← 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 |
|---|---|---|---|
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313996_F | TCGTCGGCAGCGTCAACCGCCAGAGAAGATGGTG | 60.0 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313996_R | GTCTCGTGGGCTCGGCTGCCTGCTAGTCCATCGAC | 60.2 | 1.00 |
| mm4_intergenic_Gm17315|Rmdn2_chr17_79522551_F | Primer3: not found at this Tm | N.d. | 0.50 |
| mm4_intergenic_Gm17315|Rmdn2_chr17_79522551_R | Primer3: not found at this Tm | N.d. | 0.50 |
| mm3_intergenic_Gm22983|1700057H15Rik_chr4_124396025_F | TCGTCGGCAGCGTCGGAAGTGGCAGGATTCCACA | 59.9 | 0.40 |
| mm3_intergenic_Gm22983|1700057H15Rik_chr4_124396025_R | GTCTCGTGGGCTCGGTCCTGCCACTCAAGTGTGTC | 59.8 | 0.40 |
| mm3_intergenic_Gm23536|Gm4842_chr18_69241430_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm3_intergenic_Gm23536|Gm4842_chr18_69241430_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Phf21a_chr2_92229838_F | Primer3: not found at this Tm | N.d. | 0.31 |
| mm4_intron_Phf21a_chr2_92229838_R | Primer3: not found at this Tm | N.d. | 0.31 |
| mm4_intergenic_Gm7931|Slit2_chr5_46433956_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Gm7931|Slit2_chr5_46433956_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intron_Fer_chr17_63999708_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intron_Fer_chr17_63999708_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Gm14970|4930412D23Rik_chrX_127687293_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Gm14970|4930412D23Rik_chrX_127687293_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Zfpm2_chr15_41063588_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Zfpm2_chr15_41063588_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Gpr12|Usp12_chr5_146614016_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Gpr12|Usp12_chr5_146614016_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intron_Camk2g_chr14_20784763_F | TCGTCGGCAGCGTCCTGGCAGACACGGAATCTGA | 59.7 | 0.20 |
| mm4_intron_Camk2g_chr14_20784763_R | GTCTCGTGGGCTCGGCCTCTTGCTTGCCTTCGTCT | 60.3 | 0.20 |
| mm4_intergenic_Cep55|Ffar4_chr19_38088084_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Cep55|Ffar4_chr19_38088084_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intron_Eif3f_chr7_108936023_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intron_Eif3f_chr7_108936023_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Il22|Iltifb_chr10_118267085_F | TCGTCGGCAGCGTCGAGTACATTAACGGCGGTGC | 59.3 | 0.18 |
| mm4_intergenic_Il22|Iltifb_chr10_118267085_R | GTCTCGTGGGCTCGGAATGGAGGTAGGCCATCCCT | 60.0 | 0.18 |
| mm4_intergenic_Il22|Iltifb_chr10_118232359_F | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intergenic_Il22|Iltifb_chr10_118232359_R | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intron_Rusc2_chr4_43397027_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Rusc2_chr4_43397027_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Prickle1_chr15_93595065_F | TCGTCGGCAGCGTCACCAAGTGCGTCAGGCTTAA | 59.8 | 0.17 |
| mm4_intron_Prickle1_chr15_93595065_R | GTCTCGTGGGCTCGGAGATTGCGTTCGGGAGACTG | 60.1 | 0.17 |
