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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_52314187_F | TCGTCGGCAGCGTCGGCAACCTAGTAGCTCAGACA | 59.1 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52314187_R | GTCTCGTGGGCTCGGACCTTTGCTGTGCTGGTACT | 59.5 | 1.00 |
| mm4_intergenic_Gm13018|Prdm2_chr4_142643137_F | Primer3: not found at this Tm | N.d. | 0.45 |
| mm4_intergenic_Gm13018|Prdm2_chr4_142643137_R | Primer3: not found at this Tm | N.d. | 0.45 |
| mm4_intron_4931429P17Rik_chr13_47997068_F | Primer3: not found at this Tm | N.d. | 0.39 |
| mm4_intron_4931429P17Rik_chr13_47997068_R | Primer3: not found at this Tm | N.d. | 0.39 |
| mm4_intron_Pds5a_chr5_65657282_F | TCGTCGGCAGCGTCAAGGACTCACTACATGGAAGAAA | 57.1 | 0.31 |
| mm4_intron_Pds5a_chr5_65657282_R | GTCTCGTGGGCTCGGTCTTTCACTAAACTCAGGAGGAAA | 57.5 | 0.31 |
| mm4_intergenic_Gm12374|Gm12375_chr4_37391114_F | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intergenic_Gm12374|Gm12375_chr4_37391114_R | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intergenic_Ranbp6|Il33_chr19_29899439_F | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_Ranbp6|Il33_chr19_29899439_R | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intron_Ncoa6_chr2_155448891_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intron_Ncoa6_chr2_155448891_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm3_intergenic_Gm25248|Gm26326_chr12_42631527_F | Primer3: not found at this Tm | N.d. | 0.25 |
| mm3_intergenic_Gm25248|Gm26326_chr12_42631527_R | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Kctd1|Aqp4_chr18_15324874_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Kctd1|Aqp4_chr18_15324874_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm3_intron_Ncr1_chr7_4341120_F | TCGTCGGCAGCGTCTCCCAGTCCTAAGTGATACCCT | 59.4 | 0.20 |
| mm3_intron_Ncr1_chr7_4341120_R | GTCTCGTGGGCTCGGGCCCCTCTGGTGTTCCAAAT | 60.2 | 0.20 |
| mm4_intron_Padi1_chr4_140829773_F | TCGTCGGCAGCGTCGGGCGGTGTCACTAATCACA | 60.0 | 0.18 |
| mm4_intron_Padi1_chr4_140829773_R | GTCTCGTGGGCTCGGAGCTTGGAAGGACCTGCAAA | 59.8 | 0.18 |
| mm3_intergenic_Cep120|Csnk1g3_chr18_53815627_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm3_intergenic_Cep120|Csnk1g3_chr18_53815627_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intergenic_Smox|Adra1d_chr2_131531954_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intergenic_Smox|Adra1d_chr2_131531954_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intergenic_Mir31|Gm12603_chr4_88955082_F | TCGTCGGCAGCGTCAATCTTTCCCATGATTCCCTGT | 57.3 | 0.14 |
| mm4_intergenic_Mir31|Gm12603_chr4_88955082_R | GTCTCGTGGGCTCGGTCAACAGTTGGTTTCCTCAGA | 57.0 | 0.14 |
| mm4_intron_Ldb2_chr5_44782200_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Ldb2_chr5_44782200_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Dsc3_chr18_19975029_F | TCGTCGGCAGCGTCTGAGGCATCACTAGCCTGTA | 57.8 | 0.13 |
| mm4_intron_Dsc3_chr18_19975029_R | GTCTCGTGGGCTCGGTTGTGGAACAGAAGGCAGCA | 60.1 | 0.13 |
