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Contents:

PCR primers for off-targets of GCTCCCCACTGCCATCTCCG 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_52313682_F Primer3: not found at this Tm N.d. 1.00
ontarget_mm0_exon_5730457N03Rik/Evx1_chr6_52313682_R Primer3: not found at this Tm N.d. 1.00
mm4_intergenic_Gm12141|Gm12142_chr11_41590471_F Primer3: not found at this Tm N.d. 0.78
mm4_intergenic_Gm12141|Gm12142_chr11_41590471_R Primer3: not found at this Tm N.d. 0.78
mm2_intergenic_Gm5753|Lancl3_chrX_9144532_F Primer3: not found at this Tm N.d. 0.71
mm2_intergenic_Gm5753|Lancl3_chrX_9144532_R Primer3: not found at this Tm N.d. 0.71
mm3_intron_Slit1_chr19_41704901_F TCGTCGGCAGCGTCTGCTAAGGACACACTGGCAG 59.9 0.54
mm3_intron_Slit1_chr19_41704901_R GTCTCGTGGGCTCGGCCGGCCTTAGCATGAAGTCA 60.1 0.54
mm4_intron_Sox6_chr7_115799498_F Primer3: not found at this Tm N.d. 0.53
mm4_intron_Sox6_chr7_115799498_R Primer3: not found at this Tm N.d. 0.53
mm4_intergenic_6030419C18Rik|Cd276_chr9_58516830_F TCGTCGGCAGCGTCAGGAACTTGATGCCTTTGCA 58.0 0.43
mm4_intergenic_6030419C18Rik|Cd276_chr9_58516830_R GTCTCGTGGGCTCGGATCCAATGAGGGATACGGCA 58.5 0.43
mm4_intergenic_Lipc|Aqp9_chr9_71034287_F Primer3: not found at this Tm N.d. 0.41
mm4_intergenic_Lipc|Aqp9_chr9_71034287_R Primer3: not found at this Tm N.d. 0.41
mm4_intergenic_Ppargc1a|mmu-mir-6417_chr5_52079228_F Primer3: not found at this Tm N.d. 0.36
mm4_intergenic_Ppargc1a|mmu-mir-6417_chr5_52079228_R Primer3: not found at this Tm N.d. 0.36
mm4_intergenic_Ap4e1|Gm24081_chr2_127039237_F Primer3: not found at this Tm N.d. 0.35
mm4_intergenic_Ap4e1|Gm24081_chr2_127039237_R Primer3: not found at this Tm N.d. 0.35
mm4_intergenic_Gm22181|Gm26994_chr8_112470321_F Primer3: not found at this Tm N.d. 0.32
mm4_intergenic_Gm22181|Gm26994_chr8_112470321_R Primer3: not found at this Tm N.d. 0.32
mm4_intron_Nphs1_chr7_30481857_F TCGTCGGCAGCGTCACAAGAAGCTCCACGGTGAG 59.9 0.31
mm4_intron_Nphs1_chr7_30481857_R GTCTCGTGGGCTCGGGTCATTTCCCTTGACTCTCAGGT 59.9 0.31
mm4_intron_Npas2_chr1_39213070_F Primer3: not found at this Tm N.d. 0.30
mm4_intron_Npas2_chr1_39213070_R Primer3: not found at this Tm N.d. 0.30
mm4_intergenic_Gm26970|Foxk1_chr5_142390553_F Primer3: not found at this Tm N.d. 0.29
mm4_intergenic_Gm26970|Foxk1_chr5_142390553_R Primer3: not found at this Tm N.d. 0.29
mm4_intergenic_Gm26971|Gse1_chr8_120532010_F TCGTCGGCAGCGTCAGGGAATGGAAACCTGGCAC 60.2 0.29
mm4_intergenic_Gm26971|Gse1_chr8_120532010_R GTCTCGTGGGCTCGGCATGGAGGAGACAACACCCC 60.0 0.29
mm3_intron_Sfswap_chr5_129562569_F TCGTCGGCAGCGTCCTGTCCCGTCCTGTTCAGTC 60.0 0.28
mm3_intron_Sfswap_chr5_129562569_R GTCTCGTGGGCTCGGACAGCAGCACATCCTCCATC 60.1 0.28
mm3_intron_Prss12_chr3_123496448_F Primer3: not found at this Tm N.d. 0.28
mm3_intron_Prss12_chr3_123496448_R Primer3: not found at this Tm N.d. 0.28
mm3_intron_Rxra_chr2_27736878_F Primer3: not found at this Tm N.d. 0.26
mm3_intron_Rxra_chr2_27736878_R Primer3: not found at this Tm N.d. 0.26
mm4_exon_Cd2ap_chr17_42830061_F TCGTCGGCAGCGTCGGAGCAGGTTCACTCCCATT 59.6 0.26
mm4_exon_Cd2ap_chr17_42830061_R GTCTCGTGGGCTCGGAAGTTCCTTTGACTGGCCCT 59.1 0.26