| mm4_intergenic_Jdp2|Batf_chr12_85658073_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intergenic_Jdp2|Batf_chr12_85658073_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Themis_chr10_28678644_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Themis_chr10_28678644_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_exon_Il1rap_chr16_26722644_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_exon_Il1rap_chr16_26722644_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Inadl_chr4_98699657_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Inadl_chr4_98699657_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm3_intergenic_Chsy1/Gm26827|Lrrk1_chr7_66196776_F | TCGTCGGCAGCGTCGCTGGGTGGCTGATAAGGTT | 60.0 | 0.15 |
| mm3_intergenic_Chsy1/Gm26827|Lrrk1_chr7_66196776_R | GTCTCGTGGGCTCGGGGCAAGCTCTAAGACGACGA | 59.8 | 0.15 |
| mm4_intergenic_Scp2d1|Gm11746_chr2_144824664_F | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_intergenic_Scp2d1|Gm11746_chr2_144824664_R | Primer3: not found at this Tm | N.d. | 0.15 |
| mm4_exon_Ninl_chr2_151009229_F | TCGTCGGCAGCGTCCTCTCCCACGCCCTACTCA | 60.3 | 0.14 |
| mm4_exon_Ninl_chr2_151009229_R | GTCTCGTGGGCTCGGCGCATCCTGAACTCAGCGTT | 61.0 | 0.14 |
| mm2_intergenic_Col18a1|Gm10941_chr10_77208673_F | TCGTCGGCAGCGTCAGTCCTCTCAGTGGAGTCTCC | 59.9 | 0.13 |
| mm2_intergenic_Col18a1|Gm10941_chr10_77208673_R | GTCTCGTGGGCTCGGGAAAGCTCAATCGGGAACTCC | 58.9 | 0.13 |
| mm4_intergenic_Gm11042|Kcnh5_chr12_74779824_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm11042|Kcnh5_chr12_74779824_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm23979|Gm22845_chr12_9653319_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Gm23979|Gm22845_chr12_9653319_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Gm4868|Gm23151_chr5_126287178_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Gm4868|Gm23151_chr5_126287178_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Dnttip2|Gm17494_chr3_122291996_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Dnttip2|Gm17494_chr3_122291996_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_exon_Scarb1_chr5_125283879_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_exon_Scarb1_chr5_125283879_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Gm11997|Vwc2_chr11_10948165_F | TCGTCGGCAGCGTCTCGCAGAGCCAAGGGTATTC | 59.8 | 0.10 |
| mm4_intergenic_Gm11997|Vwc2_chr11_10948165_R | GTCTCGTGGGCTCGGAGGCCACTGAATATTCACTCCT | 58.8 | 0.10 |
| mm4_exon_Dio3os_chr12_110276637_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Dio3os_chr12_110276637_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_exon_Slc35b4_chr6_34160527_F | TCGTCGGCAGCGTCTTGAACAGGACAACGTGGTC | 58.3 | 0.08 |
| mm4_exon_Slc35b4_chr6_34160527_R | GTCTCGTGGGCTCGGACCCTAACTGTGCTTCGGTG | 59.9 | 0.08 |
| mm4_intergenic_Marcksl1-ps4|Akr1c12_chr13_4254175_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Marcksl1-ps4|Akr1c12_chr13_4254175_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Ankrd45|Prdx6_chr1_161232933_F | TCGTCGGCAGCGTCGCTTAGTTCTTCTGCTCCTTGC | 59.5 | 0.08 |
| mm4_intergenic_Ankrd45|Prdx6_chr1_161232933_R | GTCTCGTGGGCTCGGAGAGAAGGGCACGGCTAGTA | 60.0 | 0.08 |
| mm4_intergenic_Zfp316|Zfp853_chr5_143273693_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Zfp316|Zfp853_chr5_143273693_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Msra_chr14_64159771_F | TCGTCGGCAGCGTCGGGCATGAGATCCTCACTGG | 59.8 | 0.07 |