| mm3_intergenic_Gm5530|mmu-mir-6344_chr1_81848150_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm3_intergenic_Gm5530|mmu-mir-6344_chr1_81848150_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intron_Nfat5_chr8_107336790_F | TCGTCGGCAGCGTCTGTGTGAGCCACTGCAAAGA | 60.1 | 0.12 |
| mm4_intron_Nfat5_chr8_107336790_R | GTCTCGTGGGCTCGGTGTTCCTCCATCTGTTCCAACT | 59.2 | 0.12 |
| mm4_intergenic_AC166333.1|Scg2_chr1_79246296_F | TCGTCGGCAGCGTCTCCAAGCGAATTAGGATAGGGA | 58.4 | 0.11 |
| mm4_intergenic_AC166333.1|Scg2_chr1_79246296_R | GTCTCGTGGGCTCGGTGTCACCTACACTGATCTCATGG | 59.5 | 0.11 |
| mm3_intergenic_Gm8609|Gm22543_chr16_40213610_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm3_intergenic_Gm8609|Gm22543_chr16_40213610_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Anapc10|Hhip_chr8_79849810_F | TCGTCGGCAGCGTCGCCTGTGAGTGAATTTGGCA | 59.0 | 0.11 |
| mm4_intergenic_Anapc10|Hhip_chr8_79849810_R | GTCTCGTGGGCTCGGCCGTCAAGGTCCAGCTTGAT | 60.0 | 0.11 |
| mm4_intron_Bcas3_chr11_85508805_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Bcas3_chr11_85508805_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Zfp202|Scn3b_chr9_40244717_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Zfp202|Scn3b_chr9_40244717_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Maf/Gm15655|Dynlrb2_chr8_115903677_F | TCGTCGGCAGCGTCTCCCATTCGTGTTAACTGGGA | 59.0 | 0.09 |
| mm4_intergenic_Maf/Gm15655|Dynlrb2_chr8_115903677_R | GTCTCGTGGGCTCGGACCATCGCATTGAACATGGA | 57.8 | 0.09 |
| mm3_intergenic_Gm26042|Tbx19_chr1_165071385_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm3_intergenic_Gm26042|Tbx19_chr1_165071385_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm4986|Gm14643_chrX_40140397_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm4986|Gm14643_chrX_40140397_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm27023|Gm25800_chr17_62358034_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm27023|Gm25800_chr17_62358034_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm11997|Vwc2_chr11_10754453_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm11997|Vwc2_chr11_10754453_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Gm12295_chr11_65365275_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Gm12295_chr11_65365275_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Gm11403|Hmgb1-rs18_chr4_67282441_F | TCGTCGGCAGCGTCACAATGTCTACTTTAAAACCCAGGT | 58.6 | 0.08 |
| mm4_intergenic_Gm11403|Hmgb1-rs18_chr4_67282441_R | GTCTCGTGGGCTCGGGGGCAAGTACATTCACATCGC | 59.9 | 0.08 |
| mm4_intron_Rcl1_chr19_29104994_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Rcl1_chr19_29104994_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Akt2-ps|Gm12663_chr11_16562010_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Akt2-ps|Gm12663_chr11_16562010_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Csl|Kitl_chr10_99811149_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Csl|Kitl_chr10_99811149_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Cyp2j9_chr4_96574300_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Cyp2j9_chr4_96574300_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm6754|Gm14658_chrX_63083141_F | TCGTCGGCAGCGTCACAGACCAATATTCTTTCTGCTCT | 57.9 | 0.06 |