mm4_intron_Rasa4_chr5_136109138_F TCGTCGGCAGCGTCGGATGCTCTGAGGCCATCTC 59.9 0.26
mm4_intron_Rasa4_chr5_136109138_R GTCTCGTGGGCTCGGACTTGCCTAGGGTCCAGGAT 59.9 0.26
mm4_exon_Zfp704/C030034L19Rik_chr3_9432972_F Primer3: not found at this Tm N.d. 0.25
mm4_exon_Zfp704/C030034L19Rik_chr3_9432972_R Primer3: not found at this Tm N.d. 0.25
mm4_intergenic_Tbx4|Gm11443_chr11_85931669_F TCGTCGGCAGCGTCTTGGCCTACAGTAGCCATGC 60.1 0.25
mm4_intergenic_Tbx4|Gm11443_chr11_85931669_R GTCTCGTGGGCTCGGAGGACCTCAGTAGTGCCTGA 59.5 0.25
mm4_intergenic_Gm5449|Drd1a_chr13_53649630_F TCGTCGGCAGCGTCTAGGGCATTTGGCTGCTGAT 59.7 0.24
mm4_intergenic_Gm5449|Drd1a_chr13_53649630_R GTCTCGTGGGCTCGGATTGCAGGGTACACTGGCTC 60.0 0.24
mm4_intron_Dock7_chr4_98952710_F TCGTCGGCAGCGTCAGAATACCCACGAGGAGCCT 60.0 0.24
mm4_intron_Dock7_chr4_98952710_R GTCTCGTGGGCTCGGCCTCCAGATTAAATGTGCATGACC 59.9 0.24
mm4_intergenic_AC158354.1|Gm4804_chr12_15604819_F TCGTCGGCAGCGTCTCTACAGAAGCCCATGACTAGT 58.0 0.23
mm4_intergenic_AC158354.1|Gm4804_chr12_15604819_R GTCTCGTGGGCTCGGAGCCCACACAACTAATTGACCT 59.8 0.23
mm4_intergenic_Gtpbp1|Sun2_chr15_79722621_F TCGTCGGCAGCGTCAGTGTGGTGATGCTGGACTG 59.9 0.23
mm4_intergenic_Gtpbp1|Sun2_chr15_79722621_R GTCTCGTGGGCTCGGGGCTGTAGGGCAATGCTGTA 60.1 0.23
mm4_intergenic_Gm11726|Socs3_chr11_117934944_F TCGTCGGCAGCGTCCTACCAAGCACCAGCCACTT 60.2 0.23
mm4_intergenic_Gm11726|Socs3_chr11_117934944_R GTCTCGTGGGCTCGGCAGCCTACTGCAGAGACACC 60.1 0.23
mm4_intergenic_Tshz2/A630075F10Rik|Zfp217_chr2_170108195_F Primer3: not found at this Tm N.d. 0.22
mm4_intergenic_Tshz2/A630075F10Rik|Zfp217_chr2_170108195_R Primer3: not found at this Tm N.d. 0.22
mm4_intron_Gm3618_chr14_6318077_F TCGTCGGCAGCGTCAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm3618_chr14_6318077_R GTCTCGTGGGCTCGGGTCCCTGTTCCCAAGCATCA 59.9 0.22
mm4_intron_Gm2916_chr14_3917732_F TCGTCGGCAGCGTCATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_Gm2916_chr14_3917732_R GTCTCGTGGGCTCGGAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm21965_chr14_3779530_F TCGTCGGCAGCGTCATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_Gm21965_chr14_3779530_R GTCTCGTGGGCTCGGAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm11109_chr14_3540136_F TCGTCGGCAGCGTCATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_Gm11109_chr14_3540136_R GTCTCGTGGGCTCGGAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm10410_chr14_4964050_F TCGTCGGCAGCGTCATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_Gm10410_chr14_4964050_R GTCTCGTGGGCTCGGAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm10339_chr14_7378819_F TCGTCGGCAGCGTCAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm10339_chr14_7378819_R GTCTCGTGGGCTCGGATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_Gm10251_chr14_6642569_F TCGTCGGCAGCGTCAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intron_Gm10251_chr14_6642569_R GTCTCGTGGGCTCGGATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_1700110I01Rik_chr14_3301629_F TCGTCGGCAGCGTCATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intron_1700110I01Rik_chr14_3301629_R GTCTCGTGGGCTCGGAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intergenic_Gm5458|4930469B13Rik_chr14_19615795_F Primer3: not found at this Tm N.d. 0.22
