← 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_52313788_F | TCGTCGGCAGCGTCCCTTGTCGCCTTAGCTCCTC | 60.1 | 1.00 |
| ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313788_R | GTCTCGTGGGCTCGGGTCCTTTCGGCTCTCCATCC | 60.1 | 1.00 |
| mm4_intergenic_Gm23681|Peli1_chr11_21082376_F | Primer3: not found at this Tm | N.d. | 0.54 |
| mm4_intergenic_Gm23681|Peli1_chr11_21082376_R | Primer3: not found at this Tm | N.d. | 0.54 |
| mm4_intergenic_Alcam|Gm25723_chr16_52879542_F | Primer3: not found at this Tm | N.d. | 0.53 |
| mm4_intergenic_Alcam|Gm25723_chr16_52879542_R | Primer3: not found at this Tm | N.d. | 0.53 |
| mm3_intergenic_Gm22702|Gm11499_chr11_92029393_F | Primer3: not found at this Tm | N.d. | 0.52 |
| mm3_intergenic_Gm22702|Gm11499_chr11_92029393_R | Primer3: not found at this Tm | N.d. | 0.52 |
| mm4_intron_Cdc14a_chr3_116324409_F | TCGTCGGCAGCGTCCCTAGAGACTCCCACGACGA | 60.1 | 0.46 |
| mm4_intron_Cdc14a_chr3_116324409_R | GTCTCGTGGGCTCGGGAACATTCGCAGCACCATCC | 59.9 | 0.46 |
| mm3_intergenic_Stam|Tmem236_chr2_14149689_F | Primer3: not found at this Tm | N.d. | 0.41 |
| mm3_intergenic_Stam|Tmem236_chr2_14149689_R | Primer3: not found at this Tm | N.d. | 0.41 |
| mm4_intron_Stk24_chr14_121354223_F | Primer3: not found at this Tm | N.d. | 0.40 |
| mm4_intron_Stk24_chr14_121354223_R | Primer3: not found at this Tm | N.d. | 0.40 |
| mm4_intron_Glmn_chr5_107574798_F | Primer3: not found at this Tm | N.d. | 0.37 |
| mm4_intron_Glmn_chr5_107574798_R | Primer3: not found at this Tm | N.d. | 0.37 |
| mm4_intron_Nrxn1_chr17_90141853_F | TCGTCGGCAGCGTCCCATGTGGCTGTACTTGGGA | 59.6 | 0.35 |
| mm4_intron_Nrxn1_chr17_90141853_R | GTCTCGTGGGCTCGGGGTTCTCCTCTACACAGTCAAGG | 60.0 | 0.35 |
| mm4_intron_Cisd2_chr3_135419490_F | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intron_Cisd2_chr3_135419490_R | Primer3: not found at this Tm | N.d. | 0.33 |
| mm4_intron_Ube4b_chr4_149401469_F | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intron_Ube4b_chr4_149401469_R | Primer3: not found at this Tm | N.d. | 0.32 |
| mm4_intergenic_Gm27023|Gm25800_chr17_61955733_F | Primer3: not found at this Tm | N.d. | 0.30 |
| mm4_intergenic_Gm27023|Gm25800_chr17_61955733_R | Primer3: not found at this Tm | N.d. | 0.30 |
| mm3_intron_Tmem108_chr9_103744809_F | Primer3: not found at this Tm | N.d. | 0.28 |
| mm3_intron_Tmem108_chr9_103744809_R | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_Gm26307|Gm26937_chr16_74741147_F | TCGTCGGCAGCGTCCTTGCAGACATTGGAATGGGG | 59.5 | 0.28 |
| mm4_intergenic_Gm26307|Gm26937_chr16_74741147_R | GTCTCGTGGGCTCGGGCTGTAAGGAGAGCACACAGT | 59.9 | 0.28 |
| mm4_intron_Gstk1_chr6_42246245_F | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intron_Gstk1_chr6_42246245_R | Primer3: not found at this Tm | N.d. | 0.27 |
| mm4_intergenic_n-R5s30|Rbfox1_chr16_5421572_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_n-R5s30|Rbfox1_chr16_5421572_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_Gm23558|Galc_chr12_98009520_F | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Gm23558|Galc_chr12_98009520_R | Primer3: not found at this Tm | N.d. | 0.25 |
| mm4_intergenic_Gm4929|Fam84a_chr12_13930448_F | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Gm4929|Fam84a_chr12_13930448_R | Primer3: not found at this Tm | N.d. | 0.23 |