| mm4_intergenic_Gm6754|Gm14658_chrX_63083141_R | GTCTCGTGGGCTCGGACCAATAGTAGCATGATTAGCCCT | 59.4 | 0.06 |
| mm4_intron_Prdm5_chr6_65804467_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Prdm5_chr6_65804467_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm9867|Gm13016_chr4_140337724_F | TCGTCGGCAGCGTCAGGGAGAGGATGAGATGGGG | 59.8 | 0.05 |
| mm4_intergenic_Gm9867|Gm13016_chr4_140337724_R | GTCTCGTGGGCTCGGTGTCCCATGATGCTTTGCTT | 58.0 | 0.05 |
| mm4_intergenic_Gm24298|4921513I03Rik_chr10_120680438_F | TCGTCGGCAGCGTCCCCCTACAAATCTGACTGTGCT | 60.0 | 0.05 |
| mm4_intergenic_Gm24298|4921513I03Rik_chr10_120680438_R | GTCTCGTGGGCTCGGAGGAAACATTAAATGCCAAGGTCA | 59.1 | 0.05 |
| mm4_intron_Colec12_chr18_9841777_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Colec12_chr18_9841777_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Bambi|Gm23643_chr18_3571627_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Bambi|Gm23643_chr18_3571627_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Unc5d|4933433F19Rik_chr8_30333038_F | TCGTCGGCAGCGTCTGTTGTGCTGCTACTTAGGCA | 59.9 | 0.04 |
| mm4_intergenic_Unc5d|4933433F19Rik_chr8_30333038_R | GTCTCGTGGGCTCGGAGTTGATCTCTGTTATCAATGCAGA | 58.3 | 0.04 |
| mm4_intergenic_9930014A18Rik|A1bg_chr15_60843889_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_9930014A18Rik|A1bg_chr15_60843889_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm3_intergenic_Gm13498|Rnd3_chr2_50932413_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm3_intergenic_Gm13498|Rnd3_chr2_50932413_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Lrp12|9330182O14Rik_chr15_40014577_F | TCGTCGGCAGCGTCTCGGCCACAGGAAATCGAAA | 59.9 | 0.04 |
| mm4_intergenic_Lrp12|9330182O14Rik_chr15_40014577_R | GTCTCGTGGGCTCGGAGCACAATCGTCACCAAGGA | 59.6 | 0.04 |
| mm4_intergenic_Gm12026|Gm12027_chr11_19490456_F | TCGTCGGCAGCGTCAGTGACTGCCGTCTAAGGGA | 60.2 | 0.04 |
| mm4_intergenic_Gm12026|Gm12027_chr11_19490456_R | GTCTCGTGGGCTCGGCATCCACTGGCACCCTGTAG | 60.1 | 0.04 |
| mm4_intergenic_Gm7656|Gm24880_chr7_70693055_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm7656|Gm24880_chr7_70693055_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Myb|Gm2467_chr10_21256305_F | TCGTCGGCAGCGTCTGGACACAGGAACACACATTGA | 60.0 | 0.03 |
| mm4_intergenic_Myb|Gm2467_chr10_21256305_R | GTCTCGTGGGCTCGGTCTTGGTAGGGAATCTGCACA | 58.7 | 0.03 |
