCACTCACCTACCAGAATGACAATAGTAAACCCCAATGCTCTACTCACTAAAGACTCCA ATCACAACACACAGCTGTCTCCTCC |
| mm4_intergenic_Abcb10|Taf5l_chr8_123993678 |
GCCCCGCCCATTCTCTTTAGAGCCATTTCAATGGCCTCTTCTCAACCAGTGAGCCAAACAGGCTGTTTATATAGCCAGGT AGACTGCACTTCAACCACAGGGGACA |
| mm4_intron_Fam83a_chr15_58000870 |
TCAGTCAAGGGAGCAAGTCCTTAATGCCAGACACTACCCCATCCCAACCATAGTGTCAATATCTTCAAACTGTTCTATGT TGACAGCTGCTCTTGATACAGG |
| mm4_intergenic_Pwwp2b|Inpp5a_chr7_139298915 |
GGAGGTGCAGGAAACATCGAAGTTCTTAGACAGATGGAGGCCCCAATCCTCAGACCAGCCAGACTGCCAAAGAGAAGCAG AGTCCCTGGTCTTGAC |
| mm4_intron_Lrrc28_chr7_67515869 |
GTGAGTCACGAGTTCCCTGGGGATCCTCATGTGCTTTGGACAGCACAGGCTCGTAGAGGCTCCTCTTCCCACCCAGAGAG CCGACGTCTGGTGTGGGGAGAGTGCTTTGCTGTT |
| mm4_intron_5730446D14Rik_chr6_52166091 |
TTGGTCCCTCTTTCCCTCCTACTCTTCTTCGAGTCCTTGTCACTCTGGTTGGGGACTGGTTGGTTCAGATGAAGCGAGTA TTTCTTGGCAGCCTGAATTGCCTCCCACACCA |
| mm4_intron_Rgma_chr7_73399608 |
GGGAGCTAAGCTTGGGAACCGTAAGGTTCCAAAAGGCCGAGGCACACAGCAGGACACCGCTTACACTTCAGAGTGCCAAG TGACAAAGGGAACAGAAAGAGCTTGCTGAGCTTACAGTACCTCAGAGCCACTCACATGCA |
| mm4_intron_Nedd4l_chr18_65094870 |
TGGAAGGTCATGGTCCCTGACTTACATTGTTGTCGCCAACCCTTCCCTCATCCCCAGTTACTCCCCAGAGTGCCAAGGAT AATCGTCAGTTCTCTGAGGAGGT |
| mm4_intron_Jakmip1_chr5_37048384 |
GTAGGAGGCAGATGGACAGCGAGGTGCAGCGAGCAGGGCCTCAAGGCAGGTGGAGCTGGGCACTCTGGTGGCCAAGAGGA CCTGGCCCTGATGTAGGTAATGGCTCTGGAGGCCACAGGGGTCGCTGGTATGGGGATGAG |
| mm4_intron_Ggta1_chr2_35429500 |
TGGTAGCTGTCTGGGGCTATAGGAGGAAGCAAGGAACTGCCCCACTTACCCACCAGGGTCCCAGAACCTTGTATAGCATC CAGACCTTACTTTCTTCCTGTTCAGGGGTCACGATGTACCAAGTCTCCAGCGC |
| mm4_intergenic_Gm26514|Slc35b3_chr13_38954072 |
TGCACGTTTAGCAAGCTGACTTAGTTTTTCCAGATTCAACTGATGAGAGTACCGCTCACTCCCCAGAGTGCCAAGCCCAC CACATACCTTCTCC |