mm4_intergenic_Gm5458|4930469B13Rik_chr14_19615795_R Primer3: not found at this Tm N.d. 0.22
mm4_intergenic_Gm3526|Gm3339_chr14_5273630_F Primer3: not found at this Tm N.d. 0.22
mm4_intergenic_Gm3526|Gm3339_chr14_5273630_R Primer3: not found at this Tm N.d. 0.22
mm4_intergenic_Gm3344|Gm8265_chr14_5626135_F TCGTCGGCAGCGTCAATTCTTCTTGCCTGGGCCA 59.8 0.22
mm4_intergenic_Gm3344|Gm8265_chr14_5626135_R GTCTCGTGGGCTCGGATGTCCCTGTTCCCAAGCAC 60.2 0.22
mm4_intergenic_Gm11922|Map3k7_chr4_31697213_F Primer3: not found at this Tm N.d. 0.21
mm4_intergenic_Gm11922|Map3k7_chr4_31697213_R Primer3: not found at this Tm N.d. 0.21
mm4_exon_Esyt3_chr9_99321555_F Primer3: not found at this Tm N.d. 0.20
mm4_exon_Esyt3_chr9_99321555_R Primer3: not found at this Tm N.d. 0.20
mm4_intron_Gck_chr11_5909813_F TCGTCGGCAGCGTCGTTGCCCCTCTGGTAAAGGG 60.3 0.20
mm4_intron_Gck_chr11_5909813_R GTCTCGTGGGCTCGGAGCAGCAAAGGTCCCTAAGC 60.3 0.20
mm4_intron_Dgki_chr6_36919003_F Primer3: not found at this Tm N.d. 0.20
mm4_intron_Dgki_chr6_36919003_R Primer3: not found at this Tm N.d. 0.20
mm4_intron_Socs6_chr18_88821854_F TCGTCGGCAGCGTCAGTAGCTTCATAAGGCATAAGCA 57.7 0.19
mm4_intron_Socs6_chr18_88821854_R GTCTCGTGGGCTCGGACTCAGGTAGCCAGCTAATGC 59.8 0.19
mm4_intergenic_Tox3|Chd9_chr8_90512765_F TCGTCGGCAGCGTCAGCTCTATTGACAGTCGCATCA 59.5 0.19
mm4_intergenic_Tox3|Chd9_chr8_90512765_R GTCTCGTGGGCTCGGCACAGCCCTGTAAGCTTCCA 59.9 0.19
mm4_intron_E130309F12Rik_chr4_49190343_F Primer3: not found at this Tm N.d. 0.19
mm4_intron_E130309F12Rik_chr4_49190343_R Primer3: not found at this Tm N.d. 0.19
mm4_intron_Cacna1d_chr14_30174858_F TCGTCGGCAGCGTCACCCAAGAACCTGCCTTGTC 60.1 0.19
mm4_intron_Cacna1d_chr14_30174858_R GTCTCGTGGGCTCGGTGATGTTTGCCTCACACGGA 59.8 0.19
mm4_intergenic_Pfdn1|Hbegf_chr18_36487659_F Primer3: not found at this Tm N.d. 0.19
mm4_intergenic_Pfdn1|Hbegf_chr18_36487659_R Primer3: not found at this Tm N.d. 0.19
mm3_intergenic_Gm20610|Pcbd1_chr10_61080246_F TCGTCGGCAGCGTCTGGAGCTGAGAAACTGATGCT 59.3 0.18
mm3_intergenic_Gm20610|Pcbd1_chr10_61080246_R GTCTCGTGGGCTCGGTCCCTGCCCTGTTCTCTCTC 60.6 0.18
mm4_intron_L3mbtl3_chr10_26374444_F TCGTCGGCAGCGTCGGAGAAGATCGCCGCGAC 60.6 0.18
mm4_intron_L3mbtl3_chr10_26374444_R GTCTCGTGGGCTCGGAAGTGCTTTTAGGGAACGCG 59.1 0.18
mm4_intron_D630024D03Rik_chr11_31796358_F TCGTCGGCAGCGTCAGGCCCTGTGGTCACTAGAT 59.9 0.17
mm4_intron_D630024D03Rik_chr11_31796358_R GTCTCGTGGGCTCGGACATTGTGACTCTGGGGCAG 59.9 0.17
mm4_intergenic_Gm25460|Gm5263_chr1_146162085_F Primer3: not found at this Tm N.d. 0.17
mm4_intergenic_Gm25460|Gm5263_chr1_146162085_R Primer3: not found at this Tm N.d. 0.17
mm4_intergenic_Mir5112|4930445N18Rik_chr18_82839194_F Primer3: not found at this Tm N.d. 0.16
mm4_intergenic_Mir5112|4930445N18Rik_chr18_82839194_R Primer3: not found at this Tm N.d. 0.16
mm4_intron_Nrxn2_chr19_6450731_F TCGTCGGCAGCGTCCTCCTGTGACTTGCCTCCAG 60.0 0.16
mm4_intron_Nrxn2_chr19_6450731_R GTCTCGTGGGCTCGGGTGGTCCTTCACAGTAGGGC 60.0 0.16
mm3_intron_Ccdc141_chr2_77169056_F TCGTCGGCAGCGTCGGCTTTCCCTGCCCATCAAT 60.6 0.15
