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Contents:

PCR primers for off-targets of GCTTCCTCCCAGAGGCGGTG CGG

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.

Maximum amplicon length:     Primer Tm:

NamePrimer Sequence Tm CFD Score
ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313625_F TCGTCGGCAGCGTCTTGCAGCAGGAGGATGACAG 60.0 1.00
ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313625_R GTCTCGTGGGCTCGGAGATGGCAGTGGGGAGCTA 59.9 1.00
mm3_intergenic_Chrnb4|Ube2q2_chr9_55068910_F Primer3: not found at this Tm N.d. 0.66
mm3_intergenic_Chrnb4|Ube2q2_chr9_55068910_R Primer3: not found at this Tm N.d. 0.66
mm4_intergenic_Gm26373|Kcnd2_chr6_21154923_F Primer3: not found at this Tm N.d. 0.65
mm4_intergenic_Gm26373|Kcnd2_chr6_21154923_R Primer3: not found at this Tm N.d. 0.65
mm4_intergenic_Gm25771|Gm22610_chr1_122938874_F Primer3: not found at this Tm N.d. 0.59
mm4_intergenic_Gm25771|Gm22610_chr1_122938874_R Primer3: not found at this Tm N.d. 0.59
mm4_intergenic_Gm22845|Nt5c1b_chr12_9908319_F TCGTCGGCAGCGTCTCCAAAGCAGAAACACAATAGACT 58.6 0.59
mm4_intergenic_Gm22845|Nt5c1b_chr12_9908319_R GTCTCGTGGGCTCGGGCTCAGCTTCTTTCTCATTCTGT 58.9 0.59
mm3_intergenic_Gramd1a|G630030J09Rik_chr7_31148058_F Primer3: not found at this Tm N.d. 0.55
mm3_intergenic_Gramd1a|G630030J09Rik_chr7_31148058_R Primer3: not found at this Tm N.d. 0.55
mm4_intron_Stradb_chr1_58976805_F TCGTCGGCAGCGTCGGAGCTGGCTAAGAACAATGC 59.5 0.54
mm4_intron_Stradb_chr1_58976805_R GTCTCGTGGGCTCGGTGCCACTTCTGAGCATCAGG 60.0 0.54
mm4_intron_4930415F15Rik_chr11_11509515_F TCGTCGGCAGCGTCCCTACTGAGGGGAACTTGACT 58.4 0.53
mm4_intron_4930415F15Rik_chr11_11509515_R GTCTCGTGGGCTCGGCTGGAGGGTCTCAGAGGTGA 59.9 0.53
mm4_exon_Hkdc1_chr10_62417810_F TCGTCGGCAGCGTCCTGGAATGGCCCTGACGAAT 60.1 0.53
mm4_exon_Hkdc1_chr10_62417810_R GTCTCGTGGGCTCGGGACCCTGGTGGACATCATGG 60.1 0.53
mm4_intron_Slc22a23_chr13_34301439_F Primer3: not found at this Tm N.d. 0.50
mm4_intron_Slc22a23_chr13_34301439_R Primer3: not found at this Tm N.d. 0.50
mm4_intron_Dhrs7b_chr11_60838693_F TCGTCGGCAGCGTCTCATCACGGGTGACATAGTTT 57.0 0.50
mm4_intron_Dhrs7b_chr11_60838693_R GTCTCGTGGGCTCGGTCACATTCGGCTGCTCCTTT 59.9 0.50
mm4_intron_Aox1_chr1_58031213_F TCGTCGGCAGCGTCGAATCCATTGCCGCTCACTG 59.6 0.50
mm4_intron_Aox1_chr1_58031213_R GTCTCGTGGGCTCGGTGGCCTGTTAGTAGCCTTGG 59.3 0.50
mm4_intergenic_Sipa1l1|Gm5435_chr12_82477913_F TCGTCGGCAGCGTCCAGCCCCATGTGTCATCTGT 60.0 0.49
mm4_intergenic_Sipa1l1|Gm5435_chr12_82477913_R GTCTCGTGGGCTCGGTGCTGTGATCTAAGCCCAGC 60.1 0.49
mm4_exon_Mapk7_chr11_61493590_F TCGTCGGCAGCGTCTCCGTAAGCGTGAGTGGAAC 60.0 0.45
mm4_exon_Mapk7_chr11_61493590_R GTCTCGTGGGCTCGGTTCCTGAGGCTCAGCATGTG 60.0 0.45
mm4_intron_Wnt7a_chr6_91392222_F TCGTCGGCAGCGTCGTCTGGGGTGCAGCTGTAAG 60.6 0.43
mm4_intron_Wnt7a_chr6_91392222_R GTCTCGTGGGCTCGGGTCTCAGCCAAGACACTCCC 60.0 0.43
mm4_intergenic_Cma2|Gm5801_chr14_55990637_F Primer3: not found at this Tm N.d. 0.43
mm4_intergenic_Cma2|Gm5801_chr14_55990637_R Primer3: not found at this Tm N.d. 0.43
mm4_intergenic_Gm22911|Rfpl4b_chr10_38665621_F Primer3: not found at this Tm N.d. 0.40
mm4_intergenic_Gm22911|Rfpl4b_chr10_38665621_R Primer3: not found at this Tm N.d. 0.40
mm4_intergenic_Gm17215|DAOA-AS1_1_chr8_7434596_F TCGTCGGCAGCGTCGCTCCATCTGGGGACACAAA 59.9 0.37
mm4_intergenic_Gm17215|DAOA-AS1_1_chr8_7434596_R GTCTCGTGGGCTCGGTGTCTTCAACCTAGTGATGACAC 58.1 0.37
mm4_intron_Csmd3_chr15_47842770_F Primer3: not found at this Tm N.d. 0.37
mm4_intron_Csmd3_chr15_47842770_R Primer3: not found at this Tm N.d. 0.37
mm4_intron_9930111J21Rik2_chr11_49034023_F Primer3: not found at this Tm N.d. 0.37
mm4_intron_9930111J21Rik2_chr11_49034023_R Primer3: not found at this Tm N.d. 0.37
mm4_intergenic_Psme2b/9930111J21Rik1|9930111J21Rik1_chr11_48962186_F Primer3: not found at this Tm N.d. 0.37
mm4_intergenic_Psme2b/9930111J21Rik1|9930111J21Rik1_chr11_48962186_R Primer3: not found at this Tm N.d. 0.37
mm3_exon_Rtn4_chr11_29693475_F Primer3: not found at this Tm N.d. 0.35
mm3_exon_Rtn4_chr11_29693475_R Primer3: not found at this Tm N.d. 0.35
mm4_intergenic_BC048609/Zfpl1|Zfpl1_chr19_6081653_F TCGTCGGCAGCGTCAAAAGCCACCACAGCAGGAA 60.3 0.32
mm4_intergenic_BC048609/Zfpl1|Zfpl1_chr19_6081653_R GTCTCGTGGGCTCGGTGTGTTGTGTCCTTCCCAGG 59.8 0.32
mm3_intron_Abcb4_chr5_8938201_F TCGTCGGCAGCGTCTTAGGGAGAGGGAGACTGGC 60.0 0.25
mm3_intron_Abcb4_chr5_8938201_R GTCTCGTGGGCTCGGACTCCAAATGAGCCCAAGGG 59.9 0.25
mm4_intergenic_Gm22053|Fhit_chr14_10522876_F Primer3: not found at this Tm N.d. 0.24
mm4_intergenic_Gm22053|Fhit_chr14_10522876_R Primer3: not found at this Tm N.d. 0.24
mm3_intergenic_Gm26327|Gm6851_chr7_39714638_F TCGTCGGCAGCGTCCTCGGCCATCTCTCCATCAC 59.9 0.24
mm3_intergenic_Gm26327|Gm6851_chr7_39714638_R GTCTCGTGGGCTCGGCCCTTCCTGACACGGCTTAG 60.1 0.24
mm4_intergenic_Il1rapl2|Gm25393_chrX_137773458_F Primer3: not found at this Tm N.d. 0.23
mm4_intergenic_Il1rapl2|Gm25393_chrX_137773458_R Primer3: not found at this Tm N.d. 0.23
mm3_exon_Prmt6_chr3_110247760_F TCGTCGGCAGCGTCTCCACACACCTCAGGCTTTC 59.8 0.23
mm3_exon_Prmt6_chr3_110247760_R GTCTCGTGGGCTCGGAGGCACTGGCAGTATCAACA 59.3 0.23
mm4_intron_Cd40_chr2_165064783_F TCGTCGGCAGCGTCCCGTAGCCCCTTTTGGATCA 59.7 0.22
mm4_intron_Cd40_chr2_165064783_R GTCTCGTGGGCTCGGGAACTGTAGCTGGAAGGCCC 60.3 0.22
mm4_intergenic_Abca12|Atic_chr1_71468426_F TCGTCGGCAGCGTCACTCCACACCTGGAATCCCA 60.4 0.22
mm4_intergenic_Abca12|Atic_chr1_71468426_R GTCTCGTGGGCTCGGGCCTGACAGTTCCAAGCAGA 60.2 0.22
mm2_exon_Scly_chr1_91310513_F Primer3: not found at this Tm N.d. 0.21
mm2_exon_Scly_chr1_91310513_R Primer3: not found at this Tm N.d. 0.21
mm4_intron_Entpd5_chr12_84383353_F Primer3: not found at this Tm N.d. 0.21
mm4_intron_Entpd5_chr12_84383353_R Primer3: not found at this Tm N.d. 0.21
mm4_intergenic_B3gat2|Smap1/B3gat2_chr1_23843951_F TCGTCGGCAGCGTCTGCTTCACTCAGCACTTCCT 59.2 0.20
mm4_intergenic_B3gat2|Smap1/B3gat2_chr1_23843951_R GTCTCGTGGGCTCGGGAAGTGTCACAGTCACGTGC 59.4 0.20
mm4_intergenic_Lpgat1|Nek2_chr1_191820527_F TCGTCGGCAGCGTCTGACCCATTTATGCAGCAGA 57.1 0.20
mm4_intergenic_Lpgat1|Nek2_chr1_191820527_R GTCTCGTGGGCTCGGACATAGCCAGTGACATGGCC 60.1 0.20
mm4_exon_Gm11437_chr11_84165322_F Primer3: not found at this Tm N.d. 0.20
mm4_exon_Gm11437_chr11_84165322_R Primer3: not found at this Tm N.d. 0.20
mm3_intron_Fam19a4_chr6_97052536_F TCGTCGGCAGCGTCCCACCTTGGGTTCATCTGGG 60.3 0.19
mm3_intron_Fam19a4_chr6_97052536_R GTCTCGTGGGCTCGGGCTTCCAGACCTCTGCCAAT 60.0 0.19
mm4_intron_Rab3ip_chr10_116932338_F TCGTCGGCAGCGTCGACTTCATCTTCTCTGTACTCCC 57.7 0.19
mm4_intron_Rab3ip_chr10_116932338_R GTCTCGTGGGCTCGGGCACTGGAGTGGGGTGAC 59.9 0.19