| mm4_intergenic_Fst|Gm25950_chr13_114506288_F | TCGTCGGCAGCGTCTGCTTGTGAAGGGCTCAGAG | 59.9 | 0.23 |
| mm4_intergenic_Fst|Gm25950_chr13_114506288_R | GTCTCGTGGGCTCGGGGCAGGTCTCCAGTCATCAG | 59.8 | 0.23 |
| mm4_intergenic_Htr1f|Gm22429_chr16_65112332_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intergenic_Htr1f|Gm22429_chr16_65112332_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intergenic_Mto1|Eef1a1/Gm26377_chr9_78476532_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intergenic_Mto1|Eef1a1/Gm26377_chr9_78476532_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intron_E130309F12Rik_chr4_49189990_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intron_E130309F12Rik_chr4_49189990_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intron_Wdpcp_chr11_21725690_F | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intron_Wdpcp_chr11_21725690_R | Primer3: not found at this Tm | N.d. | 0.22 |
| mm4_intergenic_Tox3|Chd9_chr8_90689734_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Tox3|Chd9_chr8_90689734_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Gm22053|Fhit_chr14_10629191_F | TCGTCGGCAGCGTCTCACACCAGACCTTCATGCC | 59.9 | 0.21 |
| mm4_intergenic_Gm22053|Fhit_chr14_10629191_R | GTCTCGTGGGCTCGGGTACAGATGAGGCTCTGGGC | 59.8 | 0.21 |
| mm4_intergenic_Rims4|Ywhab_chr2_163950397_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Rims4|Ywhab_chr2_163950397_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Gm26615|Wasf2_chr4_133119853_F | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intergenic_Gm26615|Wasf2_chr4_133119853_R | Primer3: not found at this Tm | N.d. | 0.20 |
| mm4_intron_Pnpla7_chr2_25021412_F | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intron_Pnpla7_chr2_25021412_R | Primer3: not found at this Tm | N.d. | 0.19 |
| mm4_intergenic_Lmx1a|Gm20711_chr1_167938255_F | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intergenic_Lmx1a|Gm20711_chr1_167938255_R | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intergenic_Gm23280|Gm14706_chrX_76878252_F | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intergenic_Gm23280|Gm14706_chrX_76878252_R | Primer3: not found at this Tm | N.d. | 0.18 |
| mm4_intron_Nalcn_chr14_123373586_F | TCGTCGGCAGCGTCTGACTGGACCTTCACAAGCC | 59.8 | 0.18 |
| mm4_intron_Nalcn_chr14_123373586_R | GTCTCGTGGGCTCGGTTGTAACCACAAAATGCAGGAAT | 57.4 | 0.18 |
| mm4_intron_Kcnq5_chr1_21413473_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Kcnq5_chr1_21413473_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm3_intergenic_F630040K05Rik|Vegfa_chr17_45979183_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm3_intergenic_F630040K05Rik|Vegfa_chr17_45979183_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_Mga_chr2_119900728_F | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intron_Mga_chr2_119900728_R | Primer3: not found at this Tm | N.d. | 0.16 |