| mm4_intergenic_Gm23477|Gm10780_chr3_70491482_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm23477|Gm10780_chr3_70491482_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Srgap3_chr6_112905727_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Srgap3_chr6_112905727_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm23891|1700018B24Rik_chr3_48373736_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Gm23891|1700018B24Rik_chr3_48373736_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Mnat1_chr12_73270505_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Mnat1_chr12_73270505_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Mall|Nphp1_chr2_127738651_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Mall|Nphp1_chr2_127738651_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_AC140331.1|Dsp/Gm10129_chr13_38120351_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_AC140331.1|Dsp/Gm10129_chr13_38120351_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Olfr571|Olfr572_chr7_102926198_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Olfr571|Olfr572_chr7_102926198_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm9621|Gm24200_chr9_94087095_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm9621|Gm24200_chr9_94087095_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm26108|Pou3f4_chrX_110772674_F | TCGTCGGCAGCGTCTGTTGAAGAACAAAGCTACAGTTCA | 59.3 | 0.02 |
| mm4_intergenic_Gm26108|Pou3f4_chrX_110772674_R | GTCTCGTGGGCTCGGAGTGCAGTGTTTGACAAGCA | 58.5 | 0.02 |
| mm4_intron_Gm5432_chr12_15854173_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Gm5432_chr12_15854173_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Slc6a8_chrX_73675690_F | TCGTCGGCAGCGTCTTGCCCTGGTTGGAGGAATC | 59.9 | 0.02 |
| mm4_exon_Slc6a8_chrX_73675690_R | GTCTCGTGGGCTCGGATGGCGGCTCACCTTTGAAT | 60.3 | 0.02 |
| mm4_intergenic_Gm15523|Asb2_chr12_103348332_F | TCGTCGGCAGCGTCTCTCCTGCTAGTCCTGGGAC | 60.0 | 0.02 |
| mm4_intergenic_Gm15523|Asb2_chr12_103348332_R | GTCTCGTGGGCTCGGGTACAAGAGGGTGGCTGCTT | 59.9 | 0.02 |
| mm4_intergenic_Gm17192|Gm24164_chr16_62461735_F | TCGTCGGCAGCGTCACAGGACTTTGCTGCAAGGT | 60.1 | 0.02 |
| mm4_intergenic_Gm17192|Gm24164_chr16_62461735_R | GTCTCGTGGGCTCGGGGTCATAGTGAGGAAATCTAGTGCA | 60.1 | 0.02 |
| mm4_intergenic_3100002H09Rik|RP23-230F2.8_chr4_124623947_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_3100002H09Rik|RP23-230F2.8_chr4_124623947_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Grm7_chr6_111280713_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Grm7_chr6_111280713_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Gm25659|Gm25644_chr19_51206459_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm25659|Gm25644_chr19_51206459_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Galntl6_chr8_58595093_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Galntl6_chr8_58595093_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Asb13|Calml3_chr13_3792937_F | TCGTCGGCAGCGTCAGACCACTTAGTTCTTTCTGGGA | 58.7 | 0.01 |
| mm4_intergenic_Asb13|Calml3_chr13_3792937_R | GTCTCGTGGGCTCGGCCAAGATCGCATCCAGGACA | 59.8 | 0.01 |
| mm4_intron_Fkbp14_chr6_54587904_F | TCGTCGGCAGCGTCCCTGTCTCTTCAGATATGGCCA | 59.2 | 0.01 |