mm4_intergenic_Frat1|Frat2_chr19_41831936_F TCGTCGGCAGCGTCACAACCGAATGGCCTTGCTA 59.9 0.19
mm4_intergenic_Frat1|Frat2_chr19_41831936_R GTCTCGTGGGCTCGGGGGAAGCACACTCAGCACTC 60.9 0.19
mm4_intron_Magi2_chr5_20537957_F Primer3: not found at this Tm N.d. 0.18
mm4_intron_Magi2_chr5_20537957_R Primer3: not found at this Tm N.d. 0.18
mm4_intergenic_4930555O08Rik|1700008A04Rik_chr11_32798544_F Primer3: not found at this Tm N.d. 0.18
mm4_intergenic_4930555O08Rik|1700008A04Rik_chr11_32798544_R Primer3: not found at this Tm N.d. 0.18
mm4_intron_Tanc2_chr11_105778383_F TCGTCGGCAGCGTCCGTTTCAGCAGAGAGACGGT 60.0 0.18
mm4_intron_Tanc2_chr11_105778383_R GTCTCGTGGGCTCGGTCCATTCCTTCTCCCTCCCC 60.3 0.18
mm4_intron_Adck4_chr7_27255610_F TCGTCGGCAGCGTCATGCCCAGACAAGTCACAGG 59.9 0.17
mm4_intron_Adck4_chr7_27255610_R GTCTCGTGGGCTCGGCAGAGCAGGGAGAGGAAGGA 60.3 0.17
mm4_intron_Ptprt_chr2_161617273_F Primer3: not found at this Tm N.d. 0.17
mm4_intron_Ptprt_chr2_161617273_R Primer3: not found at this Tm N.d. 0.17
mm3_intergenic_Sorbs1|Aldh18a1_chr19_40544171_F TCGTCGGCAGCGTCCATCCACACCTGCTCGTCAT 60.1 0.17
mm3_intergenic_Sorbs1|Aldh18a1_chr19_40544171_R GTCTCGTGGGCTCGGTCTGCTCCAGCTTTGCAAGA 59.8 0.17
mm4_intergenic_Pttg1|Slu7_chr11_43426255_F TCGTCGGCAGCGTCGGCACACCGCAGTTTAAACT 59.3 0.17
mm4_intergenic_Pttg1|Slu7_chr11_43426255_R GTCTCGTGGGCTCGGCCCATTGGTTCTCAGGCTGT 59.9 0.17
mm3_intron_Sugp2_chr8_70240850_F Primer3: not found at this Tm N.d. 0.17
mm3_intron_Sugp2_chr8_70240850_R Primer3: not found at this Tm N.d. 0.17
mm4_intergenic_Gm26288|Atp10a_chr7_58544141_F Primer3: not found at this Tm N.d. 0.17
mm4_intergenic_Gm26288|Atp10a_chr7_58544141_R Primer3: not found at this Tm N.d. 0.17
mm4_intron_Chst9_chr18_15644459_F Primer3: not found at this Tm N.d. 0.17
mm4_intron_Chst9_chr18_15644459_R Primer3: not found at this Tm N.d. 0.17
mm4_intergenic_Gm15148|Phf8_chrX_151520342_F Primer3: not found at this Tm N.d. 0.16
mm4_intergenic_Gm15148|Phf8_chrX_151520342_R Primer3: not found at this Tm N.d. 0.16
mm4_intergenic_Tcl1|2810011L19Rik_chr12_105235267_F Primer3: not found at this Tm N.d. 0.16
mm4_intergenic_Tcl1|2810011L19Rik_chr12_105235267_R Primer3: not found at this Tm N.d. 0.16
mm3_intron_Gm12531_chr3_37059590_F Primer3: not found at this Tm N.d. 0.16
mm3_intron_Gm12531_chr3_37059590_R Primer3: not found at this Tm N.d. 0.16
mm4_intron_Lrig3_chr10_126008397_F TCGTCGGCAGCGTCCACCTGGGGAGAGGAGTGA 59.9 0.15
mm4_intron_Lrig3_chr10_126008397_R GTCTCGTGGGCTCGGGGGTCTTGGTAAAGGAAGGCA 59.9 0.15
mm4_intergenic_Gm23240|Gm8357_chr1_48539402_F Primer3: not found at this Tm N.d. 0.14
mm4_intergenic_Gm23240|Gm8357_chr1_48539402_R Primer3: not found at this Tm N.d. 0.14
mm4_intron_Prpf40a_chr2_53181118_F Primer3: not found at this Tm N.d. 0.13
mm4_intron_Prpf40a_chr2_53181118_R Primer3: not found at this Tm N.d. 0.13
mm4_intergenic_Fgr|Ahdc1_chr4_133008146_F Primer3: not found at this Tm N.d. 0.13
mm4_intergenic_Fgr|Ahdc1_chr4_133008146_R Primer3: not found at this Tm N.d. 0.13
mm3_intron_Gm27021/1190005I06Rik_chr8_120617029_F TCGTCGGCAGCGTCTCCCTAGGCACATTCTCACAG 59.1 0.13
mm3_intron_Gm27021/1190005I06Rik_chr8_120617029_R GTCTCGTGGGCTCGGGCAGGCAGGGAATTGACAGA 60.3 0.13
mm3_intergenic_Gm22346|Mcfd2_chr17_87254555_F TCGTCGGCAGCGTCCGGAAGGATACAAACCACGC 59.2 0.13
mm3_intergenic_Gm22346|Mcfd2_chr17_87254555_R GTCTCGTGGGCTCGGTGGATCAGTGCCAGCATTCA 59.6 0.13
mm3_intron_AB041803_chr6_31194160_F TCGTCGGCAGCGTCTGAACGGAGACATGCACACA 59.8 0.12
mm3_intron_AB041803_chr6_31194160_R GTCTCGTGGGCTCGGCCTCAGAGTCCCCAGAACCA 60.5 0.12
mm4_intron_Aspscr1_chr11_120707117_F TCGTCGGCAGCGTCGATCCCTGGCTGCCTTCTG 60.1 0.12
mm4_intron_Aspscr1_chr11_120707117_R GTCTCGTGGGCTCGGCTCTAGTGCCCCTGGGAGG 60.7 0.12
mm4_intergenic_Gm5766|Adcy9_chr16_4243462_F TCGTCGGCAGCGTCTGGAGACATCTCAGAGGCCA 59.9 0.12
mm4_intergenic_Gm5766|Adcy9_chr16_4243462_R GTCTCGTGGGCTCGGCCAAAGTCCCTCCTCCAAGG 59.6 0.12
mm3_intergenic_Krt222|Krt24_chr11_99276791_F Primer3: not found at this Tm N.d. 0.12
mm3_intergenic_Krt222|Krt24_chr11_99276791_R Primer3: not found at this Tm N.d. 0.12
mm2_intergenic_Cyp26a1|Myof_chr19_37723799_F TCGTCGGCAGCGTCACGGTCAAGAGCAGTGTCTG 59.9 0.11
mm2_intergenic_Cyp26a1|Myof_chr19_37723799_R GTCTCGTGGGCTCGGAAGTGGCAAAATCAGGCAGC 59.6 0.11
mm4_intron_Atp9a_chr2_168677171_F TCGTCGGCAGCGTCTCCAGGTACACAAAGCAAAGC 59.0 0.11
mm4_intron_Atp9a_chr2_168677171_R GTCTCGTGGGCTCGGATGCTTGCTTTGCTGGGTTG 59.9 0.11
mm4_intron_Smad7_chr18_75374080_F TCGTCGGCAGCGTCTGGAGTGGCACCTCAGTTTC 59.8 0.11
mm4_intron_Smad7_chr18_75374080_R GTCTCGTGGGCTCGGTATGAAATGCGCTCTGCCCT 59.8 0.11
mm4_intergenic_Plekhb2|Gm25096_chr1_35027509_F Primer3: not found at this Tm N.d. 0.11
mm4_intergenic_Plekhb2|Gm25096_chr1_35027509_R Primer3: not found at this Tm N.d. 0.11
mm4_intron_Eif4g3_chr4_138086266_F Primer3: not found at this Tm N.d. 0.11
mm4_intron_Eif4g3_chr4_138086266_R Primer3: not found at this Tm N.d. 0.11
mm4_intron_1300002K09Rik_chr4_45865047_F TCGTCGGCAGCGTCCTGCCTCACACATTCTGGGA 59.6 0.11
mm4_intron_1300002K09Rik_chr4_45865047_R GTCTCGTGGGCTCGGAGCATTGACCTTGGGCAAGT 60.1 0.11
mm3_intron_Tbc1d22a_chr15_86252911_F TCGTCGGCAGCGTCATCTGTGCACACTCCTGCTC 60.0 0.10
mm3_intron_Tbc1d22a_chr15_86252911_R GTCTCGTGGGCTCGGGGTTGAGGAGGAAGCAGCAA 60.2 0.10
mm4_exon_Sh2b3_chr5_121836076_F TCGTCGGCAGCGTCTATTCACCCCTCCTGGCTCA 59.9 0.10
mm4_exon_Sh2b3_chr5_121836076_R GTCTCGTGGGCTCGGGTGGGACAGGCCATGACAG 60.3 0.10
mm4_intergenic_Gm11967|Gck_chr11_5949127_F TCGTCGGCAGCGTCATGGAGCAGCAACCCTCAAG 60.3 0.10
mm4_intergenic_Gm11967|Gck_chr11_5949127_R GTCTCGTGGGCTCGGTGAACAGCTACAGCAAGCCA 59.8 0.10
mm4_intergenic_Cyld|Rps6-ps2_chr8_88781921_F TCGTCGGCAGCGTCATCAATGAGTTGCACGTGGC 59.4 0.10
mm4_intergenic_Cyld|Rps6-ps2_chr8_88781921_R GTCTCGTGGGCTCGGCTGGGACCATCACACTGCAT 60.0 0.10
mm3_intron_Rabgap1l_chr1_160704901_F Primer3: not found at this Tm N.d. 0.10
mm3_intron_Rabgap1l_chr1_160704901_R Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Zfp606|2900092C05Rik_chr7_12508442_F Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Zfp606|2900092C05Rik_chr7_12508442_R Primer3: not found at this Tm N.d. 0.10
mm4_intron_Ptprt_chr2_162082599_F TCGTCGGCAGCGTCCCCCTTCTGCTGTGAGTCAC 60.3 0.10
mm4_intron_Ptprt_chr2_162082599_R GTCTCGTGGGCTCGGGGCAGCATGGAAAATGGACC 59.8 0.10
mm4_intergenic_Gpr133|Sfswap_chr5_129484229_F Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Gpr133|Sfswap_chr5_129484229_R Primer3: not found at this Tm N.d. 0.10
mm4_intron_Mtor_chr4_148469653_F TCGTCGGCAGCGTCGTCGCCCTTTCCTCTGCATA 59.8 0.10
mm4_intron_Mtor_chr4_148469653_R GTCTCGTGGGCTCGGGAGAACGAGGGGAAGCTGTC 60.1 0.10
mm4_intron_Pcnxl2_chr8_125873825_F TCGTCGGCAGCGTCAGAGGCTTCCATTTGTTCTGA 57.2 0.10