| mm4_intergenic_Ccnl1|Veph1_chr3_65999534_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Ccnl1|Veph1_chr3_65999534_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Gm22011|Mthfr-ps1_chr5_78290050_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Gm22011|Mthfr-ps1_chr5_78290050_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intergenic_Gm26687|Gm15453_chr1_150193501_F | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Gm26687|Gm15453_chr1_150193501_R | Primer3: not found at this Tm | N.d. | 0.13 |
| mm4_intergenic_Igsf3|Atp1a1_chr3_101560703_F | TCGTCGGCAGCGTCCCCTTCTCTGCTCTTGGTGA | 59.0 | 0.13 |
| mm4_intergenic_Igsf3|Atp1a1_chr3_101560703_R | GTCTCGTGGGCTCGGCAGCGCATCTGTTAATTCCACT | 59.3 | 0.13 |
| mm4_intergenic_Gm22438|Gm22159_chr1_108142446_F | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_Gm22438|Gm22159_chr1_108142446_R | Primer3: not found at this Tm | N.d. | 0.12 |
| mm4_intergenic_D3Ertd751e|Gm25714_chr3_42331354_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_D3Ertd751e|Gm25714_chr3_42331354_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intergenic_Xrcc4|Gm4117_chr13_89856409_F | TCGTCGGCAGCGTCCAACAGTGCTTGTGCCTCAC | 59.9 | 0.10 |
| mm4_intergenic_Xrcc4|Gm4117_chr13_89856409_R | GTCTCGTGGGCTCGGGACAACTTTTGGGACGTGCC | 59.9 | 0.10 |
| mm4_intergenic_Fut10|Gm23539_chr8_31519195_F | TCGTCGGCAGCGTCTGTTAGTGAATGGCCATCACT | 57.2 | 0.10 |
| mm4_intergenic_Fut10|Gm23539_chr8_31519195_R | GTCTCGTGGGCTCGGTGCTACATTTAACATGTACCCGA | 57.9 | 0.10 |
| mm4_intron_Thada_chr17_84344224_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Thada_chr17_84344224_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Kcnc4_chr3_107443359_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Kcnc4_chr3_107443359_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Dgkb_chr12_37886103_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Dgkb_chr12_37886103_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_D630008O14Rik|Bcl2_chr1_106625464_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_D630008O14Rik|Bcl2_chr1_106625464_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Ak2|1700086P04Rik_chr4_129042563_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Ak2|1700086P04Rik_chr4_129042563_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm8167|Zfp330_chr8_82619431_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_Gm8167|Zfp330_chr8_82619431_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intergenic_1190002N15Rik|Gm24178_chr9_94589700_F | TCGTCGGCAGCGTCTGCTAAGTTTTCTTTCCTGTTTGCT | 59.8 | 0.09 |
| mm4_intergenic_1190002N15Rik|Gm24178_chr9_94589700_R | GTCTCGTGGGCTCGGAAGTTTGCTGTGGGGAATCC | 58.3 | 0.09 |
| mm4_intergenic_Pacsin2|Ttll1_chr15_83470600_F | TCGTCGGCAGCGTCCACGTGACCTAGAGCTGTGT | 59.4 | 0.09 |
| mm4_intergenic_Pacsin2|Ttll1_chr15_83470600_R | GTCTCGTGGGCTCGGCGGGAGGAAGAGAGAAACCC | 59.4 | 0.09 |
| mm4_intron_Col6a1_chr10_76712683_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intron_Col6a1_chr10_76712683_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm3_exon_Rbm26_chr14_105177177_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm3_exon_Rbm26_chr14_105177177_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Etv4|Meox1_chr11_101870769_F | TCGTCGGCAGCGTCGCTTTGCTCCATCCCTGAGA | 59.7 | 0.08 |
| mm4_intergenic_Etv4|Meox1_chr11_101870769_R | GTCTCGTGGGCTCGGGCATGAGAGGATGGGGTGG | 59.8 | 0.08 |