| mm4_intron_Fkbp14_chr6_54587904_R | GTCTCGTGGGCTCGGGGGCTGTCGGATGATGCTTA | 59.8 | 0.01 |
| mm4_intergenic_Gm11263|Gm11409_chr4_79391122_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm11263|Gm11409_chr4_79391122_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm609|Gm6903_chr16_45524920_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm609|Gm6903_chr16_45524920_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm2_intergenic_Gm25672|Barhl2_chr5_106442643_F | TCGTCGGCAGCGTCTTTTCCAGTCACTGCAGCGA | 60.1 | 0.01 |
| mm2_intergenic_Gm25672|Barhl2_chr5_106442643_R | GTCTCGTGGGCTCGGAAATTGCTGCAATGCTCGGG | 60.1 | 0.01 |
| mm4_intron_Ercc6_chr14_32567899_F | TCGTCGGCAGCGTCTTGCATAGGCCTCAAGTGCA | 59.9 | 0.01 |
| mm4_intron_Ercc6_chr14_32567899_R | GTCTCGTGGGCTCGGGACCTATCCTCCATGCTCGC | 60.0 | 0.01 |
| mm4_intron_Adamtsl1_chr4_86191364_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Adamtsl1_chr4_86191364_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm5472|Gm26063_chr15_46089132_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm5472|Gm26063_chr15_46089132_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Kcnb2|Gm25227_chr1_15649542_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Kcnb2|Gm25227_chr1_15649542_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23477|Gm10780_chr3_70466100_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23477|Gm10780_chr3_70466100_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gng4|B3galnt2_chr13_13916956_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gng4|B3galnt2_chr13_13916956_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Impad1|Gm11779_chr4_4842104_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Impad1|Gm11779_chr4_4842104_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26063|Gm23562_chr15_46223209_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm26063|Gm23562_chr15_46223209_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Zxdb|Gm7061_chrX_94750596_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Zxdb|Gm7061_chrX_94750596_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Nup205_chr6_35226802_F | TCGTCGGCAGCGTCAGCTTTCACGGAATACCATGGA | 59.7 | 0.00 |
| mm4_intron_Nup205_chr6_35226802_R | GTCTCGTGGGCTCGGAAAACGCCAAACAAGTGTTAATTAA | 57.1 | 0.00 |
| mm3_intergenic_Pigg|Gm10419_chr5_108365110_F | TCGTCGGCAGCGTCAAGCAGAGGCAAGACCAGTC | 59.9 | 0.00 |
| mm3_intergenic_Pigg|Gm10419_chr5_108365110_R | GTCTCGTGGGCTCGGTGCCCTCTACAGCTAGGACA | 59.6 | 0.00 |
| mm4_intergenic_RP23-452E7.2|Irak1bp1_chr9_82710281_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_RP23-452E7.2|Irak1bp1_chr9_82710281_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Kcnc2|Atxn7l3b/Gm26596_chr10_112735015_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Kcnc2|Atxn7l3b/Gm26596_chr10_112735015_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Rnf216_chr5_143069194_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Rnf216_chr5_143069194_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Tra2b|Gm15776_chr16_22268274_F | TCGTCGGCAGCGTCTCCTGGAGGTAATGTCATGGA | 57.8 | 0.00 |