mm4_intron_Pcnxl2_chr8_125873825_R GTCTCGTGGGCTCGGGGCTTTCTCAGACGATGCCT 60.1 0.10
mm4_intergenic_Klrb1|Klrb1c_chr6_128757011_F Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Klrb1|Klrb1c_chr6_128757011_R Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Klrb1c|Klrb1b_chr6_128794528_F Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Klrb1c|Klrb1b_chr6_128794528_R Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Gm15054|Hibadh_chr6_52401544_F TCGTCGGCAGCGTCGGTCTTGGATCAGAAGCCCA 59.3 0.09
mm4_intergenic_Gm15054|Hibadh_chr6_52401544_R GTCTCGTGGGCTCGGCCAGACCCCGTGATCCTCTA 60.1 0.09
mm4_intergenic_Htr1a|Dph3b-ps_chr13_106275828_F Primer3: not found at this Tm N.d. 0.09
mm4_intergenic_Htr1a|Dph3b-ps_chr13_106275828_R Primer3: not found at this Tm N.d. 0.09
mm4_intergenic_Syt14|Diexf_chr1_193094701_F TCGTCGGCAGCGTCATGCTGGGAGAATTGCAGCT 60.0 0.09
mm4_intergenic_Syt14|Diexf_chr1_193094701_R GTCTCGTGGGCTCGGCAGTCATGCAACTCCACCCT 59.9 0.09
mm4_intergenic_Gm11631|Fbxl20/Gm11632_chr11_98080631_F TCGTCGGCAGCGTCATCGGATAAGCCAGGCAGAC 59.6 0.09
mm4_intergenic_Gm11631|Fbxl20/Gm11632_chr11_98080631_R GTCTCGTGGGCTCGGAGGTCTGAATTAGTCATCTGTGGG 59.8 0.09
mm4_exon_Itih3_chr14_30921425_F Primer3: not found at this Tm N.d. 0.09
mm4_exon_Itih3_chr14_30921425_R Primer3: not found at this Tm N.d. 0.09
mm4_intergenic_Cyp26a1|Myof_chr19_37723765_F Primer3: not found at this Tm N.d. 0.09
mm4_intergenic_Cyp26a1|Myof_chr19_37723765_R Primer3: not found at this Tm N.d. 0.09
mm4_exon_Suco_chr1_161834801_F TCGTCGGCAGCGTCGCTTCTCTTTCCATGTTCTCGC 59.9 0.09
mm4_exon_Suco_chr1_161834801_R GTCTCGTGGGCTCGGGATTTTGTGCCACCTCAGCC 59.7 0.09
mm3_intergenic_Gm11546|AA623943_chr11_94807468_F TCGTCGGCAGCGTCTTCCTCAAAGAGCACAGGCC 60.2 0.09
mm3_intergenic_Gm11546|AA623943_chr11_94807468_R GTCTCGTGGGCTCGGAGCATGCTGAGTACTGACTGG 59.7 0.09
mm3_intergenic_Srpk1|Slc26a8_chr17_28629287_F TCGTCGGCAGCGTCTGGGAGTGGAGGGACAAGAA 60.1 0.09
mm3_intergenic_Srpk1|Slc26a8_chr17_28629287_R GTCTCGTGGGCTCGGCAGGGTGTGGTTAGCTCAGG 60.0 0.09
mm4_intergenic_Gm24734|Nog_chr11_89242161_F Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Gm24734|Nog_chr11_89242161_R Primer3: not found at this Tm N.d. 0.08
mm4_intron_Sobp_chr10_43065746_F TCGTCGGCAGCGTCCAACCAGGGCCTCAGATCAA 59.6 0.08
mm4_intron_Sobp_chr10_43065746_R GTCTCGTGGGCTCGGAAGCCACCTAGGGATGGTCT 59.9 0.08
mm4_intron_Slit3_chr11_35669973_F Primer3: not found at this Tm N.d. 0.08
mm4_intron_Slit3_chr11_35669973_R Primer3: not found at this Tm N.d. 0.08
mm4_intron_Fbxl7_chr15_26668689_F Primer3: not found at this Tm N.d. 0.08
mm4_intron_Fbxl7_chr15_26668689_R Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Mrpl1|Fras1_chr5_96372780_F TCGTCGGCAGCGTCACAGAGTCCCCATATGTGCT 58.1 0.08
mm4_intergenic_Mrpl1|Fras1_chr5_96372780_R GTCTCGTGGGCTCGGGACTTAGGAATCGCCCAGCA 59.8 0.08
mm4_intergenic_Gata4|Blk_chr14_63371460_F Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Gata4|Blk_chr14_63371460_R Primer3: not found at this Tm N.d. 0.08
mm3_intron_Phf21a_chr2_92331070_F Primer3: not found at this Tm N.d. 0.08
mm3_intron_Phf21a_chr2_92331070_R Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Sgpp1|Syne2_chr12_75800389_F TCGTCGGCAGCGTCGGCCTTGACTGAATTGCTCC 59.1 0.08
mm4_intergenic_Sgpp1|Syne2_chr12_75800389_R GTCTCGTGGGCTCGGGCTCAACCCTCCCATCATGT 59.7 0.08
mm4_exon_Kcnn3_chr3_89521040_F Primer3: not found at this Tm N.d. 0.08
mm4_exon_Kcnn3_chr3_89521040_R Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_1810063I02Rik|1700013G23Rik_chr11_59944528_F TCGTCGGCAGCGTCGATGGGCCACTTCAGACACA 59.9 0.08
mm4_intergenic_1810063I02Rik|1700013G23Rik_chr11_59944528_R GTCTCGTGGGCTCGGTGCTATTTCTAACTCGTGTCCCT 59.2 0.08
mm4_intergenic_Vcp-rs|Gm6238_chrX_104348376_F TCGTCGGCAGCGTCAGTGACAAACCCTCTGGCAG 59.8 0.08
mm4_intergenic_Vcp-rs|Gm6238_chrX_104348376_R GTCTCGTGGGCTCGGGCCGTCGTTTGATTAGTCGC 59.9 0.08
mm4_exon_Vcp_chr4_43000320_F TCGTCGGCAGCGTCAGTGACAAACCCTCTGGCAG 59.8 0.08
mm4_exon_Vcp_chr4_43000320_R GTCTCGTGGGCTCGGGCCGTCGTTTGATTAGTCGC 59.9 0.08
mm4_intron_Slc6a11_chr6_114189086_F Primer3: not found at this Tm N.d. 0.07
mm4_intron_Slc6a11_chr6_114189086_R Primer3: not found at this Tm N.d. 0.07
mm4_intergenic_Cgrrf1|Samd4_chr14_46865193_F Primer3: not found at this Tm N.d. 0.07
mm4_intergenic_Cgrrf1|Samd4_chr14_46865193_R Primer3: not found at this Tm N.d. 0.07
mm4_intergenic_Slitrk1|Gm25901_chr14_108987680_F Primer3: not found at this Tm N.d. 0.07
mm4_intergenic_Slitrk1|Gm25901_chr14_108987680_R Primer3: not found at this Tm N.d. 0.07
mm3_intron_Slc12a8_chr16_33573895_F Primer3: not found at this Tm N.d. 0.07
mm3_intron_Slc12a8_chr16_33573895_R Primer3: not found at this Tm N.d. 0.07
mm4_intron_Sh3gl1_chr17_56028945_F TCGTCGGCAGCGTCCTGAGACCATGGGGAAGCTG 60.1 0.07
mm4_intron_Sh3gl1_chr17_56028945_R GTCTCGTGGGCTCGGCCCTGGCCTTGTGTAACAGT 59.8 0.07
mm4_intron_C530008M17Rik_chr5_76779830_F TCGTCGGCAGCGTCGGGCAGATGGTTCTAGGAGC 59.8 0.07
mm4_intron_C530008M17Rik_chr5_76779830_R GTCTCGTGGGCTCGGAAGGAGGGCTTGAAGGTTGG 59.8 0.07
mm4_intergenic_Rps2-ps6|Tsc22d1_chr14_76247894_F TCGTCGGCAGCGTCTGGCGGTGTTTAGGAATGCT 59.9 0.07
mm4_intergenic_Rps2-ps6|Tsc22d1_chr14_76247894_R GTCTCGTGGGCTCGGCCCCTTGTGTGACCAACCTT 60.1 0.07
mm4_intron_Nrxn2_chr19_6506819_F TCGTCGGCAGCGTCGAGCTCATTGCACGGCATTC 60.2 0.07
mm4_intron_Nrxn2_chr19_6506819_R GTCTCGTGGGCTCGGTGCCTCCTCACAGACTTCCT 60.1 0.07
mm4_exon_Hectd3_chr4_116995463_F Primer3: not found at this Tm N.d. 0.07
mm4_exon_Hectd3_chr4_116995463_R Primer3: not found at this Tm N.d. 0.07
mm4_intergenic_Ube2d4|Trmt12_chr15_58847337_F TCGTCGGCAGCGTCCGGAACACTGAGCAGGAAGA 59.6 0.06
mm4_intergenic_Ube2d4|Trmt12_chr15_58847337_R GTCTCGTGGGCTCGGGCCCAGGTAGCTGCCTTAG 59.8 0.06
mm4_intron_Astn1_chr1_158400511_F TCGTCGGCAGCGTCTCCACAGTTCTTCTTGGGACTC 59.6 0.06
mm4_intron_Astn1_chr1_158400511_R GTCTCGTGGGCTCGGTCCTAGGATTGTGGGGTGCT 60.2 0.06
mm4_intergenic_Ccne1|Gm22203_chr7_38152266_F TCGTCGGCAGCGTCTCTCCCTCCTTCCTGGCTC 59.9 0.06
mm4_intergenic_Ccne1|Gm22203_chr7_38152266_R GTCTCGTGGGCTCGGTCTCAGGCAGTCCTCTACCT 58.9 0.06
mm4_intergenic_Shq1|Gm6565_chr6_100577362_F TCGTCGGCAGCGTCTCTGAGGACCGGCATAAAGC 59.8 0.06
mm4_intergenic_Shq1|Gm6565_chr6_100577362_R GTCTCGTGGGCTCGGAAAACAGCAGCCACTTGTGC 60.1 0.06
mm4_intergenic_D930015E06Rik|Mnd1_chr3_84084435_F Primer3: not found at this Tm N.d. 0.06
mm4_intergenic_D930015E06Rik|Mnd1_chr3_84084435_R Primer3: not found at this Tm N.d. 0.06
mm4_intron_Col6a5_chr9_105886527_F Primer3: not found at this Tm N.d. 0.06
mm4_intron_Col6a5_chr9_105886527_R Primer3: not found at this Tm N.d. 0.06
mm4_intron_Irf5_chr6_29528036_F TCGTCGGCAGCGTCCCTTGAACTCTGGCCTTCCC 60.3 0.06