| mm4_intron_Msra_chr14_64159771_R | GTCTCGTGGGCTCGGAGCAGCATCCTGTGGATAGC | 59.8 | 0.07 |
| mm4_exon_Snhg11/Gm25187_chr2_158378198_F | TCGTCGGCAGCGTCTGACTGCTCTAAACTTCTGCGT | 59.9 | 0.07 |
| mm4_exon_Snhg11/Gm25187_chr2_158378198_R | GTCTCGTGGGCTCGGTCTGCCTGCACTACCAATGG | 60.0 | 0.07 |
| mm4_intron_Epcam_chr17_87641199_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Epcam_chr17_87641199_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gsg1|Pbp2_chr6_135271464_F | TCGTCGGCAGCGTCGTTAACATTTGGCGGCTGCT | 59.7 | 0.07 |
| mm4_intergenic_Gsg1|Pbp2_chr6_135271464_R | GTCTCGTGGGCTCGGACTCGAATGTGTCAGAGGAGG | 59.1 | 0.07 |
| mm4_exon_E2f3_chr13_29984164_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_exon_E2f3_chr13_29984164_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm3_intron_Col18a1_chr10_77056868_F | TCGTCGGCAGCGTCACGGGGAGAAAGCTCAATCG | 60.1 | 0.07 |
| mm3_intron_Col18a1_chr10_77056868_R | GTCTCGTGGGCTCGGTGGGTGAGGCCTCCAAGTAA | 60.4 | 0.07 |
| mm4_intergenic_Vwde|Gm25737_chr6_13459127_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Vwde|Gm25737_chr6_13459127_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Ccdc83|n-R5s155_chr7_90266271_F | TCGTCGGCAGCGTCGTGCAGTTCAGCCTCATCCT | 60.0 | 0.06 |
| mm4_intergenic_Ccdc83|n-R5s155_chr7_90266271_R | GTCTCGTGGGCTCGGCTTGGAAGTGAGTCGGAGGC | 60.3 | 0.06 |
| mm4_exon_Kcnk3_chr5_30588276_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Kcnk3_chr5_30588276_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intron_Rasa3_chr8_13610030_F | TCGTCGGCAGCGTCCAGCTGGCTCAGGCATATGA | 59.8 | 0.06 |
| mm4_intron_Rasa3_chr8_13610030_R | GTCTCGTGGGCTCGGTAGGTAGAGTGGCAGCTGGT | 59.9 | 0.06 |
| mm4_intergenic_Gm21943|Gm21724_chrY_58258853_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21943|Gm21724_chrY_58258853_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21918|Gm21832_chrY_60800024_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21918|Gm21832_chrY_60800024_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21856|Gm21783_chrY_44880257_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21856|Gm21783_chrY_44880257_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21843|1700040F15Rik_chrY_59942071_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21843|1700040F15Rik_chrY_59942071_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21822|Gm21763_chrY_19413846_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21822|Gm21763_chrY_19413846_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21803|Gm20837_chrY_90103478_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21803|Gm20837_chrY_90103478_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21783|Gm21779_chrY_45285350_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21783|Gm21779_chrY_45285350_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21779|Gm21247_chrY_45643543_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21779|Gm21247_chrY_45643543_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21767|Gm20822_chrY_14701513_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21767|Gm20822_chrY_14701513_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21751|Gm21271_chrY_48009652_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21751|Gm21271_chrY_48009652_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21739|Gm21856_chrY_44654403_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21739|Gm21856_chrY_44654403_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21679|Gm21529_chrY_30250762_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21679|Gm21529_chrY_30250762_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21679|Gm21529_chrY_29987172_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21679|Gm21529_chrY_29987172_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21633|Gm21745_chrY_33918293_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21633|Gm21745_chrY_33918293_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21599|Gm21810_chrY_32995329_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21599|Gm21810_chrY_32995329_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21572|Gm21753_chrY_32014227_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21572|Gm21753_chrY_32014227_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21539|Gm21908_chrY_31122167_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21539|Gm21908_chrY_31122167_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21247|Gm21256_chrY_47080790_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm21247|Gm21256_chrY_47080790_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm20901|Gm21865_chrY_39884989_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm20901|Gm21865_chrY_39884989_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm12904|1700121C08Rik_chr4_123850629_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm12904|1700121C08Rik_chr4_123850629_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_BC048507|Mtrr_chr13_68360971_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_BC048507|Mtrr_chr13_68360971_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_AC201846.1|Gm20910_chrY_20230275_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_AC201846.1|Gm20910_chrY_20230275_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_AC175117.1|Hnf4g_chr3_3262243_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_AC175117.1|Hnf4g_chr3_3262243_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Gja10_chr4_32601088_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Gja10_chr4_32601088_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_intergenic_Ccnd1|Tpcn2_chr7_145130079_F | TCGTCGGCAGCGTCTGGCAAACCATTTCAAGGAAGC | 60.2 | 0.04 |
| mm3_intergenic_Ccnd1|Tpcn2_chr7_145130079_R | GTCTCGTGGGCTCGGAGAACTTGCTCTGCCTTCCC | 59.9 | 0.04 |
| mm4_intron_Tcf25_chr8_123396515_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Tcf25_chr8_123396515_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Ssx9|Ssxb5_chrX_8768558_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Ssx9|Ssxb5_chrX_8768558_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm8032|Gm17204_chr14_42571653_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm8032|Gm17204_chr14_42571653_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm17165|Gm17038_chr14_42231874_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm17165|Gm17038_chr14_42231874_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13248|Gm21411_chr4_146821089_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13248|Gm21411_chr4_146821089_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13150|C230088H06Rik_chr4_146998260_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13150|C230088H06Rik_chr4_146998260_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13051|Gm26573_chr4_146133335_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm13051|Gm26573_chr4_146133335_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Unc45a_chr7_80334820_F | TCGTCGGCAGCGTCCTGGTTTTCCACACCCAGGA | 59.8 | 0.03 |