mm3_intron_Ccdc141_chr2_77169056_R GTCTCGTGGGCTCGGAAAACCACTCACGGTCCCC 59.8 0.15
mm4_intron_Impg1_chr9_80364699_F TCGTCGGCAGCGTCCATCCAGGACCTCCGATTCG 59.9 0.15
mm4_intron_Impg1_chr9_80364699_R GTCTCGTGGGCTCGGCCAAAGGCCCTCACCATCTT 59.9 0.15
mm4_intergenic_Ntm|Gm26435_chr9_30100297_F TCGTCGGCAGCGTCACCATGAATAACCCGCTGATAT 57.3 0.15
mm4_intergenic_Ntm|Gm26435_chr9_30100297_R GTCTCGTGGGCTCGGGCAGAAGGAAGGCTAAGGGG 60.1 0.15
mm4_intergenic_Gm11846|n-R5s182_chr4_12797716_F TCGTCGGCAGCGTCTGCAATGTGGTGAATAAGAGTTACC 59.5 0.15
mm4_intergenic_Gm11846|n-R5s182_chr4_12797716_R GTCTCGTGGGCTCGGAAGCAAATTACCTCTGCCCT 57.0 0.15
mm4_intergenic_Gtse1|Trmu_chr15_85877768_F TCGTCGGCAGCGTCTAGGCTGATGACCAAAGCCC 59.7 0.15
mm4_intergenic_Gtse1|Trmu_chr15_85877768_R GTCTCGTGGGCTCGGATGTGGGCTTCAGGAACACT 59.2 0.15
mm4_intergenic_Igsf3|Atp1a1_chr3_101498828_F Primer3: not found at this Tm N.d. 0.15
mm4_intergenic_Igsf3|Atp1a1_chr3_101498828_R Primer3: not found at this Tm N.d. 0.15
mm4_intergenic_Tars|Npr3_chr15_11533236_F TCGTCGGCAGCGTCGCCCAGCGATTCTCAGAACT 60.1 0.15
mm4_intergenic_Tars|Npr3_chr15_11533236_R GTCTCGTGGGCTCGGGCTTCCTGACAGAAAGCACG 59.4 0.15
mm4_intron_Fgf2_chr3_37398673_F TCGTCGGCAGCGTCACCACAGTTTTCAAGAGCTCCA 60.0 0.14
mm4_intron_Fgf2_chr3_37398673_R GTCTCGTGGGCTCGGGGACAGCCCCATTTTCACCT 60.2 0.14
mm4_exon_Gm9166_chrX_103926554_F TCGTCGGCAGCGTCGGACGATGGAAAGATTGGCC 58.9 0.14
mm4_exon_Gm9166_chrX_103926554_R GTCTCGTGGGCTCGGGGCCAGCGGACCAGATTTAA 60.3 0.14
mm3_intron_Col6a5_chr9_105926905_F Primer3: not found at this Tm N.d. 0.14
mm3_intron_Col6a5_chr9_105926905_R Primer3: not found at this Tm N.d. 0.14
mm4_intergenic_mmu-mir-6351|Tns1_chr1_73905659_F TCGTCGGCAGCGTCACCTGTGGTCTGGAGTCTGA 59.8 0.13
mm4_intergenic_mmu-mir-6351|Tns1_chr1_73905659_R GTCTCGTGGGCTCGGTCCCTCTGCCAGCTTTGTAG 59.3 0.13
mm4_intron_Dock3_chr9_106942005_F TCGTCGGCAGCGTCGGAGCCTAGTATGAGGGACA 57.6 0.13
mm4_intron_Dock3_chr9_106942005_R GTCTCGTGGGCTCGGAGTGTGGTGCTATTGCTTCT 57.1 0.13
mm4_intron_A330074K22Rik_chr8_120222644_F TCGTCGGCAGCGTCGAACCTCTGGGGCTTGGATG 60.3 0.13
mm4_intron_A330074K22Rik_chr8_120222644_R GTCTCGTGGGCTCGGGCTGACAGGACAGACTCGAC 60.1 0.13
mm4_intron_Snx27_chr3_94508601_F Primer3: not found at this Tm N.d. 0.13
mm4_intron_Snx27_chr3_94508601_R Primer3: not found at this Tm N.d. 0.13
mm4_intergenic_Synj1|Gm15965_chr16_90983481_F Primer3: not found at this Tm N.d. 0.12
mm4_intergenic_Synj1|Gm15965_chr16_90983481_R Primer3: not found at this Tm N.d. 0.12
mm4_exon_Zdhhc14_chr17_5647923_F TCGTCGGCAGCGTCTTTCTCTCTGCACCCTGCTG 59.9 0.12
mm4_exon_Zdhhc14_chr17_5647923_R GTCTCGTGGGCTCGGGTCACTGAAGCTGGTCCGAA 59.9 0.12
mm4_intron_Stoml3_chr3_53501116_F TCGTCGGCAGCGTCGAAGCTGAGTGGAACCTGCT 59.9 0.12
mm4_intron_Stoml3_chr3_53501116_R GTCTCGTGGGCTCGGTCCAACACACAGAGACAGCA 59.1 0.12
mm4_intergenic_Cald1|Gm13861_chr6_34627968_F Primer3: not found at this Tm N.d. 0.12
mm4_intergenic_Cald1|Gm13861_chr6_34627968_R Primer3: not found at this Tm N.d. 0.12
mm4_intergenic_D630032N06Rik|Gm22587_chr11_85297038_F TCGTCGGCAGCGTCCAGCTCTTAGGCCTCATGGG 59.8 0.12
mm4_intergenic_D630032N06Rik|Gm22587_chr11_85297038_R GTCTCGTGGGCTCGGCAGCTCAGACAGTGTTGGGT 59.8 0.12