| mm4_intergenic_Tra2b|Gm15776_chr16_22268274_R | GTCTCGTGGGCTCGGACACACACACAACCTGAAAGA | 57.9 | 0.00 |
| mm4_intergenic_Gm3376|Gm8521_chrY_3782944_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm3376|Gm8521_chrY_3782944_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm21704|Gm21708_chrY_3399487_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm21704|Gm21708_chrY_3399487_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm21677|Gm21693_chrY_3327049_F | TCGTCGGCAGCGTCGGCAGTAAAACTTACTATTTGCCT | 57.4 | 0.00 |
| mm4_intergenic_Gm21677|Gm21693_chrY_3327049_R | GTCTCGTGGGCTCGGTGGAGGCAGGTACTAAAGTCT | 57.8 | 0.00 |
| mm4_intergenic_Gm16501|Rbmy/Gm10256_chrY_2785468_F | TCGTCGGCAGCGTCGGCAGTAAAACTTACTATTTGCCT | 57.4 | 0.00 |
| mm4_intergenic_Gm16501|Rbmy/Gm10256_chrY_2785468_R | GTCTCGTGGGCTCGGTGGAGGCAGGTACTAAAGTCT | 57.8 | 0.00 |
| mm4_intergenic_Gm10352|Gm21677_chrY_3295275_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm10352|Gm21677_chrY_3295275_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Rbmy_chrY_2841531_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Rbmy_chrY_2841531_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Gm21704_chrY_3367446_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Gm21704_chrY_3367446_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Gm10352_chrY_2911883_F | TCGTCGGCAGCGTCTGGAGGCAGGTACTAAAGTCT | 57.8 | 0.00 |
| mm4_exon_Gm10352_chrY_2911883_R | GTCTCGTGGGCTCGGGGCAGTAAAACTTACTATTTGCCT | 57.4 | 0.00 |
| mm4_exon_Gm10256_chrY_2873169_F | TCGTCGGCAGCGTCTGGAGGCAGGTACTAAAGTCT | 57.8 | 0.00 |
| mm4_exon_Gm10256_chrY_2873169_R | GTCTCGTGGGCTCGGGGCAGTAAAACTTACTATTTGCCT | 57.4 | 0.00 |
| mm4_intergenic_Gm15078|Gm15079_chrX_141379479_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm15078|Gm15079_chrX_141379479_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_4930594M17Rik|Gm26012_chr18_81806285_F | TCGTCGGCAGCGTCGCGGTAATGGCTGCTTAACC | 59.6 | 0.00 |
| mm4_intergenic_4930594M17Rik|Gm26012_chr18_81806285_R | GTCTCGTGGGCTCGGCAGCAGGAGATACAGCGGTG | 60.5 | 0.00 |
| mm4_intron_Zfand6_chr7_84634467_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Zfand6_chr7_84634467_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Dpyd_chr3_119044035_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Dpyd_chr3_119044035_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ank1_chr8_22986981_F | TCGTCGGCAGCGTCAAGAGGGCTGAACATCCGTG | 60.0 | 0.00 |
| mm4_intron_Ank1_chr8_22986981_R | GTCTCGTGGGCTCGGCAACACACCCAGAGAAGCCT | 59.8 | 0.00 |
| mm4_intergenic_Gm14888|4930550L24Rik_chrX_58870231_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm14888|4930550L24Rik_chrX_58870231_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm12009|Gm24707_chr11_15396467_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm12009|Gm24707_chr11_15396467_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_52314187 |