| mm4_intergenic_Pex26|Tuba8_chr6_121200739_F | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Pex26|Tuba8_chr6_121200739_R | Primer3: not found at this Tm | N.d. | 0.08 |
| mm4_intergenic_Abca12|Atic_chr1_71539043_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Abca12|Atic_chr1_71539043_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intron_Atf6_chr1_170848260_F | TCGTCGGCAGCGTCAGGTTTGGAGAGTTGGTAGACA | 58.6 | 0.07 |
| mm4_intron_Atf6_chr1_170848260_R | GTCTCGTGGGCTCGGGCCATCAGCACCTGACCTTA | 59.7 | 0.07 |
| mm4_intergenic_4930589P08Rik|Camta1_chr4_151389078_F | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_4930589P08Rik|Camta1_chr4_151389078_R | Primer3: not found at this Tm | N.d. | 0.07 |
| mm4_intergenic_Gm23965|Gm23537_chr1_104037586_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm23965|Gm23537_chr1_104037586_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm24069|Gm24434_chr12_39490050_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm24069|Gm24434_chr12_39490050_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm11862|Gm23975_chr4_16742376_F | TCGTCGGCAGCGTCACCACAATCCCAGAAACCTGT | 59.5 | 0.06 |
| mm4_intergenic_Gm11862|Gm23975_chr4_16742376_R | GTCTCGTGGGCTCGGAGGTTTCAGGTCAGCGCTTT | 60.1 | 0.06 |
| mm4_intergenic_Gm13808|Gm13811_chr2_100250608_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm13808|Gm13811_chr2_100250608_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm3_intergenic_9230019H11Rik|H60c_chr10_3228912_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm3_intergenic_9230019H11Rik|H60c_chr10_3228912_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Sh3bp4|Agap1_chr1_89273207_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Sh3bp4|Agap1_chr1_89273207_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Zbtb18|1700016C15Rik_chr1_177564814_F | TCGTCGGCAGCGTCTCACTTCCCCTCGTGGACA | 60.1 | 0.05 |
| mm4_intergenic_Zbtb18|1700016C15Rik_chr1_177564814_R | GTCTCGTGGGCTCGGAGCTGGGAAACACTAAGGTGG | 59.9 | 0.05 |
| mm3_intergenic_Olfr446|Olfr444_chr6_42952346_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_intergenic_Olfr446|Olfr444_chr6_42952346_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_intergenic_Gm10051|Gm15627_chr5_134067818_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm3_intergenic_Gm10051|Gm15627_chr5_134067818_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm24646|Rnf214_chr9_45884150_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm24646|Rnf214_chr9_45884150_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Cd200_chr16_45393696_F | TCGTCGGCAGCGTCTGAGCTTTCTGATGGGGCTT | 59.2 | 0.05 |
| mm4_intron_Cd200_chr16_45393696_R | GTCTCGTGGGCTCGGCCTAAGGTAAAGGAGGTGGGG | 59.1 | 0.05 |
| mm4_intergenic_Gm11675|Gm11676_chr11_111548049_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm11675|Gm11676_chr11_111548049_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Arid1a_chr4_133702314_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Arid1a_chr4_133702314_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm9843|Usp25_chr16_76592217_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intergenic_Gm9843|Usp25_chr16_76592217_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Rhot1_chr11_80211955_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