mm4_intron_Gpr19_chr6_134891469_F Primer3: not found at this Tm N.d. 0.12
mm4_intron_Gpr19_chr6_134891469_R Primer3: not found at this Tm N.d. 0.12
mm4_intergenic_Gm11779|Gm11782_chr4_5397576_F TCGTCGGCAGCGTCAGGATTCCTTTGGTACCTGCTG 60.0 0.11
mm4_intergenic_Gm11779|Gm11782_chr4_5397576_R GTCTCGTGGGCTCGGATTTTCTGTTTCAGTGGTTCCC 57.0 0.11
mm4_intergenic_Gm25665|Gm24469_chr8_18323419_F TCGTCGGCAGCGTCAGTGCCATTCCCTCACTCAC 59.6 0.11
mm4_intergenic_Gm25665|Gm24469_chr8_18323419_R GTCTCGTGGGCTCGGGTCCTGGTTTCCATGAGCCT 59.6 0.11
mm4_exon_Gm4980/Gm10605_chr7_99628879_F TCGTCGGCAGCGTCTTTCATGGTGGCTGCCTTCT 59.8 0.11
mm4_exon_Gm4980/Gm10605_chr7_99628879_R GTCTCGTGGGCTCGGGCTTCTCTTCCCCAGCTGAG 60.1 0.11
mm4_intron_Ptprk_chr10_28099312_F Primer3: not found at this Tm N.d. 0.11
mm4_intron_Ptprk_chr10_28099312_R Primer3: not found at this Tm N.d. 0.11
mm4_intergenic_Gm26197|Akap11_chr14_78316664_F Primer3: not found at this Tm N.d. 0.11
mm4_intergenic_Gm26197|Akap11_chr14_78316664_R Primer3: not found at this Tm N.d. 0.11
mm4_intron_9330101J02Rik_chr7_139662407_F TCGTCGGCAGCGTCCTCAGCCTGAAGAGAGCCTG 59.8 0.11
mm4_intron_9330101J02Rik_chr7_139662407_R GTCTCGTGGGCTCGGAAAGTCACACTGGCTGGTCC 60.1 0.11
mm4_intron_Ttn_chr2_76802555_F TCGTCGGCAGCGTCAGGCTTAGTGAACTCAACCGG 59.9 0.11
mm4_intron_Ttn_chr2_76802555_R GTCTCGTGGGCTCGGAGCAAACTGAGACAGAAGCAG 58.5 0.11
mm4_intergenic_Wdpcp|Gm12047_chr11_21871554_F Primer3: not found at this Tm N.d. 0.11
mm4_intergenic_Wdpcp|Gm12047_chr11_21871554_R Primer3: not found at this Tm N.d. 0.11
mm4_intergenic_Hsp90aa1|Wdr20a_chr12_110737922_F TCGTCGGCAGCGTCGTGCGCAGTTGGACCATTAA 59.1 0.11
mm4_intergenic_Hsp90aa1|Wdr20a_chr12_110737922_R GTCTCGTGGGCTCGGTCGGCCGCTCGCTTTCTC 62.7 0.11
mm4_intergenic_Gm5633|Gm22908_chr12_21982249_F Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Gm5633|Gm22908_chr12_21982249_R Primer3: not found at this Tm N.d. 0.10
mm4_intergenic_Tacc3|Fgfr3_chr5_33705502_F TCGTCGGCAGCGTCAATTGAGTCGGCCAGAGTGG 60.0 0.10
mm4_intergenic_Tacc3|Fgfr3_chr5_33705502_R GTCTCGTGGGCTCGGATTGAGTGCTGCATTCCGGG 61.0 0.10
mm3_intergenic_Gm23892|Gm25382_chr10_15262434_F Primer3: not found at this Tm N.d. 0.10
mm3_intergenic_Gm23892|Gm25382_chr10_15262434_R Primer3: not found at this Tm N.d. 0.10
mm4_exon_Ano9_chr7_141104566_F Primer3: not found at this Tm N.d. 0.10
mm4_exon_Ano9_chr7_141104566_R Primer3: not found at this Tm N.d. 0.10
mm4_intron_Efr3b_chr12_4020723_F TCGTCGGCAGCGTCGGAGCAGAGTGGTGCAAGAG 60.6 0.10
mm4_intron_Efr3b_chr12_4020723_R GTCTCGTGGGCTCGGCTCCCTTTCCCTCTGGCTTG 60.0 0.10
mm4_intron_Mpp1_chrX_75130077_F Primer3: not found at this Tm N.d. 0.09
mm4_intron_Mpp1_chrX_75130077_R Primer3: not found at this Tm N.d. 0.09
mm4_exon_Tox_chr4_6822903_F Primer3: not found at this Tm N.d. 0.09
mm4_exon_Tox_chr4_6822903_R Primer3: not found at this Tm N.d. 0.09
mm4_intergenic_Gm5108|Grxcr1_chr5_68008363_F TCGTCGGCAGCGTCGGTGGCAACCATTAGTCTTAGT 58.0 0.09
mm4_intergenic_Gm5108|Grxcr1_chr5_68008363_R GTCTCGTGGGCTCGGGCTCTCAGTAGTGAAGAACCCG 60.4 0.09
mm4_intergenic_Gm13191|Frmd4a_chr2_3990635_F TCGTCGGCAGCGTCTTGGCTGTAGCAAGACAGGG 59.9 0.09