mm4_intron_Irf5_chr6_29528036_R GTCTCGTGGGCTCGGGAGTGCACACAGGCTGAGAT 60.0 0.06
mm3_intergenic_Faim2|Gm5808_chr15_99540629_F TCGTCGGCAGCGTCGGCATGTTCTCTTCTGCCCT 60.0 0.06
mm3_intergenic_Faim2|Gm5808_chr15_99540629_R GTCTCGTGGGCTCGGCCATGTTTGGCCCCTCAGAT 60.0 0.06
mm4_intergenic_Kcnk12|Rpl36-ps4_chr17_87864365_F TCGTCGGCAGCGTCCCTTTGAAAGGGGAAAGACTTCT 58.5 0.06
mm4_intergenic_Kcnk12|Rpl36-ps4_chr17_87864365_R GTCTCGTGGGCTCGGTCTGGAGGCTCTCAGGTCAA 59.8 0.06
mm4_intron_Nos1_chr5_117922166_F Primer3: not found at this Tm N.d. 0.05
mm4_intron_Nos1_chr5_117922166_R Primer3: not found at this Tm N.d. 0.05
mm4_intron_Ano10_chr9_122221527_F Primer3: not found at this Tm N.d. 0.05
mm4_intron_Ano10_chr9_122221527_R Primer3: not found at this Tm N.d. 0.05
mm4_intron_Kif17_chr4_138287733_F TCGTCGGCAGCGTCGTGAGAGCATGGCCATCAGT 60.1 0.05
mm4_intron_Kif17_chr4_138287733_R GTCTCGTGGGCTCGGCCCTACCCTATGGCCTCCTT 60.1 0.05
mm4_intergenic_BC021614|Gm23927_chr19_4059563_F TCGTCGGCAGCGTCGCCCCAGAAACAGACCAAGT 60.1 0.05
mm4_intergenic_BC021614|Gm23927_chr19_4059563_R GTCTCGTGGGCTCGGTCATGTGACCATGTGTGCCT 59.5 0.05
mm4_intron_Slc6a4_chr11_77023074_F TCGTCGGCAGCGTCTTTGTGATGCCCTGCCACTT 60.4 0.05
mm4_intron_Slc6a4_chr11_77023074_R GTCTCGTGGGCTCGGTGATGGCAGAAACGGAGTGG 60.3 0.05
mm4_intergenic_Gm23624|4930593C16Rik_chr9_120856921_F TCGTCGGCAGCGTCATGGCACGGGGTTGACATTC 60.9 0.05
mm4_intergenic_Gm23624|4930593C16Rik_chr9_120856921_R GTCTCGTGGGCTCGGCCTGAGCTCATCTGGGCTAC 59.6 0.05
mm4_intergenic_Lbx1|Btrc_chr19_45283855_F TCGTCGGCAGCGTCAGAGAGGTGGCAAGTTTGGG 59.8 0.05
mm4_intergenic_Lbx1|Btrc_chr19_45283855_R GTCTCGTGGGCTCGGGCCATTGCTCCACTTCCCTT 60.6 0.05
mm4_intron_Cacna1i_chr15_80303319_F TCGTCGGCAGCGTCTTGGCTGTCGAGGATCTGAT 58.5 0.04
mm4_intron_Cacna1i_chr15_80303319_R GTCTCGTGGGCTCGGCACCGCCTGACACTGTCTAA 59.6 0.04
mm4_intron_Fstl4_chr11_53155817_F TCGTCGGCAGCGTCAAATGACCTCGCTGTGCTCT 59.6 0.04
mm4_intron_Fstl4_chr11_53155817_R GTCTCGTGGGCTCGGCCACGATCCTTCATGAGCCA 59.8 0.04
mm4_intron_Laptm5_chr4_130914196_F TCGTCGGCAGCGTCGCAGAGCCTGGTGACATCT 59.3 0.04
mm4_intron_Laptm5_chr4_130914196_R GTCTCGTGGGCTCGGAGGTGCACACAAGAGCTTCA 59.8 0.04
mm4_intergenic_Atp5d|Midn_chr10_80146069_F TCGTCGGCAGCGTCATGGGTGTGACTAGTGCTGC 60.0 0.04
mm4_intergenic_Atp5d|Midn_chr10_80146069_R GTCTCGTGGGCTCGGCACAGGTTGGGTGTGCCTAG 60.6 0.04
mm4_intron_Wdr48_chr9_119915311_F TCGTCGGCAGCGTCCCGAACATAACCAGAGGGCA 59.7 0.04
mm4_intron_Wdr48_chr9_119915311_R GTCTCGTGGGCTCGGACTGCTACCTGGAAGTGTGC 59.9 0.04
mm4_intergenic_Gm26708|Arnt2_chr7_84198870_F TCGTCGGCAGCGTCTCGTGGCTGTCTGTCAAGTC 59.9 0.04
mm4_intergenic_Gm26708|Arnt2_chr7_84198870_R GTCTCGTGGGCTCGGCCCAAATGTTGCCTGGGTTC 59.6 0.04
mm4_intron_Pdzd9_chr7_120669339_F TCGTCGGCAGCGTCCCTGGCAGTAGAAATGGGCA 60.0 0.04
mm4_intron_Pdzd9_chr7_120669339_R GTCTCGTGGGCTCGGTGCGTGTGGTACAGAATGCT 59.9 0.04
mm4_intron_Arf3_chr15_98762304_F TCGTCGGCAGCGTCAACTCAGGGCCAGTGACAAG 59.8 0.04
mm4_intron_Arf3_chr15_98762304_R GTCTCGTGGGCTCGGGAGCTAGCTCGGAGGAGAGA 59.8 0.04
mm4_intergenic_Ferd3l|Twist1_chr12_33957369_F TCGTCGGCAGCGTCCTCTGGCGCGGAAGGAAATC 61.4 0.04
mm4_intergenic_Ferd3l|Twist1_chr12_33957369_R GTCTCGTGGGCTCGGCATTCAAAACCGACCTGGCC 59.7 0.04
mm4_intergenic_Gm26288|Atp10a_chr7_58302101_F TCGTCGGCAGCGTCACCTACAGCTCATTGCCCTT 59.0 0.04
mm4_intergenic_Gm26288|Atp10a_chr7_58302101_R GTCTCGTGGGCTCGGGAGCAAAGCAGCTACTCAGC 59.2 0.04
mm4_intron_Jakmip1_chr5_37107679_F Primer3: not found at this Tm N.d. 0.04
mm4_intron_Jakmip1_chr5_37107679_R Primer3: not found at this Tm N.d. 0.04
mm4_intron_Fam134b_chr15_25844984_F TCGTCGGCAGCGTCATCTCTTTCCCACGCCCATC 59.8 0.04
mm4_intron_Fam134b_chr15_25844984_R GTCTCGTGGGCTCGGTTCTGCTGAAACAGGCACCA 60.1 0.04
mm3_intergenic_Gldc|Mbl2_chr19_30200824_F Primer3: not found at this Tm N.d. 0.04
mm3_intergenic_Gldc|Mbl2_chr19_30200824_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Dusp27|Gpa33_chr1_166128172_F TCGTCGGCAGCGTCTCAGCACATTTGGAACGAACT 58.4 0.04
mm4_intergenic_Dusp27|Gpa33_chr1_166128172_R GTCTCGTGGGCTCGGACATGGTGTTCTCCCCATGC 60.3 0.04
mm4_intergenic_Tle3|Rplp1_chr9_61532691_F TCGTCGGCAGCGTCGGCTCAGAGGATTCCATGGG 59.8 0.04
mm4_intergenic_Tle3|Rplp1_chr9_61532691_R GTCTCGTGGGCTCGGAGTGCATGGGTAAGCAGGAG 59.7 0.04
mm4_intergenic_Il1rapl2|Nrk_chrX_138903166_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Il1rapl2|Nrk_chrX_138903166_R Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Gm8312|1700036O09Rik_chrX_67174844_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Gm8312|1700036O09Rik_chrX_67174844_R Primer3: not found at this Tm N.d. 0.03
mm4_intron_Ccdc6_chr10_70146007_F Primer3: not found at this Tm N.d. 0.03
mm4_intron_Ccdc6_chr10_70146007_R Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Ajap1|Gm25880_chr4_153774246_F TCGTCGGCAGCGTCCAGATCCCACTCTTGAGACAGA 58.9 0.03
mm4_intergenic_Ajap1|Gm25880_chr4_153774246_R GTCTCGTGGGCTCGGTGGGTTATGGACGCATAGGA 58.2 0.03
mm4_intergenic_Foxb2|Prune2_chr19_16875416_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Foxb2|Prune2_chr19_16875416_R Primer3: not found at this Tm N.d. 0.03
mm4_intron_Ctnnbl1_chr2_157889229_F TCGTCGGCAGCGTCGAGTGCTCCCTTCAGCTAGC 60.1 0.03
mm4_intron_Ctnnbl1_chr2_157889229_R GTCTCGTGGGCTCGGCCGCCAGTTATTTCAGCTGC 59.9 0.03
mm4_intergenic_C030010L15Rik|C030010L15Rik/B230307C23Rik_chr16_97997061_F TCGTCGGCAGCGTCGCAGTGATAGGTGCAGTGGT 60.0 0.03
mm4_intergenic_C030010L15Rik|C030010L15Rik/B230307C23Rik_chr16_97997061_R GTCTCGTGGGCTCGGTTGTGCCGGTCCTCCAATAG 59.7 0.03
mm4_intron_Acap2_chr16_31200424_F TCGTCGGCAGCGTCGAGGAACTAAGTGACCCGCA 59.3 0.03
mm4_intron_Acap2_chr16_31200424_R GTCTCGTGGGCTCGGCTGCTCTAGCGCTCTTCCTC 59.9 0.03
mm4_intergenic_Gm25813|Gm23666_chr8_52492462_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Gm25813|Gm23666_chr8_52492462_R Primer3: not found at this Tm N.d. 0.03
mm4_intron_Hgsnat_chr8_25948318_F TCGTCGGCAGCGTCGCTCAGCAGGTCTCACTCAG 60.1 0.03
mm4_intron_Hgsnat_chr8_25948318_R GTCTCGTGGGCTCGGAGGGGTAACTTTCCTGGACT 57.5 0.03
mm3_exon_Ppm1m_chr9_106199246_F TCGTCGGCAGCGTCAACCAGCCGGCGGACATT 62.3 0.03
mm3_exon_Ppm1m_chr9_106199246_R GTCTCGTGGGCTCGGCGTGGCCTCTTTCACCCC 60.3 0.03
mm4_intergenic_Gm10800|Gm13809_chr2_99327476_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Gm10800|Gm13809_chr2_99327476_R Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Cand1|Gm16320_chr10_119323711_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Cand1|Gm16320_chr10_119323711_R Primer3: not found at this Tm N.d. 0.02
mm4_intron_Loxhd1_chr18_77389732_F Primer3: not found at this Tm N.d. 0.02
mm4_intron_Loxhd1_chr18_77389732_R Primer3: not found at this Tm N.d. 0.02