GGCAACCTAGTAGCTCAGACACCGAATCGGATTTCTATGAAGAAATCGAGGTGAGCTGCACCCCAGACTGCGCCACCGGG AACGCCGAGTACCAGCACAGCAAAGGT |
| mm4_intron_Pds5a_chr5_65657282 |
AAGGACTCACTACATGGAAGAAATTTTAAAGTCCCAATCTGATTTCTATTTAAAAATTATGTTTTTTCCTCCTGAGTTTA GTGAAAGA |
| mm3_intron_Ncr1_chr7_4341120 |
TCCCAGTCCTAAGTGATACCCTTGATAGTAATGGGAAAAGATAGCAAAAAATATCTTCTTGTTAGAAATCCAATTGGGCA TTTGGAACACCAGAGGGGC |
| mm4_intron_Padi1_chr4_140829773 |
GGGCGGTGTCACTAATCACAGAAATGACCATGCTTTGGCTCTACCTAAGACCCACTCTGATCTCTATGGAGAAGAGTTCT TCATTCTGGCAGTCTCCTGGGCTTAACACTCACCAGGGGTTTGCAGGTCCTTCCAAGCT |
| mm4_intergenic_Mir31|Gm12603_chr4_88955082 |
AATCTTTCCCATGATTCCCTGTATAATCAAAATTTCAATTATTTCTGCTCCTTGTTTCCCAAATCGGACTTCACTCAAGA AAATCCCATAATTTGTTAGGACACATTTTCTTTCTGAGGAAACCAACTGTTGA |
| mm4_intron_Dsc3_chr18_19975029 |
TGAGGCATCACTAGCCTGTATTTCCTCTAATCAAAATCTACCAAGGGTCTTGTTTCTTCTTAGGAATCCATTTTGGGTTC TGATGATTTCTTCCTGAAAGATGTAATGCTGCCTTCTGTTCCACAA |
| mm4_intron_Nfat5_chr8_107336790 |
TGTGTGAGCCACTGCAAAGAGTGCTTGCTACCTAATAGGATTTCTCTGAAAATCAAGAATATAGACACACAGAAGCACAA ATTTTAGTTTCATTTTGGCCAATAGTTGGAACAGATGGAGGAACA |
| mm4_intergenic_AC166333.1|Scg2_chr1_79246296 |
TCCAAGCGAATTAGGATAGGGAATACAACATTCAAAGCCAGGTAGTATTTTTTTTTCCAATTTAACTTGTTCTAAAAAGA AATCTGATTAGGAGTTCCATGAGATCAGTGTAGGTGACA |
| mm4_intergenic_Anapc10|Hhip_chr8_79849810 |
GCCTGTGAGTGAATTTGGCAGTACTAGATTAAAAGATCAATTCCAAATGCTGATACCCAAATCAGATTTCTATGACAGAC CACACACAGCTCCCTGCTTTTCAGTGCAAAGGAAAGGCATCAAGCTGGACCTTGACGG |
| mm4_intergenic_Maf/Gm15655|Dynlrb2_chr8_115903677 |
TCCCATTCGTGTTAACTGGGAAACCTACAAATGTTCCCTTATTTGCAAACAAGGTCTTTGTACATAGCAATCCAATTGGG AACTCAAAATAACCTCCCAAGATGAGAATAGAATCCATGTTCAATGCGATGGT |
| mm4_intergenic_Gm11403|Hmgb1-rs18_chr4_67282441 |
ACAATGTCTACTTTAAAACCCAGGTAACTTTTTATGTATCATGATTGTCCTTATGTTCTTCAAACAAATCCAACTTGGAT ATTCACCAGAAACATGGCATTTTTTTCATTTAATTCAGCGATGTGAATGTACTTGCCC |
| mm4_intergenic_Gm6754|Gm14658_chrX_63083141 |
ACAGACCAATATTCTTTCTGCTCTTATATTAGCTATATAAAAACTACTCCCAATAGGATTCCTAATAAGAATTTTAGGGC TAATCATGCTACTATTGGT |
| mm4_intergenic_Gm9867|Gm13016_chr4_140337724 |
AGGGAGAGGATGAGATGGGGGTTTTCAGCTGTCTCTGGCCTATTCAGATTCCTATGAAGATCCCAATCTGTGTACTCTCT CACTAAGCAAAGCATCATGGGACA |
| mm4_intergenic_Gm24298|4921513I03Rik_chr10_120680438 |
CCCCTACAAATCTGACTGTGCTCCAAATAAGATTTCTATGAAAATAGTAATATGTATTAAAATTTACCTGGTACCCTAAA AAAGATTTCTGTTAAAATAGTCACATGTACTAAAATTGACCTTGGCATTTAATGTTTCCT |
| mm4_intergenic_Unc5d|4933433F19Rik_chr8_30333038 |
TGTTGTGCTGCTACTTAGGCAACTCATGTGTGCATTTATTTCCAGTAACATAACATTGGTGTTTCATAGAAATCTGACTG GGTAACATTCTGCATTGATAACAGAGATCAACT |
| mm4_intergenic_Lrp12|9330182O14Rik_chr15_40014577 |
TCGGCCACAGGAAATCGAAAGGCTGACAACTCCATGTCTCTATGGTTTTCTGGGCTCCAACCCCATTGGATTTCTAGGCA GAAAATTGTTACTCTTCATCCTTGGTGACGATTGTGCT |
| mm4_intergenic_Gm12026|Gm12027_chr11_19490456 |
AGTGACTGCCGTCTAAGGGAAAGTTATAGGTTGTCTTCAAAGAAATACCATTGGGAAGCACATGAATCTAGCTTCTTAAA AGATACCTTTTTGTTCCTCTCTACAGGGTGCCAGTGGATG |
| mm4_intergenic_Myb|Gm2467_chr10_21256305 | TGGACACAGGAACACACATTGATTTTTTTTTTCATAGAGATCGGTTTTGGTATGTGCAGATTCCCTACCAAGA |