mm4_intergenic_Gm13191|Frmd4a_chr2_3990635_R GTCTCGTGGGCTCGGGCTGTCCTGAACAAGCCTGA 60.2 0.09
mm4_intergenic_Rbks|Mrpl33_chr5_31649007_F TCGTCGGCAGCGTCGGAGGGTTTGTGCAGGATCA 59.9 0.09
mm4_intergenic_Rbks|Mrpl33_chr5_31649007_R GTCTCGTGGGCTCGGTCCTGTGTCACAAGTAGAGATGC 60.0 0.09
mm3_intergenic_Igsf21|Gm13027_chr4_140116978_F TCGTCGGCAGCGTCTGTGGAATGTGGCACAGGTT 60.1 0.08
mm3_intergenic_Igsf21|Gm13027_chr4_140116978_R GTCTCGTGGGCTCGGTCCCTGGACTCAAAGACCCT 59.8 0.08
mm4_exon_Zmiz1/Zmiz1os1_chr14_25460501_F TCGTCGGCAGCGTCTGTGGGAGGGAAGCTCAGAA 60.4 0.08
mm4_exon_Zmiz1/Zmiz1os1_chr14_25460501_R GTCTCGTGGGCTCGGTCCTGGACAGATGTCTCCGG 60.6 0.08
mm4_intron_Cdc42ep2_chr19_5922698_F Primer3: not found at this Tm N.d. 0.08
mm4_intron_Cdc42ep2_chr19_5922698_R Primer3: not found at this Tm N.d. 0.08
mm4_intron_Clic5_chr17_44254806_F TCGTCGGCAGCGTCGGTTCCCCTCTTCCCTGGA 60.2 0.08
mm4_intron_Clic5_chr17_44254806_R GTCTCGTGGGCTCGGGTCCAGGCTCCGTTCTGATG 60.4 0.08
mm4_exon_Wfs1_chr5_36988912_F TCGTCGGCAGCGTCCCGCGAAGTTGCTCCGAAA 61.3 0.08
mm4_exon_Wfs1_chr5_36988912_R GTCTCGTGGGCTCGGCAGGAATGGAGGGTGGCAG 60.0 0.08
mm4_intron_Pcgf5_chr19_36436303_F TCGTCGGCAGCGTCAGAATGGTCACACTGCCTGA 58.9 0.08
mm4_intron_Pcgf5_chr19_36436303_R GTCTCGTGGGCTCGGGTGTGCTTTGTCATGCAGCA 59.9 0.08
mm4_intergenic_Gm9985|Ggt5_chr10_75593643_F TCGTCGGCAGCGTCTCCCTCCCGGAGAGAGTTTT 59.8 0.08
mm4_intergenic_Gm9985|Ggt5_chr10_75593643_R GTCTCGTGGGCTCGGAATGGCAGCAAGAGGGTAGG 59.7 0.08
mm4_intron_Pear1_chr3_87753968_F TCGTCGGCAGCGTCAAGGGACGCATGGTGATCAG 60.1 0.08
mm4_intron_Pear1_chr3_87753968_R GTCTCGTGGGCTCGGCCCTCCTGTTAGCGGTTCAG 60.1 0.08
mm4_intergenic_Gm22580|Dmd_chrX_83571290_F Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Gm22580|Dmd_chrX_83571290_R Primer3: not found at this Tm N.d. 0.08
mm4_intergenic_Gm24200|1190002N15Rik_chr9_94474454_F TCGTCGGCAGCGTCTGAGGAGTGTGGTTGAAAGCA 59.7 0.07
mm4_intergenic_Gm24200|1190002N15Rik_chr9_94474454_R GTCTCGTGGGCTCGGTGGCTTCAAAGACCCATACTTGT 60.1 0.07
mm4_exon_Tfap2b_chr1_19237118_F TCGTCGGCAGCGTCGCGAAGGGGCAGCTAGATAG 60.0 0.07
mm4_exon_Tfap2b_chr1_19237118_R GTCTCGTGGGCTCGGTGGCTAAGGAAAGCATGGGG 60.0 0.07
mm4_intergenic_5930403N24Rik|Gm26535_chr10_37249689_F TCGTCGGCAGCGTCCATTTGGCAGCCCCAGTTTC 60.0 0.07
mm4_intergenic_5930403N24Rik|Gm26535_chr10_37249689_R GTCTCGTGGGCTCGGAGAAGTTTGTGGGGCAACGA 60.1 0.07
mm4_intergenic_Gm12341|Abr_chr11_76532315_F TCGTCGGCAGCGTCGATTCACACCAACAGGCCCT 60.2 0.07
mm4_intergenic_Gm12341|Abr_chr11_76532315_R GTCTCGTGGGCTCGGAACGCTTTTCCCAAGAGGCT 60.1 0.07
mm4_intergenic_Tmem45b|Barx2_chr9_31841683_F TCGTCGGCAGCGTCAAAGAGGGATGCCTCTGTGC 60.0 0.07
mm4_intergenic_Tmem45b|Barx2_chr9_31841683_R GTCTCGTGGGCTCGGTGGTGGCTTTGATCCCCTTC 59.9 0.07
mm4_intron_Eno1_chr4_150239126_F TCGTCGGCAGCGTCCACATTTCCCTCTGGTCTCCA 59.3 0.07
mm4_intron_Eno1_chr4_150239126_R GTCTCGTGGGCTCGGGCTACCTGTACTGTGGGCAA 59.6 0.07
mm4_intergenic_Rhbdd1|Gm22112_chr1_82382144_F TCGTCGGCAGCGTCATTGCAGCTTCCAGTGAGCT 59.9 0.07
mm4_intergenic_Rhbdd1|Gm22112_chr1_82382144_R GTCTCGTGGGCTCGGTCACAGGATATGCGCAGGTC 59.8 0.07
mm4_intergenic_Fndc3b|Tmem212_chr3_27782243_F TCGTCGGCAGCGTCAGCCAAGTACGGTGAACTGG 59.9 0.07