mm3_intergenic_Tsen54|Llgl2_chr11_115823760_F TCGTCGGCAGCGTCTCTCTCGCTTGGCTCTTGTG 60.0 0.02
mm3_intergenic_Tsen54|Llgl2_chr11_115823760_R GTCTCGTGGGCTCGGCTGGTCACAGGACTGCTCAC 60.3 0.02
mm4_intron_Rgs12_chr5_34966802_F Primer3: not found at this Tm N.d. 0.02
mm4_intron_Rgs12_chr5_34966802_R Primer3: not found at this Tm N.d. 0.02
mm4_intron_Fhit_chr14_9841151_F TCGTCGGCAGCGTCCTCAGCATCGACAAATGGCA 58.9 0.02
mm4_intron_Fhit_chr14_9841151_R GTCTCGTGGGCTCGGTCAGGGTGAAGTATGGACAGC 59.4 0.02
mm4_intergenic_Gm15978/Ttc7|Gm15978_chr17_87330739_F TCGTCGGCAGCGTCTTGTGGGGCTGAGGGAATTC 59.9 0.02
mm4_intergenic_Gm15978/Ttc7|Gm15978_chr17_87330739_R GTCTCGTGGGCTCGGGGTACTGGCACACTGGGAAG 60.3 0.02
mm4_intron_Ern2_chr7_122170782_F Primer3: not found at this Tm N.d. 0.02
mm4_intron_Ern2_chr7_122170782_R Primer3: not found at this Tm N.d. 0.02
mm4_intron_Ncaph2_chr15_89359654_F Primer3: not found at this Tm N.d. 0.02
mm4_intron_Ncaph2_chr15_89359654_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Gm25799|Slit3_chr11_35086187_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Gm25799|Slit3_chr11_35086187_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Prkch|Hif1a_chr12_73841092_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Prkch|Hif1a_chr12_73841092_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Otol1|Gm23477_chr3_70176758_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Otol1|Gm23477_chr3_70176758_R Primer3: not found at this Tm N.d. 0.02
mm4_intron_Btbd11_chr10_85430814_F TCGTCGGCAGCGTCTGCCTACGCACCCAAAGAG 60.0 0.02
mm4_intron_Btbd11_chr10_85430814_R GTCTCGTGGGCTCGGAAAGTACCAGAGCCCCAAGC 59.9 0.02
mm4_exon_Alkbh7_chr17_56999033_F Primer3: not found at this Tm N.d. 0.02
mm4_exon_Alkbh7_chr17_56999033_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Ttc9|Map3k9_chr12_81694335_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Ttc9|Map3k9_chr12_81694335_R Primer3: not found at this Tm N.d. 0.02
mm2_exon_Cux1/Gm16599_chr5_136267992_F TCGTCGGCAGCGTCAGGAGGCTTTGGGGAAACTT 59.1 0.02
mm2_exon_Cux1/Gm16599_chr5_136267992_R GTCTCGTGGGCTCGGAAGCTACCCATGTCAGGCAG 59.7 0.02
mm4_intron_March1_chr8_66256964_F TCGTCGGCAGCGTCGCCTGTGCCCTGAACTACTT 59.9 0.01
mm4_intron_March1_chr8_66256964_R GTCTCGTGGGCTCGGAGCAGTGTTCAGGGAGCTTG 60.2 0.01
mm4_intergenic_Ankrd13b|2210008F06Rik_chr11_77489775_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Ankrd13b|2210008F06Rik_chr11_77489775_R Primer3: not found at this Tm N.d. 0.01
mm4_exon_Gbp5_chr3_142503808_F TCGTCGGCAGCGTCGACAGACTTGCTCCGGACAA 59.9 0.01
mm4_exon_Gbp5_chr3_142503808_R GTCTCGTGGGCTCGGGCTTGCAGGTCCAGGAAGAA 60.2 0.01
mm4_intron_Acsf3_chr8_122808397_F TCGTCGGCAGCGTCCTGCAGTCGTGGAAGATGGT 60.0 0.01
mm4_intron_Acsf3_chr8_122808397_R GTCTCGTGGGCTCGGAGCATCCACAAGGCAGAGTG 60.3 0.01
mm4_intergenic_Prokr2|4921508D12Rik_chr2_132423004_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Prokr2|4921508D12Rik_chr2_132423004_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Gm4842|Tcf4_chr18_69277440_F TCGTCGGCAGCGTCGGTGTCCCTTGTTCTCTCACA 59.5 0.01
mm4_intergenic_Gm4842|Tcf4_chr18_69277440_R GTCTCGTGGGCTCGGTGTGGCGTGCTGAGAAGAAA 60.1 0.01
mm4_intron_Cep128_chr12_91023085_F TCGTCGGCAGCGTCTAGCTGGCCCTGTGACATTC 59.7 0.01
mm4_intron_Cep128_chr12_91023085_R GTCTCGTGGGCTCGGCCATCTTTGGCTCAAGGCTG 59.1 0.01
mm4_intergenic_Efnb1|Gm14812_chrX_99185287_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Efnb1|Gm14812_chrX_99185287_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Tas1r2|Pax7_chr4_139701359_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Tas1r2|Pax7_chr4_139701359_R Primer3: not found at this Tm N.d. 0.01
mm4_intron_Galnt13_chr2_55109851_F Primer3: not found at this Tm N.d. 0.01
mm4_intron_Galnt13_chr2_55109851_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Ifng|Dyrk2/4932442E05Rik_chr10_118568851_F TCGTCGGCAGCGTCTGGGTGAATCTTGAGCCGAG 59.7 0.01
mm4_intergenic_Ifng|Dyrk2/4932442E05Rik_chr10_118568851_R GTCTCGTGGGCTCGGCCTTCTCCAGCACTGCTAGG 59.8 0.01
mm4_intergenic_Ajap1|Gm25880_chr4_153739521_F TCGTCGGCAGCGTCGATCAAGGTGGCGAGAGAGG 59.8 0.01
mm4_intergenic_Ajap1|Gm25880_chr4_153739521_R GTCTCGTGGGCTCGGGGAGAAGGAAGATGGAGCCG 59.8 0.01
mm4_intergenic_Gm23112|Gm8955_chr3_14369391_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Gm23112|Gm8955_chr3_14369391_R Primer3: not found at this Tm N.d. 0.01
mm4_intron_Lrrc47_chr4_154017102_F TCGTCGGCAGCGTCCACCTCTGTGCATTTGTGCC 60.0 0.01
mm4_intron_Lrrc47_chr4_154017102_R GTCTCGTGGGCTCGGTAAGCTGGGCATGTCTTGGG 60.0 0.01
mm4_intron_Csf1_chr3_107743727_F Primer3: not found at this Tm N.d. 0.01
mm4_intron_Csf1_chr3_107743727_R Primer3: not found at this Tm N.d. 0.01
mm4_intron_AI118078_chr9_55428281_F Primer3: not found at this Tm N.d. 0.01
mm4_intron_AI118078_chr9_55428281_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Trp53inp1|Ccne2_chr4_11191064_F TCGTCGGCAGCGTCCAGGCGTCTGAGGAGAAAGG 60.1 0.01
mm4_intergenic_Trp53inp1|Ccne2_chr4_11191064_R GTCTCGTGGGCTCGGGTACGTGGGAGCCTTGTCC 60.0 0.01
mm4_intergenic_Ercc6l2|Hsd17b3_chr13_63960768_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Ercc6l2|Hsd17b3_chr13_63960768_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Clec14a|Gm17529_chr12_58667131_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Clec14a|Gm17529_chr12_58667131_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Msto1|Dap3_chr3_88917510_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Msto1|Dap3_chr3_88917510_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Wdr93|Mesp1_chr7_79786079_F TCGTCGGCAGCGTCGACCACTAGCTACATGGGCC 59.8 0.00
mm4_intergenic_Wdr93|Mesp1_chr7_79786079_R GTCTCGTGGGCTCGGGAGTCGGAGAAGTGTGTGGA 59.0 0.00
mm4_intron_Mob3b_chr4_35082047_F Primer3: not found at this Tm N.d. 0.00
mm4_intron_Mob3b_chr4_35082047_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Golga4|Itga9_chr9_118593798_F TCGTCGGCAGCGTCGAGAGGACGCTTCATAGCCA 59.2 0.00
mm4_intergenic_Golga4|Itga9_chr9_118593798_R GTCTCGTGGGCTCGGACCAGACGCAGAGGAAATCT 58.7 0.00
mm4_intergenic_Sertm1|Ccna1_chr3_55025456_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Sertm1|Ccna1_chr3_55025456_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm24883|Ppp1r2-ps3_chr19_30474574_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm24883|Ppp1r2-ps3_chr19_30474574_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm17613|Gm25781_chr14_120789932_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm17613|Gm25781_chr14_120789932_R Primer3: not found at this Tm N.d. 0.00

Off-target amplicon sequences with primers

These only list off-targets that have primers in the table above. Primers underlined, off-targets in bold.

ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313625 TTGCAGCAGGAGGATGACAGCTTAGAAAGAAGAGGGCAATGGGGCTTCCTCCCAGAGGCGGTGCGGCACAGAGGAGCGCT
CGCATCACAAGGTGACCCTAGCTCCCCACTGCCATCT
mm4_intergenic_Gm22845|Nt5c1b_chr12_9908319 TCCAAAGCAGAAACACAATAGACTTTAATGAAAATGGAGAATACTTAAAATCTTCTTTTCATCTTTCTTTCTCCCAGAGG
AGGTATGGGAAACATCTATTTTTGCTAACAGAATGAGAAAGAAGCTGAGC
mm4_intron_Stradb_chr1_58976805 GGAGCTGGCTAAGAACAATGCTTTTTTCCTGTCATTTTTTATTATTGTTGTTTTATTTATTTGTAATCCAGCCATTTCAT
CTCCCCACTGTCTCTGAGAGGATGCTCCCCTGATGCTCAGAAGTGGCA
mm4_intron_4930415F15Rik_chr11_11509515 CCTACTGAGGGGAACTTGACTCCAAACTGCCTCTGGGAGGAAATGCAGGTTAATGGTCCTGTTGACAATGCTAATGACGG
TCTCTTCACTCTTATTCAGAGCATATTGTGAGAAGGCATCTCACCTCTGAGACCCTCCAG
mm4_exon_Hkdc1_chr10_62417810 CTGGAATGGCCCTGACGAATGTGGGCAGCATCTTCACAGAGGCAGTGGGGTTGGTGTCCTTCCCCAAGCCTTTCTCCATC
TCGGCCTGGAAGCGGGCCATGATGTCCACCAGGGTC
mm4_intron_Dhrs7b_chr11_60838693 TCATCACGGGTGACATAGTTTATGTCTAAGTTCCTATTCTTGAAGCCATTGCCACAACGCCTCTTGGTGGAAGAGAAAAG
GAGCAGCCGAATGTGA
mm4_intron_Aox1_chr1_58031213 GAATCCATTGCCGCTCACTGGAGCCTCACTGCCTCTTGGAGGCAGACTCCAAGGCTACTAACAGGCCA
mm4_intergenic_Sipa1l1|Gm5435_chr12_82477913 CAGCCCCATGTGTCATCTGTCCTCTGTGTGGGTAGCTCAGCCCACTGCACCCTGCTGTATAAAGCCACACTGCCCCTTGG
ATGAAGCTTTAGCTGGGCTTAGATCACAGCA
mm4_exon_Mapk7_chr11_61493590 TCCGTAAGCGTGAGTGGAACCAGAATCCCCGGCGCAGCTGATCCTCCTGGGACCGTGCGGGTTCCTCACCGCCTCTGGAA
AGCAGTCCACACATGCTGAGCCTCAGGAA
mm4_intron_Wnt7a_chr6_91392222 GTCTGGGGTGCAGCTGTAAGGAGTACTCCAGTCTGTCCTGAGTGAGAAAGCTAGGGAACACAGCTGCATCCCAGAAGAGG
TGAGGAAGGAACAAGAAGGATTCTCTCTGGGAGGGAGTGTCTTGGCTGAGAC
mm4_intergenic_Gm17215|DAOA-AS1_1_chr8_7434596 GCTCCATCTGGGGACACAAAAGACATGACACAGAGAACAAAAAAAGTCTGAGGACAAAACTCCGCTTCCTTTCACAGGCA
GTGAGGAAAATTAGTGTCATCACTAGGTTGAAGACA
mm4_intergenic_BC048609/Zfpl1|Zfpl1_chr19_6081653 AAAAGCCACCACAGCAGGAAGGGGCCTCAGAACCCAAGTCCACACCGCCTATAGGAGGAAAAGGCAGAGTCCCTGGGAAG
GACACAACACA
mm3_intron_Abcb4_chr5_8938201 TTAGGGAGAGGGAGACTGGCACCGAGGCTTGGAGTGGAAGTGAAACCTAATTGTGGCTTCATCCCAGAGCAGGTGGGGCT
GGGCCCTTGGGCTCATTTGGAGT
mm3_intergenic_Gm26327|Gm6851_chr7_39714638 CTCGGCCATCTCTCCATCACTAGCTCAGGCTATGGGAGTGACAAATTATCCCCACTGCCACTTGGAGGAAGCTATGGCCT
ACTCAGTCTGTGTTCAGTCTAAGCCGTGTCAGGAAGGG
mm3_exon_Prmt6_chr3_110247760 TCCACACACCTCAGGCTTTCATCCATCCCAGGTGTCTTCCTCCCAAAGGCTGTGGGGCTCCTTTGGATCATCTGGTACCC
TGTGGCATACATTGCTCTTCATGTATAGCCATGTTGATACTGCCAGTGCCT
mm4_intron_Cd40_chr2_165064783 CCGTAGCCCCTTTTGGATCATGTCGCTTCATGATTTAAAGCACTCCACGTCTCCCTGCTGCCTTTGGGAGGAAGCCCAGA
CTCCCGGGACTGGGGCTGGGCCTTCCAGCTACAGTTC
mm4_intergenic_Abca12|Atic_chr1_71468426 ACTCCACACCTGGAATCCCAGCACTCTCTGCTCTCAAAGCCCACACCGCTCCTGGGAGAAAGGAGCTGTTTTTCTTGCAT
TTGCTATAGCTAAAGCTATGCTAAAGCGGTCCTTCTCTGCTTGGAACTGTCAGGC
mm4_intergenic_B3gat2|Smap1/B3gat2_chr1_23843951 TGCTTCACTCAGCACTTCCTAGAGTACTGTCTGTGCATAGCTAAGCATTAGCTTCCTCCAAGAGGCAGCAGGGTCCAGGG
CACGTGACTGTGACACTTC
mm4_intergenic_Lpgat1|Nek2_chr1_191820527 TGACCCATTTATGCAGCAGATTATTAGCTTTCTGGTAATGCACATTACCCCCCACCTGCTCTGGATGGAAGCCTTTAGCT
CCCCTTCCCCAAGTCAAAGCGGGGCCATGTCACTGGCTATGT
mm3_intron_Fam19a4_chr6_97052536 CCACCTTGGGTTCATCTGGGTCATTTCCTCTCCCAACCCACCTCTCCACACCACCTCTGGGAGGCAGAAATTGTGGCATT
TACAAAGTCATAGGCTACAAGATTATTAATTGGCAGAGGTCTGGAAGC
mm4_intron_Rab3ip_chr10_116932338 GACTTCATCTTCTCTGTACTCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGGGCTGGTCACCCCACTCCAGTGC
mm4_intergenic_Frat1|Frat2_chr19_41831936 ACAACCGAATGGCCTTGCTAGGAAGAGAGCACACTGTTTTGCAAATGCAAGAGTCCCCTAAGGACGCTCCCGCCACATCC
CAGAGGAGGTGGGGATGGCGAGTGCTGAGTGTGCTTCCC
mm4_intron_Tanc2_chr11_105778383 CGTTTCAGCAGAGAGACGGTTGATGAGACTATGAGGAAAGAAGTTGAACGGCATCCTCTCAGAGATGGTGTGGGATGGGG
AGGGAGAAGGAATGGA
mm4_intron_Adck4_chr7_27255610 ATGCCCAGACAAGTCACAGGCAGGGGAACCTATAATAGAATTGATAGATCCGTCCCGGGCCACCTCCCAAAGGCAGTGTG
GTACAGTGTGTCGGGGCTGGACAGGTTCCTTCCTCTCCCTGCTCTG
mm3_intergenic_Sorbs1|Aldh18a1_chr19_40544171 CATCCACACCTGCTCGTCATATCAAGTGGCTAGAGACTCCCTAAATCATTAAGACTCAGTTGGCTCCCTCCCAGAGCAGG
TGTGGAAGAGTTTCCAGCCCAGCAGCTCCTCTTGCAAAGCTGGAGCAGA
mm4_intergenic_Pttg1|Slu7_chr11_43426255 GGCACACCGCAGTTTAAACTGTAACTCAATTGGTCCCTCCGAGAGGAGGTGGGGCCTACAGCCTGAGAACCAATGGG
mm4_intron_Lrig3_chr10_126008397 CACCTGGGGAGAGGAGTGACGTCACACCCGCACCGCCTCTGTGACTGAGCACCTGGGGCGAGGACCTACCTCACGTATAC
ATTGCTTTTGTGATTTCAGTGTTGCCTTCCTTTACCAAGACCC
mm3_intron_Gm27021/1190005I06Rik_chr8_120617029 TCCCTAGGCACATTCTCACAGCCTCACAGCCTCTGGGCAGAAGCAAAGCTCTCAGGAGGATTAGGCAACAGTAAAGATTA
AAAAACAAATGCTAGCCACCCTGGGGACTAGAGCTGTCATCTGTCAATTCCCTGCCTGC
mm3_intergenic_Gm22346|Mcfd2_chr17_87254555 CGGAAGGATACAAACCACGCTAAAAAGGAAAGAGAAGCTGAACACAGAATCCCCTGTGCAAGACAGAACGGCCCAGGGCC
TGGTGAGCTACCTCACAGCTTCTGGGAGGAAGGCAGGTGTGAATGCTGGCACTGATCCA
mm3_intron_AB041803_chr6_31194160 TGAACGGAGACATGCACACAAAGCTAGCTGCAAACTACACCAAAGACCCAGCTTCTGCCCAGAGGCCGTGGGGGAGCAAG
CACAGCTCAATGAATGGTTCTGGGGACTCTGAGG
mm4_intron_Aspscr1_chr11_120707117 GATCCCTGGCTGCCTTCTGGCCTCCTCCCAGGGGCACTGGGGCAGCCCCCCTCCCCCGCCCACCCCACAGGCACCCTCCC
AGGGGAACTGGGGCAGCCCCACCCCCACCCTACAGGCGCCCTCCCAGGGGCACTAGAG
mm4_intergenic_Gm5766|Adcy9_chr16_4243462 TGGAGACATCTCAGAGGCCATGACAAGGCCTGTGCTGACTAGGCTGTGGTGGCCTCCCTCCCAGAGGCAGAGTGGCCTTG
GAGGAGGGACTTTGG
mm2_intergenic_Cyp26a1|Myof_chr19_37723799 ACGGTCAAGAGCAGTGTCTGAGGGCAAACTTCCTTCCATAGGTGGTGTGGTATGTGTCACTGCTTCCTCCCATAGGTGGT
GTGGTATGTATCAGTCACTGCTGCCTGATTTTGCCACTT
mm4_intron_Atp9a_chr2_168677171 TCCAGGTACACAAAGCAAAGCCCTCACTCCCTCTAAGAGGAAGCATACTATAGAAGAAACACAAGCAGCATGGTGTGTAC
AAAAACACTCAACCCAGCAAAGCAAGCAT
mm4_intron_Smad7_chr18_75374080 TGGAGTGGCACCTCAGTTTCCCTGGGTGCCTCTCAAATGCCTTGCTGCCTCCCAGGGGTGGTAGGGGAGGCCTAATTAAC
GTGTGTAAAGCCCTCCTAAGATCAAAGGCGATGCAGAGGGCAGAGCGCATTTCATA
mm4_intron_1300002K09Rik_chr4_45865047 CTGCCTCACACATTCTGGGAATGTCTCCTGGACATACTTGCTCTCAGAGGCCGTGGGGTTGTCTGGAGGGCTAAAACAAC
ATGAGCAGCCATACTGTTCTTAGCCTGTTACTTGCCCAAGGTCAATGCT
mm3_intron_Tbc1d22a_chr15_86252911 ATCTGTGCACACTCCTGCTCTGCTTTCCCCCAGAGGCTGTGGGGGGAAGTGCTGTGATTTAAACTTTCTCCTCTTGTTAA
TGTTATGTCATAAGCCTTTCCATGTTGCTGCTTCCTCCTCAACC