Rhot1_chr11_80211955_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Mtss1|Gm5045_chr15_59150411_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Mtss1|Gm5045_chr15_59150411_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_1700116B05Rik|Gm24925_chr16_50902263_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_1700116B05Rik|Gm24925_chr16_50902263_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Dennd1a_chr2_37829481_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Dennd1a_chr2_37829481_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_1700112D23Rik|Gm6505_chr3_28745399_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_1700112D23Rik|Gm6505_chr3_28745399_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm5457|Gm5087_chr14_12966144_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm5457|Gm5087_chr14_12966144_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Tram2_chr1_21075000_F | TCGTCGGCAGCGTCGAGTCAAAGCTCCACCAACT | 57.7 | 0.04 |
| mm4_intron_Tram2_chr1_21075000_R | GTCTCGTGGGCTCGGCGGTGACTTGAACGACAGGA | 59.9 | 0.04 |
| mm4_intergenic_Gm15054|Hibadh_chr6_52442577_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm15054|Hibadh_chr6_52442577_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm24625|Fam124a_chr14_62542807_F | TCGTCGGCAGCGTCGTGAGTTGTCCTGGAGGGGA | 60.8 | 0.04 |
| mm4_intergenic_Gm24625|Fam124a_chr14_62542807_R | GTCTCGTGGGCTCGGGTCCCCTGGTTGCTGGATAA | 59.3 | 0.04 |
| mm4_intron_Dync1i1_chr6_5893607_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Dync1i1_chr6_5893607_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm23987|Fam135b_chr15_70871113_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Gm23987|Fam135b_chr15_70871113_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intron_Ppm1h_chr10_122853611_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Ppm1h_chr10_122853611_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Kcns3_chr12_11149879_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intron_Kcns3_chr12_11149879_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Efcab1|Gm7731_chr16_15195254_F | TCGTCGGCAGCGTCCACTTGCACTACAGCAGAGGA | 59.9 | 0.03 |
| mm4_intergenic_Efcab1|Gm7731_chr16_15195254_R | GTCTCGTGGGCTCGGCCTTCCTTCAGCCTTGGGAA | 59.5 | 0.03 |
| mm4_intron_Dock7_chr4_99005807_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Dock7_chr4_99005807_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Cwf19l1_chr19_44127039_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intron_Cwf19l1_chr19_44127039_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Nova2/Gm26821_chr7_18961911_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Nova2/Gm26821_chr7_18961911_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Id2|Gm22527_chr12_25163919_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Id2|Gm22527_chr12_25163919_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Mir5128|Strbp_chr2_37702118_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Mir5128|Strbp_chr2_37702118_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm3_intergenic_Gm11499|Gm11500_chr11_92339768_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm3_intergenic_Gm11499|Gm11500_chr11_92339768_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Tmem131_chr1_36836403_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Tmem131_chr1_36836403_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Gm17473|Rspo2_chr15_42768050_F | TCGTCGGCAGCGTCCCTACTTATACGTCCACCCTGC | 59.9 | 0.01 |