| mm4_intergenic_Gm26108|Pou3f4_chrX_110772674 |
TGTTGAAGAACAAAGCTACAGTTCATTCTACATAGAAACCTGATATGGTTTAGATAATCATATATGACTTTTGCAATTAG GTACTTCATTATGCTTGTCAAACACTGCACT |
| mm4_exon_Slc6a8_chrX_73675690 |
TTGCCCTGGTTGGAGGAATCCCCATTTTCTTCCTGGAAATCTCATTGGGCCAGTTCATGAAGGCCGGCAGCATCAATGTC TGGAACATCTGTCCCCTATTCAAAGGTGAGCCGCCAT |
| mm4_intergenic_Gm15523|Asb2_chr12_103348332 |
TCTCCTGCTAGTCCTGGGACCTCCTATGTACGATTGTGTGTAATGTTGGGGACCACAGTAGAAGATCACCCTCTGGGTTT TCTATGAAGAAACACAGCAGGGTGAGCGTGGCTGGAAAGCAGCCACCCTCTTGTAC |
| mm4_intergenic_Gm17192|Gm24164_chr16_62461735 |
ACAGGACTTTGCTGCAAGGTAGGTTTGAGCATAGCCCCATCAGATTTCTCTGTAGAATTTGGGCACTATATTTCTAGATT GCACTAGATTTCCTCACTATGACC |
| mm4_intergenic_Asb13|Calml3_chr13_3792937 |
AGACCACTTAGTTCTTTCTGGGAAAGAAGAAGTATTCCTCACCTTCAACCTAATCTCTCTTTCTGAATTCAAAGACCCTA ATCTAATTACTATGAAGTATTTTTGTAACTGTCCTGGATGCGATCTTGG |
| mm4_intron_Fkbp14_chr6_54587904 |
CCTGTCTCTTCAGATATGGCCATTGGCCCAGATCAGATTTCAGTGAAGAAACTACCTCTGGGGCCAGCTGATAAGCATCA TCCGACAGCCC |
| mm2_intergenic_Gm25672|Barhl2_chr5_106442643 |
TTTTCCAGTCACTGCAGCGAGGAACTTATTATTTTCAAAATCATCCAACAGGATTTTCAAATCGGAATTCCATGAAGAAG TCAGACCCGAGCATTGCAGCAATTT |
| mm4_intron_Ercc6_chr14_32567899 |
TTGCATAGGCCTCAAGTGCACATTTCTTCTTAGAATTCTGACTAGGGGAGAAGGCCGTGATCAGTCACTGCTTTCCCTTA GTTGGCTCTTGTTAAATCTCTCTGCCACAGGCCCGGGAGCGAGCATGGAGGATAGGTC |
| mm4_intron_Nup205_chr6_35226802 |
AGCTTTCACGGAATACCATGGATGTGTAATTTCAAAGCAAAAACTTTCTGCATAGAATTCTGATCAGGATTAATTAACAC TTGTTTGGCGTTTT |
| mm3_intergenic_Pigg|Gm10419_chr5_108365110 |
AAGCAGAGGCAAGACCAGTCCTCAGCAGCTTGGCCCGTGGCTGGTGTCAGACCTCACTGTTCTTCATGGAAATGGGATTG GGCAACCTCCTCCTCTAGTGTCCTAGCTGTAGAGGGCA |
| mm4_intergenic_Tra2b|Gm15776_chr16_22268274 |
TCCTGGAGGTAATGTCATGGAAATGTTCCTCACTGTTCACAGTTGCCAAATTTTTTCAAATTTTCTTCATGGAAATTTGA TGGGGGTGTTGGTATTGTTTTACATTTGTTCTTTCAGGTTGTGTGTGTGT |
| mm4_intergenic_Gm21677|Gm21693_chrY_3327049 |
GGCAGTAAAACTTACTATTTGCCTTATCTCCTAAATCAACATATTTCTTTTAACATTTGGAGAACATAGGAATAACATCT TATTTTTCTTCTTAGAAATGCTGTTTGGTACACAACTTAAGACTTTAGTACCTGCCTCCA |
| mm4_intergenic_Gm16501|Rbmy/Gm10256_chrY_2785468 |
GGCAGTAAAACTTACTATTTGCCTTATCTCCTAAATCAACATATTTCTTTTAACATTTGGAGAACATAGGAATAACATCT TATTTTTCTTCTTAGAAATGCTGTTTGGTACACAACTTAAGACTTTAGTACCTGCCTCCA |
| mm4_exon_Gm10352_chrY_2911883 |
TGGAGGCAGGTACTAAAGTCTTAAGTTGTGTACCAAACAGCATTTCTAAGAAGAAAAATAAGATGTTATTCCTATGTTCT CCAAATGTTAAAAGAAATATGTTGATTTAGGAGATAAGGCAAATAGTAAGTTTTACTGCC |
| mm4_exon_Gm10256_chrY_2873169 |
TGGAGGCAGGTACTAAAGTCTTAAGTTGTGTACCAAACAGCATTTCTAAGAAGAAAAATAAGATGTTATTCCTATGTTCT CCAAATGTTAAAAGAAATATGTTGATTTAGGAGATAAGGCAAATAGTAAGTTTTACTGCC |
| mm4_intergenic_4930594M17Rik|Gm26012_chr18_81806285 |
GCGGTAATGGCTGCTTAACCCTTAGCATTTCCATGTCCCATTTCTATGAAGAATGCCCCCGGGTGTTCCCCAGACAAGTT TCACTGAAAATGGCTTCGTGAGGTGGGCACCGCTGTATCTCCTGCTG |
| mm4_intron_Ank1_chr8_22986981 |
AAGAGGGCTGAACATCCGTGGCTACCCCTCTTTTTTCCTAGAAAGCAGATTTGGCACTCTATGGCATATGTGTTTGTAGT TTGCTAGTCAGACCTGGTGTCTTAGAAATCAGACTTTTAGAGGCTTCTCTGGGTGTGTTG |