mm4_exon_Sh2b3_chr5_121836076 TATTCACCCCTCCTGGCTCAGATGGCGTTTCCTCCCAGAGGAGGCCTGGGGAACAAGGTTCAGAAAGTGTCCTAAGAGCA
TAAAACTCTTATAACCTCAACTTCCCCCAGCGGGCCCTGGCCTGTCATGGCCTGTCCCAC
mm4_intergenic_Gm11967|Gck_chr11_5949127 ATGGAGCAGCAACCCTCAAGGCCCCTGTGAAGTGCTTCCTTCCAGGAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNCCACCTTTGGCTTGCTGTAGCTGTTCA
mm4_intergenic_Cyld|Rps6-ps2_chr8_88781921 ATCAATGAGTTGCACGTGGCCCTTTACCCACATGGCTTCTGGGTGGAAGCACACAGCCCTTCACCCCCAGACTTCAGGGA
ACAGGTTCGAATAGGACTTTCTCTTCCCTTTCATGCAGTGTGATGGTCCCAG
mm4_intron_Ptprt_chr2_162082599 CCCCTTCTGCTGTGAGTCACACAGCCCCAGCTCCTCAGGGAGGAACCAGCACAATGTCTGAGTACCACCCCCTCAGATTG
CACCTCTTGCTAATTGCACTGAGCACTTAGGTCCATTTTCCATGCTGCC
mm4_intron_Mtor_chr4_148469653 GTCGCCCTTTCCTCTGCATAGAGGGAAATGCACTCTGCTTGTCGAGCCCCAGCTCCTGGGGGAGGAAGCAGGCTTGGACA
CTGCTTGTGGAGGCAGACAGCTTCCCCTCGTTCTC
mm4_intron_Pcnxl2_chr8_125873825 AGAGGCTTCCATTTGTTCTGAATTTAGCAGAAGAATATACCACCCTGCCTCTGGGAGGAGGATGTGGCAGTTCCAGGTCT
GTGTCCTCCTGCCATTGAAGGCATCGTCTGAGAAAGCC
mm4_intergenic_Gm15054|Hibadh_chr6_52401544 GGTCTTGGATCAGAAGCCCAAAGTATGGGTTGCTTTCAGCAGAAGCTCCACAGAGCCTCTAAGAGGAAGCAGGAGGAAAT
AGGAGGGCATAGAGGATCACGGGGTCTGG
mm4_intergenic_Syt14|Diexf_chr1_193094701 ATGCTGGGAGAATTGCAGCTTGAGTGCTTCAAAGTCTCCTCACAGCCTCCAGGAGAAAGCTCGCCTTGAGGAGCAAGGGT
GGAGTTGCATGACTG
mm4_intergenic_Gm11631|Fbxl20/Gm11632_chr11_98080631 ATCGGATAAGCCAGGCAGACACCTCTGCTGCCTCCCAGGGGCTGTATGGCCCACAGATGACTAATTCAGACCT
mm4_exon_Suco_chr1_161834801 GCTTCTCTTTCCATGTTCTCGCTATCCACATCGCCACTGGGAGGCTGCGGTACTGAAACCTCTACTGATTCTACAGGAAG
TAGTAGTGATGGCTGAGGTGGCACAAAATC
mm3_intergenic_Gm11546|AA623943_chr11_94807468 TTCCTCAAAGAGCACAGGCCTGGCCTCCTTCCCTAAGGAGTCTCAGCCCCACCCCCTCTTGGGGGAAGCTCTCTAGAGTC
ACCTGTATGGGCTTTTTGACCCAGTCAGTACTCAGCATGCT
mm3_intergenic_Srpk1|Slc26a8_chr17_28629287 TGGGAGTGGAGGGACAAGAAGAGACAGTAGAAAGGGGTGCGGAGGCTGCAGACTGTGGTGCCCCACAGCACCTCTGGGAG
GCAGCAGAGGGTGTTGCCCAGTTACCTGAGCTAACCACACCCTG
mm4_intron_Sobp_chr10_43065746 CAACCAGGGCCTCAGATCAAATCGAGGTTCCTATATCCCCCAAAGCCTCTGGGTGCAAGCAAGAGCTGGCCACTCTAGAC
CATCCCTAGGTGGCTT
mm4_intergenic_Mrpl1|Fras1_chr5_96372780 ACAGAGTCCCCATATGTGCTTCAAATACAGAGATAAAACCGCTCTGTCCCCACAACGGCTCTGGGAGGCATCGAGGAATT
GCTGGGCGATTCCTAAGTC
mm4_intergenic_Sgpp1|Syne2_chr12_75800389 GGCCTTGACTGAATTGCTCCTGAAGGGTTTTAGTCTCCCAGAGACCACGCATGGAGTAATGAACTTACAGTTGGGAGCTT
CCTTTCAGAGGCTGTCAGGTGCAGCTTTGTCAGACATGATGGGAGGGTTGAGC
mm4_intergenic_1810063I02Rik|1700013G23Rik_chr11_59944528 GATGGGCCACTTCAGACACAGTTGGTTCCTGGAAGGGTCTGCCTTGCTTGCATCCTACCAGAGGCTGTTTGGTGATTTAC
AGGGACACGAGTTAGAAATAGCA
mm4_intergenic_Vcp-rs|Gm6238_chrX_104348376 AGTGACAAACCCTCTGGCAGCCTCCCTCTCGCTTCCTCCCAGGGGCACCGGGGCGGCAGGCGGGCGGGCGGGAGACGCTA
GCTCCTAATCCGCGAGGGGGGCAGCGACTAATCAAACGACGGC
mm4_exon_Vcp_chr4_43000320 AGTGACAAACCCTCTGGCAGCCTCCCTCTCGCTTCCTCCCAGGGGCACCGGGGCGGCAGGCGGGCGGGCGGGAGACGCTA
GCTCCTAATCCGCGAGGGGGGCAGCGACTAATCAAACGACGGC
mm4_intron_Sh3gl1_chr17_56028945 CTGAGACCATGGGGAAGCTGTGGTGTTAGACACCAGGGAGTTAAGATGAAACTGCCAAGGGCCAGGTGACTCCCAGAGGT
GGTGTGGGGACAACACTGTTCCTATGATGATCCTTTTACTGTTACACAAGGCCAGGG
mm4_intron_C530008M17Rik_chr5_76779830 GGGCAGATGGTTCTAGGAGCTGCAGTCTCCTAAGCCCAGCATTGTTTTTCCCAGAGTCTGTGCTTCCTCTCAGGGTCAGT
GTGGCAATCCTATACCAACCTTCAAGCCCTCCTT
mm4_intergenic_Rps2-ps6|Tsc22d1_chr14_76247894 TGGCGGTGTTTAGGAATGCTACTGTTACCTCCCAGAGGCTGTTTGGACTCTAGGTCTCAAAGGTTGGTCACACAAGGGG
mm4_intron_Nrxn2_chr19_6506819 GAGCTCATTGCACGGCATTCCGCATCCTGGTAACCTGTGACTAGTCGCCTGGGCATGGAAGTTTAGGGGATGATGCTTCC
TCCCAGAGCAGGAAGGGCAGGAAGTCTGTGAGGAGGCA
mm4_intergenic_Ube2d4|Trmt12_chr15_58847337 CGGAACACTGAGCAGGAAGATCCCTCTGTAAGTCAGTCGGTTCCTTCTGGATCCGTTTTAGAGCCATGCTCCCGCTGCTC
ATGCCCCACCGGCCCTGCGAGGCAGCCTAAGGCAGCTACCTGGGC
mm4_intron_Astn1_chr1_158400511 TCCACAGTTCTTCTTGGGACTCCCCCTAACCCCTCTGGGAGGAAGGGAGCTGTGAATGTGTCAGAATTATTGTCACCACT
TGTAGGTAAGCACCCCACAATCCTAGGA
mm4_intergenic_Ccne1|Gm22203_chr7_38152266 TCTCCCTCCTTCCTGGCTCCAGGGTGGGTGGGGCCTNNNNNNNNNNNNNNNNNNNNNTCTGGGGTGAGGCTGAAGTGAAT
CCATGATCTGGGATTTGGGATCTTAGTCTGTTGAGGATAGGTAGAGGACTGCCTGAGA
mm4_intergenic_Shq1|Gm6565_chr6_100577362 TCTGAGGACCGGCATAAAGCACAAATGCCCACTGGCAGCCGTTTGCAGCAGCACCACTAACGCTGTCTGCCCTCTGGAGA
AGGGGCGACTGCTTTATCCCAGAAGGGGTGCGGAGCACAAGTGGCTGCTGTTTT
mm4_intron_Irf5_chr6_29528036 CCTTGAACTCTGGCCTTCCCCCAGCCTGCCCCTGGGAGGAAGCCGGGAGAGGGTTCTTCCTGCCGCACCTGCTGCCCCAG
AATCTCAGCCTGTGTGCACTC
mm3_intergenic_Faim2|Gm5808_chr15_99540629 GGCATGTTCTCTTCTGCCCTGACATTCTCTGTTCCCATGGCTGCCTCCCCGAGGCTGTGAGGAACCTGGAAACCAATGCT
TCGTTCATATCTGAGGGGCCAAACATGG
mm4_intergenic_Kcnk12|Rpl36-ps4_chr17_87864365 CCTTTGAAAGGGGAAAGACTTCTCCTCACGGCCCCTGGGAAGAGGCTGAAGTGTATCTAGAAAGACAGTTACCAAGTGCA
AACACATGAATTCCTTCTCTGTTTAGTTACACTTGACCTGAGAGCCTCCAGA
mm4_intron_Kif17_chr4_138287733 GTGAGAGCATGGCCATCAGTGGGTGAGGGGTTAGAGGATGGAGAAGCACCAGTGCTACTCAGGGGTGGCTTCCTGGAAGA
GGGGGTGAGGGCACGGTCAGACCCTGGCAAGGAGGCCATAGGGTAGGG
mm4_intergenic_BC021614|Gm23927_chr19_4059563 GCCCCAGAAACAGACCAAGTCCTGGTGTTCAGTGTACCAGCTTCCTGGCAGACGTGGTGGGGGAGGGCAGACTCACCTTT
CTATCTGTGGTGCAATATGCTACTGGAGTTTTGCAAGAGGCACACATGGTCACATGA
mm4_intron_Slc6a4_chr11_77023074 TTTGTGATGCCCTGCCACTTGAGCCCCTGGAGTGGAGAAGTGCCTAGGTGACCCCACCGGCTCAGGAAGGAACCCCCCAC
TCCGTTTCTGCCATCA
mm4_intergenic_Gm23624|4930593C16Rik_chr9_120856921 ATGGCACGGGGTTGACATTCCAATGTAGGTGATTTGATCTACTTGGGTCTACTCTCCAACAGAAGTCCAAACACAAGAGA
AAAAGCTTGCTGCCACAGGCGGGGAGGTCAGTGTAGCCCAGATGAGCTCAGG
mm4_intergenic_Lbx1|Btrc_chr19_45283855 AGAGAGGTGGCAAGTTTGGGTGATCCGCAAGCCAGGAAGGCCTATGGGTCCTGGGTCCCCATTCCCCAGGGGAAAGACAC
AATGGGTATAGTTTTGCTTCCTCCTGGATGTGGTGAGGAAAGGGAAGTGGAGCAATGGC
mm4_intron_Cacna1i_chr15_80303319 TTGGCTGTCGAGGATCTGATATGCTTTCCTAGTTGGAAACATCTCCCTCCCACAGTCGGTGGGGTTAGACAGTGTCAGGC
GGTG
mm4_intron_Fstl4_chr11_53155817 AAATGACCTCGCTGTGCTCTGTCACTCCACTCTACCTCAGCTACTCTGGGAGGATGCTGAGAAGAACTGACCCACTGGCT
CATGAAGGATCGTGG
mm4_intron_Laptm5_chr4_130914196 GCAGAGCCTGGTGACATCTGCTTCCGGCCACAGGCCGTGTGGCACCAGGCAGTGGTACAAACCAGTTCTGTCCTGAAGCT
CTTGTGTGCACCT