| mm4_intergenic_Gm17473|Rspo2_chr15_42768050_R | GTCTCGTGGGCTCGGCGCAGGTGCCAAAGGAAGTA | 60.6 | 0.01 |
| mm4_intergenic_Foxp1|Gm22328_chr6_99454888_F | TCGTCGGCAGCGTCAGTTTGAGTCCCTTCCTGGC | 59.5 | 0.00 |
| mm4_intergenic_Foxp1|Gm22328_chr6_99454888_R | GTCTCGTGGGCTCGGAGGCTGCAAAGGCTACTTGT | 59.8 | 0.00 |
| mm4_intron_St3gal2_chr8_110954054_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_St3gal2_chr8_110954054_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ica1l_chr1_60010763_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Ica1l_chr1_60010763_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Tnrc6a|Slc5a11_chr7_123197572_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Tnrc6a|Slc5a11_chr7_123197572_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Odc1|Gm25925_chr12_17568307_F | TCGTCGGCAGCGTCCACAAAACACTCGTAAAACACTGAC | 59.4 | 0.00 |
| mm4_intergenic_Odc1|Gm25925_chr12_17568307_R | GTCTCGTGGGCTCGGGGGTCGCAGTAATGGGACTT | 59.7 | 0.00 |
| mm4_intergenic_MDGA2/Mdga2|Mdga2_chr12_67018912_F | TCGTCGGCAGCGTCTGCAGGACTCATTTGAAAGACA | 58.1 | 0.00 |
| mm4_intergenic_MDGA2/Mdga2|Mdga2_chr12_67018912_R | GTCTCGTGGGCTCGGTCCATGTGAAGCCATGTCTGT | 59.6 | 0.00 |
| mm4_intergenic_Gm25842|Slco2a1_chr9_102994075_F | TCGTCGGCAGCGTCGTAACAGGGGACTCGCCTTC | 60.1 | 0.00 |
| mm4_intergenic_Gm25842|Slco2a1_chr9_102994075_R | GTCTCGTGGGCTCGGTGAGTACTACAGGGCCCACA | 59.8 | 0.00 |
| mm4_intergenic_Gm2546|A230065N10Rik/Me3_chr7_89617576_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm2546|A230065N10Rik/Me3_chr7_89617576_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Dnajc24|Gm22002_chr2_105987503_F | TCGTCGGCAGCGTCACTGTGGCAGATGAACTCGG | 60.0 | 0.00 |
| mm4_intergenic_Dnajc24|Gm22002_chr2_105987503_R | GTCTCGTGGGCTCGGTGCATTTTAGCTCCACAAAAGCA | 59.9 | 0.00 |
| mm4_intergenic_D230002A01Rik|Gm24254_chr8_91928268_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_D230002A01Rik|Gm24254_chr8_91928268_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Cdh7|Cdh19_chr1_110166442_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Cdh7|Cdh19_chr1_110166442_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_52313788 |
CCTTGTCGCCTTAGCTCCTCTTCTCAGCCAAGATCCCAGGGAGCCTGGGATTAGGAGCTTACTTGGGGGTTTTCCCCCTC CCCCCCTCTGGAGAGTCCGGGGATGGAGAGCCGAAAGGAC |
| mm4_intron_Cdc14a_chr3_116324409 |
CCTAGAGACTCCCACGACGACTCCTCATGCAGGGAGCTGCCTGGTTCCCCCCCCCCCCCCCAATCAGGCTCCTAATCCTC CTGACAGCCAAGGGATGGTGCTGCGAATGTTC |
| mm4_intron_Nrxn1_chr17_90141853 |
CCATGTGGCTGTACTTGGGAGTTGGTTGTAGTTACTTAAGCATGTAATTAATGTTAAGTAAAAACCACCAGGTAGGCTCT TACTCCCACAGGATTAATTTCTTAATCTCTCTCTCCTTGACTGTGTAGAGGAGAACC |
| mm4_intergenic_Gm26307|Gm26937_chr16_74741147 |
CTTGCAGACATTGGAATGGGGGCTAAAGAACAAAGGGACAAGATATATGCCCCCAAGTTAGCTCCTTACCTCTCTGTAGG TGTGAATCATAGCAGATAGTGTTGACTTAACTGTGTGCTCTCCTTACAGC |
| mm4_intergenic_Fst|Gm25950_chr13_114506288 |
TGCTTGTGAAGGGCTCAGAGTTTATAAGGAGGTTTCGGGAGTGCGGATGGAGAACTATGGGGCACAGGGAGCTTACTTGG TGGGAGAGGTTTGACTGATGACTGGAGACCTGCC |