| mm4_exon_Unc45a_chr7_80334820_R | GTCTCGTGGGCTCGGAGAGCCTCTGTCCGACTCTT | 59.9 | 0.03 |
| mm4_intergenic_Olig2|Olig1_chr16_91256283_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Olig2|Olig1_chr16_91256283_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Pkd2_chr5_104459986_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Pkd2_chr5_104459986_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Ccdc25|Scara3_chr14_65890904_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Ccdc25|Scara3_chr14_65890904_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Scmh1_chr4_120487678_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Scmh1_chr4_120487678_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm3_intergenic_Sox13|Gm23939_chr1_133492249_F | TCGTCGGCAGCGTCAAGTTCTACTTGCCCAGCCC | 59.9 | 0.03 |
| mm3_intergenic_Sox13|Gm23939_chr1_133492249_R | GTCTCGTGGGCTCGGAGGGTCTCTTGCAGCACTTC | 59.9 | 0.03 |
| mm4_exon_Uso1_chr5_92137990_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Uso1_chr5_92137990_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Dpysl4_chr7_139097799_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Dpysl4_chr7_139097799_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Nfia_chr4_98023042_F | TCGTCGGCAGCGTCTGATGGACACAAAGCCCCTC | 59.9 | 0.02 |
| mm4_intron_Nfia_chr4_98023042_R | GTCTCGTGGGCTCGGGTTCAGGCAGCCCCTATAGC | 60.2 | 0.02 |
| mm4_intergenic_Igsf3|Atp1a1_chr3_101481907_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Igsf3|Atp1a1_chr3_101481907_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_D10Bwg1379e_chr10_18625210_F | TCGTCGGCAGCGTCCAGCACTGTTCCCACTCAGA | 59.6 | 0.02 |
| mm4_exon_D10Bwg1379e_chr10_18625210_R | GTCTCGTGGGCTCGGCCAGGAGCTTGTTCGGGAAT | 60.0 | 0.02 |
| mm4_intron_Lgr6_chr1_135021548_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Lgr6_chr1_135021548_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Tbx4|Gm11443_chr11_85916923_F | TCGTCGGCAGCGTCAGATGGTACCCTGCCAGGAT | 60.0 | 0.01 |
| mm4_intergenic_Tbx4|Gm11443_chr11_85916923_R | GTCTCGTGGGCTCGGTACTGAGCCGAGTAGGTGCT | 60.0 | 0.01 |
| mm4_intergenic_Gm24006|Gm23075_chr19_35205544_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm24006|Gm23075_chr19_35205544_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm13378|Gm13327_chr2_21245876_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm13378|Gm13327_chr2_21245876_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_52313996 |
AACCGCCAGAGAAGATGGTGCCCCACGGTTGCCTGAGCCCGCGAGCCGGCCCTCCGACTTCCCGGGAGCGTGGCGGGGGA GGCCAGGAGGAGGAGCCGGTCGATGGACTAGCAGGCAG |
| mm3_intergenic_Gm22983|1700057H15Rik_chr4_124396025 |
GGAAGTGGCAGGATTCCACAGGAGACCGGACACTCAAGATGGGCACCAGCCTGACCCGCCAGCCAGCTCTCTGACTTCCC CGGGACACACTTGAGTGGCAGGA |
| mm4_intron_Camk2g_chr14_20784763 |
CTGGCAGACACGGAATCTGAATGCACCAACTGAACCCTCCCTCCGACTTCTCAGGAGTCCCGTGAGTTCCTCCACTGCCA TCCAGAGGTGAAGCCTGTGCATGTCCACCGTCTGCAGACGAAGGCAAGCAAGAGG |