mm4_intergenic_Atp5d|Midn_chr10_80146069 ATGGGTGTGACTAGTGCTGCTGGCCAGGCAAAGCGCCCTGACCACCAGCCAGGCCCCCCTGTCCCACCCCACAGGCTCTG
GGAAGAATCGGGAACCACCTGCTCCCACAGAGGCTCCGCCCTAGGCACACCCAACCTGTG
mm4_intron_Wdr48_chr9_119915311 CCGAACATAACCAGAGGGCACCTTTCCCCCCAACCCCTCTGGGAGGAGGAAAAAAGGGAGTTTCTGTCTAGGCTTGCTTA
CGTATTCACATGCACGCACACTTCCAGGTAGCAGT
mm4_intergenic_Gm26708|Arnt2_chr7_84198870 TCGTGGCTGTCTGTCAAGTCCTGTTCAATGAGTCATGAGGAGATTACCTCAATTCGTCCTCACAGCCACTGGGAAGCAGC
TTCTCCGAGGAGGAAACCAAGCTGACAGAATCTGAACCCAGGCAACATTTGGG
mm4_intron_Pdzd9_chr7_120669339 CCTGGCAGTAGAAATGGGCAGTGGTGGAACCACACAGCATCTGGGAGGAAAGACAGCATTCTGTACCACACGCA
mm4_intron_Arf3_chr15_98762304 AACTCAGGGCCAGTGACAAGCTGCTCCCTCCTTCGGTGACACCGCCCCCGCTCCGCCTGGGGGAGGAAGGCCCCACCTCT
CTCCTCCGAGCTAGCTC
mm4_intergenic_Ferd3l|Twist1_chr12_33957369 CTCTGGCGCGGAAGGAAATCGCCCCGCGTCCTCCCCGAAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNCTGGCCGCTCGGGCCAGGTCGGTTTTGAATG
mm4_intergenic_Gm26288|Atp10a_chr7_58302101 ACCTACAGCTCATTGCCCTTTTATGTCCCAATTTCCTTCTTCCACACAGGCTCTGAGAGGAAGGAGCCAGAATCCCTGTT
GACCAAGCTTAGCTGAGTAGCTGCTTTGCTC
mm4_intron_Fam134b_chr15_25844984 ATCTCTTTCCCACGCCCATCTCGGCTTCTCAGCTTCCTCCCAGAGGCCACAGGGGCAGCTAGCTCTCTGAGTTGTTGTTG
TTTTCTTTTTTTTTTTTTTTTTGGATGGTGCCTGTTTCAGCAGAA
mm4_intergenic_Dusp27|Gpa33_chr1_166128172 TCAGCACATTTGGAACGAACTTAACTTTACCTCATAGCATCTTGGAGGAAGCCTAGGAAAGGAAAATACCAATTATACAG
AACAGGTTGGCCCTCAGCCAGGCATGGGGAGAACACCATGT
mm4_intergenic_Tle3|Rplp1_chr9_61532691 GGCTCAGAGGATTCCATGGGAATGCCTTCCTTAAAAGTTGTCAAGTCTCAGAGCACAGATGAAGTCTTTGTGCCCCTTCC
CAGAGGGGGTGGGGGCTGTATGCATGCATATGTCCTCCTGCTTACCCATGCACT
mm4_intergenic_Ajap1|Gm25880_chr4_153774246 CAGATCCCACTCTTGAGACAGATTTATGTATATGCAAATATTCTGAACCAAAATCTGTAACACTTCTGCTTCTAAGTACT
TTAGAGCAAAGCCCCTCAGCCTGTGGGAGGAAGAGATATCCTATGCGTCCATAACCCA
mm4_intron_Ctnnbl1_chr2_157889229 GAGTGCTCCCTTCAGCTAGCATCTCTCCTCTTCCTTCCCCAAGACCTCTGGGAGGAATCTGTTCAATATTTATCAACTGC
TGCAGCAGCTGAAATAACTGGCGG
mm4_intergenic_C030010L15Rik|C030010L15Rik/B230307C23Rik_chr16_97997061 GCAGTGATAGGTGCAGTGGTGGTTCCTCCCTGGGGCTGTGCGGGGAGACAGAAGGGTAGGCTATTGGAGGACCGGCACAA
mm4_intron_Acap2_chr16_31200424 GAGGAACTAAGTGACCCGCAAAGATGCCCAGAAAGCTTGCGCGCAGAGGGGGTGGGGAGGTGGGCGCCAACGCGCAGCGG
AAGGAAAGGGAGAGGAAGAGCGCTAGAGCAG
mm4_intron_Hgsnat_chr8_25948318 GCTCAGCAGGTCTCACTCAGATCAGGGGCTTTCTCCCAGAGGTTTTGGGGAGTCCAGGAAAGTTACCCCT
mm3_exon_Ppm1m_chr9_106199246 AACCAGCCGGCGGACATTGCGTGGCGGCCGGGGGCTGCCCGCGCACGGCGGGACACCAGGGTCCCGCCCGCCCGCCCGCC
ACTGGGAGGAAGCGAGCCTGGGGGTGGGGCCTGGGGGTGAAAGAGGCCACG
mm3_intergenic_Tsen54|Llgl2_chr11_115823760 TCTCTCGCTTGGCTCTTGTGCTTTCAAGTCCGCTGCCTGCATGGAGTCGCGTCCATCCTGGAAAGCACCCAGGGACTCTT
TCCTCTTCCCAGAGGCGGTGGGACACCTAGAGCTGTGAGCAGTCCTGTGACCAG
mm4_intron_Fhit_chr14_9841151 CTCAGCATCGACAAATGGCATAGGAAATTCATTTTTAATGCACTCATTTAGGGCTGCCTCCCAGAGAGGGAGAGGCCTGC
ATATATTAATAAAGGCCAAGAAATAAATGGCATAGCTGTCCATACTTCACCCTGA
mm4_intergenic_Gm15978/Ttc7|Gm15978_chr17_87330739 TTGTGGGGCTGAGGGAATTCCCTCGCCCCCTGCCCATCTGCGCTACATTCCATTTCTAGCCCCACAGCCTCTCCGAGGAG
GCCTTCCCAGTGTGCCAGTACC
mm4_intron_Btbd11_chr10_85430814 TGCCTACGCACCCAAAGAGGCCCCCATCAACTCTGGGAGGATGCTTCTCCATTACATAGGGTTTGCTTGGGGCTCTGGTA
CTTT
mm2_exon_Cux1/Gm16599_chr5_136267992 AGGAGGCTTTGGGGAAACTTGAACTTGGCTTTTCTGTTTTCCTCACTGCATCGCAGCGCCTCTGGGAGCAAGCCTCCCCT
CAGTACTGCCTGACATGGGTAGCTT
mm4_intron_March1_chr8_66256964 GCCTGTGCCCTGAACTACTTATCACCTATCCTTACCTGACCTTGGGGGTTGGAGGTGAGGTGGTGGGGGAACCAACCACA
CAGACTCTGGGAGCAAGTGAGAAGTGTTTCAACAAGCTCCCTGAACACTGCT
mm4_exon_Gbp5_chr3_142503808 GACAGACTTGCTCCGGACAAGAAACTCCTCTGATTCTAATCAAACTGAGGGTGAGGGACCTGCTGACATGAGCTTCTTCC
CAGACTTGGTGTGGACTCTGAGAGATTTCTTCCTGGACCTGCAAGC
mm4_intron_Acsf3_chr8_122808397 CTGCAGTCGTGGAAGATGGTCCTTACCCCCATGCCAAGTACAGCCTTCTGATGGTAACATCCCCTTCCTCCCAGAGTCGT
GGTGGCCTGAAAAGGGTGTGGCCTCCTGCACTCTGCCTTGTGGATGCT
mm4_intergenic_Gm4842|Tcf4_chr18_69277440 GGTGTCCCTTGTTCTCTCACAATAGATTAGGGTTCCGATCTTATTTGCTTCCTCACAGATGCTGAGTGGCAGTGCCTAAA
TGATTGAGAGGAGATCTATTTCTTCTCAGCACGCCACA
mm4_intron_Cep128_chr12_91023085 TAGCTGGCCCTGTGACATTCACCGATATGACTGACAAGCGGGAATGATCCAGAAATTGCTACCTCCCAGAGGCTCAGTGG
TTAGAACAGCCTTGAGCCAAAGATGG
mm4_intergenic_Ifng|Dyrk2/4932442E05Rik_chr10_118568851 TGGGTGAATCTTGAGCCGAGATTCTGCTTTCTCCCAGATCCGGAGGGGGCTTTGTACGCGGAAGGCCTTTGCTTTCTCAC
CATCTGTCCTCTGTGGCCGCCTGGTGTAAAGATTCTACCTAGCAGTGCTGGAGAAGG
mm4_intergenic_Ajap1|Gm25880_chr4_153739521 GATCAAGGTGGCGAGAGAGGCTGAAGCTGGTCCGCTGCGACCCTGGGAGGAAGCCAGGCTGGGCTGCAGCGTTGGCTGGC
TGGGGCTCCACAGCAAGAGTAGGGCTGTTTTAGTGCGGCTCCATCTTCCTTCTCC
mm4_intron_Lrrc47_chr4_154017102 CACCTCTGTGCATTTGTGCCTAGGAGAGACAGGTACAGCCTGTGCCAGCAAGACCAGTTGCTGTGTGAGACTTCCCTCAG
CAGCTCAGGGAGGAAGCCAGTGGTGCCCTGCCCCCAAGACATGCCCAGCTTA
mm4_intergenic_Trp53inp1|Ccne2_chr4_11191064 CAGGCGTCTGAGGAGAAAGGCAGCGCGCGGCGCCAATATTTCCCGCGCGGGCTCTGGGAGGGAGCCGTAGGCAAGAGCGG
AGTGGCCGCTCGGCGGCGCGCGGGGACAAGGCTCCCACGTAC
mm4_intergenic_Wdr93|Mesp1_chr7_79786079 GACCACTAGCTACATGGGCCCAGGGGAGCTGCTTCCCCGAAGACAGGCGGCTGCCTCCCAGCTGCTGTGTGGCCCCTTCT
CTTTCCACACACTTCTCCGACTC
mm4_intergenic_Golga4|Itga9_chr9_118593798 GAGAGGACGCTTCATAGCCAAATCTAACATCCCATGAGTTACTTCAATAGTTGTTGAGTCTGGGGGTCCCCCCAGACTCT
GGAAGGAAGCCTTTTGTTATAAAATGTTTTGCTAAGATTTCCTCTGCGTCTGGT

Input file for Crispresso

Crispresso, written by Luca Pinello, is a software package to quantify the Cas9-induced mutations on off- or on-targets.

Click here to download an amplicon input file for Crispresso. For each off-target, it includes the off-target name, its PCR amplicon and the guide sequence. Keep a copy of this file.

After sequencing, run CRISPRessoPooled. The tool will map the reads to the amplicons and analyse the mutations:
CRISPRessoPooled -r1 Reads1.fastq.gz -r2 Reads2.fastq.gz -f crisporAmplicons_mN1FkRligAThyqKv3eg3.txt --name MY_EXPERIMENT

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CRISPR/Cas9 Guide Designer for chordate vertebrate ecdysozoans lophotrochozoans protostomes spongi corals plants butterflies metazoans genomes fruitflies insects nematodes mammals.