| mm4_intergenic_Gm22053|Fhit_chr14_10629191 |
TCACACCAGACCTTCATGCCCAGGCTCAGACAGGAGCTGGAATAACATATTCCACCAGTAAGTAAGCTCCCAGTCCCCTG CCCAACACAGCCTTACTGCACTCAGATGCAGCCCAGAGCCTCATCTGTAC |
| mm4_intron_Nalcn_chr14_123373586 |
TGACTGGACCTTCACAAGCCCTGTTAGGGTTCTCTACCTCCATGTTAGCTCCTTATCACCTATTCCTGCATTTTGTGGTT ACAA |
| mm4_intergenic_Igsf3|Atp1a1_chr3_101560703 |
CCCTTCTCTGCTCTTGGTGACTGGGCATCAGCAGCTTACTTGTGGGCCTCACTGTTTGTAAAGTGGAATTAACAGATGCG CTG |
| mm4_intergenic_Xrcc4|Gm4117_chr13_89856409 |
CAACAGTGCTTGTGCCTCACTAGGTACCTGGGATTACTGATTTCTGTATTTCCTCCAAGGATGCTCCTACTCTCAGGAGT GTAACATTAATGTGGATATGGCACGTCCCAAAAGTTGTC |
| mm4_intergenic_Fut10|Gm23539_chr8_31519195 |
TGTTAGTGAATGGCCATCACTAAAAAGAACACCATCAAGAAAGTTGCTAATCCCATTTGTTCGGGTACATGTTAAATGTA GCA |
| mm4_intergenic_1190002N15Rik|Gm24178_chr9_94589700 | TGCTAAGTTTTCTTTCCTGTTTGCTTCCCCCCAAATAAGCTACTAACCCTGGATTCCCCACAGCAAACTT |
| mm4_intergenic_Pacsin2|Ttll1_chr15_83470600 | CACGTGACCTAGAGCTGTGTCCCACCCAGTATGCTCATAATCACATGATGGTGGGTTTCTCTCTTCCTCCCG |
| mm4_intergenic_Etv4|Meox1_chr11_101870769 |
GCTTTGCTCCATCCCTGAGAACAGTCCCTACCTTGTGAGATGGATGGCTCAGAAGACAGAATGAGGGGACTAGGTGCTAA GTTGGGGGCCACCCCATCCTCTCATGC |
| mm4_intron_Atf6_chr1_170848260 | AGGTTTGGAGAGTTGGTAGACAGACCACCAGGTAAGATCCTAATGGCTTTTATCCTAAGGTCAGGTGCTGATGGC |
| mm4_intergenic_Gm11862|Gm23975_chr4_16742376 |
ACCACAATCCCAGAAACCTGTAGTTATCTGCAACCACCAAGTGAGATCCTGACCCCAATTCCTTGGCAACCAATCTAGGC AAACCTAGCAGTATAAAGCGCTGACCTGAAACCT |
| mm4_intergenic_Zbtb18|1700016C15Rik_chr1_177564814 |
TCACTTCCCCTCGTGGACAGGGTGTCCTCCATGTGAGCTCCTAATGCAGTGAGATTCTTGAGATGCCTTTGCTGTTATCC ACCTTCCTCTCATTTGACCACCTTAGTGTTTCCCAGCT |
| mm4_intron_Cd200_chr16_45393696 |
TGAGCTTTCTGATGGGGCTTTTCTCAGTGATGGTCATTCAGTGATTTTATCACAGCTGTGGATAGGGTCCTCCAGGAAAC CTCCTTATCCCCAGACTGAGGAAGGCCCCCACCTCCTTTACCTTAGG |
| mm4_intron_Tram2_chr1_21075000 |
GAGTCAAAGCTCCACCAACTATTACCATCTTTCACTTTCCACCAAGTAAGAGAATAATCCCACAGAGTGGGGTTAAACTG GAGTCTTGAGCAAGAGAGACTCAAACTCCAAATGTCTGTCCTGTCGTTCAAGTCACCG |
| mm4_intergenic_Gm24625|Fam124a_chr14_62542807 |
GTGAGTTGTCCTGGAGGGGAGGGAATTGGAGCTAATTTGGGGGTAGAGTGATTTGAGATTAGAGAAATTTCAGGGCTTAT CCAGCAACCAGGGGAC |
| mm4_intergenic_Efcab1|Gm7731_chr16_15195254 |
CACTTGCACTACAGCAGAGGAAGGGGTTAGGATCTTTCTAGGAGGCAGCAAAATCAAAAGGACTCAATGCTAAGTGTCCC TCAGAACATCCTCTGATTTCCCAAGGCTGAAGGAAGG |
| mm4_intergenic_Gm17473|Rspo2_chr15_42768050 | CCTACTTATACGTCCACCCTGCCCACCACATAAACTCCTAACCCCTACTTCCTTTGGCACCTGCG |
| mm4_intergenic_Foxp1|Gm22328_chr6_99454888 |
AGTTTGAGTCCCTTCCTGGCCGGACCCACCAACAGAGCTCCTAATCCACCAAGTTCTACCTACTTCACCACAAGTAGCCT TTGCAGCCT |
| mm4_intergenic_Odc1|Gm25925_chr12_17568307 |
CACAAAACACTCGTAAAACACTGACCCTCCTATTCAGCTCCAAATCCCTACTTTTCCTTATCTTGTTCTGGACTAAGCCC AGTCTACCTACTGCTACAAAGTCCCATTACTGCGACCC |
| mm4_intergenic_MDGA2/Mdga2|Mdga2_chr12_67018912 |
TGCAGGACTCATTTGAAAGACAAGAACTATGAAAAGCTAGTATTGGGGATGGGGAGATGACTTGGTGGATATTAGCATCC AAGTTTAAACTCCCAGAATTCACAAAAAACAACAGACATGGCTTCACATGGA |
| mm4_intergenic_Gm25842|Slco2a1_chr9_102994075 |
GTAACAGGGGACTCGCCTTCGTCAGTTAACAGAGAGGGTGAACTGCCCCTCCCACCTAGTCAGCTCCTAGTCCTCTTGTG TGGGCCCTGTAGTACTCA |
| mm4_intergenic_Dnajc24|Gm22002_chr2_105987503 |
ACTGTGGCAGATGAACTCGGCCACTCTCCCCCAAGTCAGCTCTAAATACCTTCCTGTTTCTTTTCTTTGTAGAAATGCTT TTGTGGAGCTAAAATGCA |