mm4_intergenic_Fndc3b|Tmem212_chr3_27782243_R GTCTCGTGGGCTCGGGGAGGGTAAGGGCTCTGTCA 60.6 0.07
mm4_exon_Jun/BC042782_chr4_95050871_F TCGTCGGCAGCGTCGCCTGCTACTGAGGCCAC 60.1 0.07
mm4_exon_Jun/BC042782_chr4_95050871_R GTCTCGTGGGCTCGGGGCTGAACTGCATAGCCAGA 60.1 0.07
mm4_intergenic_Klc3|Ckm_chr7_19407044_F TCGTCGGCAGCGTCTAGTTCCACCCTCCCTAGCC 60.0 0.07
mm4_intergenic_Klc3|Ckm_chr7_19407044_R GTCTCGTGGGCTCGGCCCCAGTTCCTTTCCAGGTC 59.9 0.07
mm4_exon_9930104L06Rik_chr4_124943247_F Primer3: not found at this Tm N.d. 0.07
mm4_exon_9930104L06Rik_chr4_124943247_R Primer3: not found at this Tm N.d. 0.07
mm4_exon_Epha7_chr4_28815628_F Primer3: not found at this Tm N.d. 0.07
mm4_exon_Epha7_chr4_28815628_R Primer3: not found at this Tm N.d. 0.07
mm3_intron_Tcp11l2_chr10_84609783_F TCGTCGGCAGCGTCTCTCCTCCAGCTGAGAGGAC 60.0 0.07
mm3_intron_Tcp11l2_chr10_84609783_R GTCTCGTGGGCTCGGCACCTTACTGTGCAGGCACT 60.2 0.07
mm4_exon_Prkd1_chr12_50649111_F Primer3: not found at this Tm N.d. 0.06
mm4_exon_Prkd1_chr12_50649111_R Primer3: not found at this Tm N.d. 0.06
mm4_intergenic_Tapt1|Ldb2_chr5_44321514_F Primer3: not found at this Tm N.d. 0.06
mm4_intergenic_Tapt1|Ldb2_chr5_44321514_R Primer3: not found at this Tm N.d. 0.06
mm4_intergenic_Gm14120|Gm25866_chr2_148536877_F TCGTCGGCAGCGTCGTCACAGAAGGCTGGCAATG 59.4 0.06
mm4_intergenic_Gm14120|Gm25866_chr2_148536877_R GTCTCGTGGGCTCGGTGGTCTCTCAGGCTCTGTTCT 60.2 0.06
mm3_intergenic_9330133O14Rik|Snai3_chr8_122447592_F TCGTCGGCAGCGTCGGCTCACACGCTATAGGCAA 60.1 0.06
mm3_intergenic_9330133O14Rik|Snai3_chr8_122447592_R GTCTCGTGGGCTCGGGCCGCCTCAGGAATGTAACT 60.1 0.06
mm4_intron_Slc41a3_chr6_90635661_F TCGTCGGCAGCGTCACTGTACCTGGGGCATCTCT 59.9 0.05
mm4_intron_Slc41a3_chr6_90635661_R GTCTCGTGGGCTCGGTGCACATCAGACAGGCCTAA 59.0 0.05
mm4_intron_Acacb_chr5_114202236_F TCGTCGGCAGCGTCTGCATGAGGGTAAGCCTTGG 60.0 0.05
mm4_intron_Acacb_chr5_114202236_R GTCTCGTGGGCTCGGGTGCAGTAAGCTATGGCCCA 60.1 0.05
mm4_exon_Gm20421/Hes5_chr4_154961380_F TCGTCGGCAGCGTCAACACAGCAAAGGTGAGCCC 61.1 0.05
mm4_exon_Gm20421/Hes5_chr4_154961380_R GTCTCGTGGGCTCGGCTGGTGCAGGCTCTTGGG 60.3 0.05
mm3_intergenic_Irx4|Gm10263_chr13_73270370_F TCGTCGGCAGCGTCTGAGAGCTTCTGTTCAGGCC 59.6 0.05
mm3_intergenic_Irx4|Gm10263_chr13_73270370_R GTCTCGTGGGCTCGGATTTCAGAGCAGCTCGCCTT 60.0 0.05
mm4_intron_Sept9_chr11_117324886_F Primer3: not found at this Tm N.d. 0.05
mm4_intron_Sept9_chr11_117324886_R Primer3: not found at this Tm N.d. 0.05
mm4_intergenic_Pdgfb|Rpl3_chr15_80019977_F TCGTCGGCAGCGTCCGGCTGGAAGTTAGCAGAGT 59.7 0.05
mm4_intergenic_Pdgfb|Rpl3_chr15_80019977_R GTCTCGTGGGCTCGGGCAGGGGTCTTCTCCACAAG 60.3 0.05
mm4_intergenic_1500016L03Rik|1700109G15Rik_chr11_84641703_F TCGTCGGCAGCGTCTCCCAAACCTGAGAGGGACA 60.1 0.05
mm4_intergenic_1500016L03Rik|1700109G15Rik_chr11_84641703_R GTCTCGTGGGCTCGGGAGCCCGCAGTGGCAATATA 60.2 0.05
mm4_intergenic_Sh3bgrl2|Elovl4_chr9_83671111_F Primer3: not found at this Tm N.d. 0.05
mm4_intergenic_Sh3bgrl2|Elovl4_chr9_83671111_R Primer3: not found at this Tm N.d. 0.05
mm4_intergenic_Gm11224|Gm11225_chr4_69969225_F Primer3: not found at this Tm N.d. 0.05
mm4_intergenic_Gm11224|Gm11225_chr4_69969225_R Primer3: not found at this Tm N.d. 0.05