| mm4_intergenic_Il22|Iltifb_chr10_118267085 |
GAGTACATTAACGGCGGTGCCCTGTGGGGCATCATTAAGAGCGAGAGCCTGGACAGCCAGTACCTGTGAAGTCAGAGGGT CAGCTTTGGCAAGGACACTGCATCAGGGATGGCCTACCTCCATT |
| mm4_intron_Prickle1_chr15_93595065 |
ACCAAGTGCGTCAGGCTTAAGACTCTGAGTCCTACAGGGGCGGGCTGGGACTCAAAGCTGTGCCAGCCGTCCCCACGACC TCCCGGGTACACCCCCCGTCTTCAGTCTCCCGAACGCAATCT |
| mm3_intergenic_Chsy1/Gm26827|Lrrk1_chr7_66196776 |
GCTGGGTGGCTGATAAGGTTATCTGGGGACTGTTTCTGGCAGTTCAAGTGCCTGTTGTACAACTTGGGGCTGGGGAAGTC GGAGGGCTGGGCAGGGCGGGGACTTCGTCGTCTTAGAGCTTGCC |
| mm4_exon_Ninl_chr2_151009229 | CTCTCCCACGCCCTACTCACCTGGGGAGTGGGAGGCTCGGCTCTCTGAACGCTGAGTTCAGGATGCG |
| mm2_intergenic_Col18a1|Gm10941_chr10_77208673 |
AGTCCTCTCAGTGGAGTCTCCAAGTAAAATAACAAATAGCAACTGACAGAGATGACATCACTGGATTGGATATTCACAGC ATCCTGCAGAAACTGACTGGGGAAGTCGGAGCACCGGCTGGAGTTCCCGATTGAGCTTTC |
| mm4_intergenic_Gm11997|Vwc2_chr11_10948165 |
TCGCAGAGCCAAGGGTATTCTTCTGACCAAGAGACCTAAAGAGTAGCAAAGCACTATTTACTTTTCTAATGTTGCCAGGG AAGTGGGAGGCAGGGCTCAAAATTGATGATGAGGAAGGAGTGAATATTCAGTGGCCT |
| mm4_exon_Slc35b4_chr6_34160527 |
TTGAACAGGACAACGTGGTCATAAATATCAGAGGCCAAGAAGATGAACCCGGGAAGTGGAAGGGCGTGCTGTGGGAAGAA ACGGATCACACAGAGGTAACTGCAAACTCACCGAAGCACAGTTAGGGT |
| mm4_intergenic_Ankrd45|Prdx6_chr1_161232933 |
GCTTAGTTCTTCTGCTCCTTGCATCCCGGGAGGCCGGTGGGCAGGCTGGTCTTAAGTAGTGATCCTCAGTATAGGTGTGA AGGCAATCCAAGGCTTACTAGCCGTGCCCTTCTCT |
| mm4_intron_Msra_chr14_64159771 |
GGGCATGAGATCCTCACTGGAAGCGCCTGCAGCTCTCAGGGGTGTTTAGGTCACTGCAGGCAGGTCAGGGGTAAGCCAGC CCTCCTGCTTTCCCGGGAGGGTGGTGACTGACCACAGGGCTATCCACAGGATGCTGCT |
| mm4_exon_Snhg11/Gm25187_chr2_158378198 |
TGACTGCTCTAAACTTCTGCGTTTGACAGCAGGCCCTCCACCTTCTCTGGCCCTGCGTTCGTAAGTGATCAGGGATACCC ATGCCCTGACCATTGGTAGTGCAGGCAGA |
| mm4_intergenic_Gsg1|Pbp2_chr6_135271464 |
GTTAACATTTGGCGGCTGCTTTCAGGAACAGGTACACGTGTGAAATCACCTCATTTTGTCTCACCAGTTTTGATGTTACC TGGGAGGTCAGAGGGCAGGGTGGTTCTGTGATCCTCCTCTGACACATTCGAGT |
| mm3_intron_Col18a1_chr10_77056868 |
ACGGGGAGAAAGCTCAATCGGGAACTCCAGCCGGTGCCCCGACTTCCCCAGTCAGTTTCTGCTGGAAGCTCTGAGTGCCT AGTTTAGTGATGGCATTTCTATTGGTTGCTGTTTTCTGTTTTACTTGGAGGCCTCACCCA |
| mm4_intergenic_Ccdc83|n-R5s155_chr7_90266271 |
GTGCAGTTCAGCCTCATCCTGAAGGCAGTCTATTAAAGCCTCCCATTTCTCTCATTACACTCCAGTAATTTTCTTTTTTT GGCCTGGGAAGTCAGAAGCCAGGCTCTTTTAGGCCTCCGACTCACTTCCAAG |
| mm4_intron_Rasa3_chr8_13610030 |
CAGCTGGCTCAGGCATATGAAACAAGCAGAGAAGAGCAGGCCCTCCTGCTACCCTGGTTCAGTCTTCCACCAGCTGCCAC TCTACCTA |
| mm3_intergenic_Ccnd1|Tpcn2_chr7_145130079 |
TGGCAAACCATTTCAAGGAAGCCCGGGGCAGTGGGAGGGCTGGCTTCCTCCCTCCCTCCCCTCCTCCTCTTCTGCTGGGT CGATGCACAGCTCCTCCCTGAGGCAGATTTCCCATGGGAAGGCAGAGCAAGTTCT |
| mm4_exon_Unc45a_chr7_80334820 |
CTGGTTTTCCACACCCAGGATGGAGACGACTCTCCGAGTTCCCAGGACACTCAGGGTTGCCACTGTCTAAGGAGGGAAAA GAGTCGGACAGAGGCTCT |
| mm3_intergenic_Sox13|Gm23939_chr1_133492249 |
AAGTTCTACTTGCCCAGCCCTAATCTCCCACTCTCCATTGTCTTCCACTCTCCGTGGCCCTGGGCAGTCGGAGGGCAGGC GGAAGTGCTGCAAGAGACCCT |
| mm4_intron_Nfia_chr4_98023042 |
TGATGGACACAAAGCCCCTCTCAGTGAGCCCAGCCCTCCCAGCCGGCCCTGCCTCTTCTCTGGCATATATGGGGGCTATA GGGGCTGCCTGAAC |
| mm4_exon_D10Bwg1379e_chr10_18625210 | CAGCACTGTTCCCACTCAGACTACCTCCCCGGAAGTCCGAGGTCCGGCCACGGCTACATTCCCGAACAAGCTCCTGG |
| mm4_intergenic_Tbx4|Gm11443_chr11_85916923 |
AGATGGTACCCTGCCAGGATGCTNNNNNNNNNNNNNNNNNNNNNTGGAACTCGGAGGGCTGGGTGTGCGTTCCTAGATTC TCTCTAAGCACCTACTCGGCTCAGTA |