mm4_intron_Serpine2_chr1_79856047_F Primer3: not found at this Tm N.d. 0.04
mm4_intron_Serpine2_chr1_79856047_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Rapgef1|Rapgef1/Gm9823_chr2_29737826_F Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Rapgef1|Rapgef1/Gm9823_chr2_29737826_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Ikzf1|Fignl1_chr11_11780992_F TCGTCGGCAGCGTCAGTATAGGTCAGAAAGATGGCTCA 58.7 0.04
mm4_intergenic_Ikzf1|Fignl1_chr11_11780992_R GTCTCGTGGGCTCGGTGGGATGAAATTCAGTTCCAGAGA 59.7 0.04
mm4_intron_Snx29_chr16_11647817_F Primer3: not found at this Tm N.d. 0.04
mm4_intron_Snx29_chr16_11647817_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_A330070K13Rik|Caln1_chr5_130394144_F Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_A330070K13Rik|Caln1_chr5_130394144_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Bcl9|Gm17608_chr3_97275536_F Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Bcl9|Gm17608_chr3_97275536_R Primer3: not found at this Tm N.d. 0.04
mm4_intron_Cmip_chr8_117403508_F TCGTCGGCAGCGTCTCTGACGAGCAGCAGATGAG 59.5 0.04
mm4_intron_Cmip_chr8_117403508_R GTCTCGTGGGCTCGGCTTCCGCCACACATGTCTCT 60.0 0.04
mm4_intergenic_Gm13191|Frmd4a_chr2_3989068_F Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Gm13191|Frmd4a_chr2_3989068_R Primer3: not found at this Tm N.d. 0.04
mm3_intergenic_1110036E04Rik|Scarletltr_chr9_64079575_F Primer3: not found at this Tm N.d. 0.04
mm3_intergenic_1110036E04Rik|Scarletltr_chr9_64079575_R Primer3: not found at this Tm N.d. 0.04
mm4_exon_Camkk2_chr5_122763827_F TCGTCGGCAGCGTCGTGTGACTCTACTGTGGGCC 60.0 0.04
mm4_exon_Camkk2_chr5_122763827_R GTCTCGTGGGCTCGGCCTGGACATGAATGGACGCT 60.1 0.04
mm4_intron_Sh2d4a_chr8_68295932_F TCGTCGGCAGCGTCTCTTGGGAGAGTGACGAACC 59.0 0.04
mm4_intron_Sh2d4a_chr8_68295932_R GTCTCGTGGGCTCGGCTCACAGCCCCAGAAAAGGT 59.8 0.04
mm4_intergenic_Tshz3|Zfp536_chr7_37314107_F TCGTCGGCAGCGTCCCTGACCACAGCCCCTTTAG 60.0 0.04
mm4_intergenic_Tshz3|Zfp536_chr7_37314107_R GTCTCGTGGGCTCGGCCCGGGTGTAAATGGGTTCA 59.9 0.04
mm4_intron_Phyhipl_chr10_70655532_F Primer3: not found at this Tm N.d. 0.04
mm4_intron_Phyhipl_chr10_70655532_R Primer3: not found at this Tm N.d. 0.04
mm4_intergenic_Thrap3|Map7d1_chr4_126230314_F TCGTCGGCAGCGTCACTCAAGAGGACACTGCCTT 58.5 0.03
mm4_intergenic_Thrap3|Map7d1_chr4_126230314_R GTCTCGTGGGCTCGGCCATTCTGGGCCACAATGGA 60.3 0.03
mm4_intron_Elmo1_chr13_20348937_F TCGTCGGCAGCGTCGGAGCACAGATGACGCTACA 59.8 0.03
mm4_intron_Elmo1_chr13_20348937_R GTCTCGTGGGCTCGGTGGTTGGAGTGCACATGACA 59.8 0.03
mm4_intergenic_Pdk4|Dync1i1_chr6_5582856_F TCGTCGGCAGCGTCTGGTGTGTGAGTTTCCTACCA 58.8 0.03
mm4_intergenic_Pdk4|Dync1i1_chr6_5582856_R GTCTCGTGGGCTCGGCTTTGAGGACTCCCAGCTGG 60.0 0.03
mm4_intergenic_1700058G18Rik|Kcnmb4_chr10_116434053_F TCGTCGGCAGCGTCGCAGAGAAACTCAGCCGTCA 60.3 0.03
mm4_intergenic_1700058G18Rik|Kcnmb4_chr10_116434053_R GTCTCGTGGGCTCGGTCTTTGGTTGTCAAGGACTTCT 57.4 0.03
mm4_intergenic_Adcy6|Cacnb3_chr15_98609518_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Adcy6|Cacnb3_chr15_98609518_R Primer3: not found at this Tm N.d. 0.03
mm4_intron_Ece1_chr4_137927284_F TCGTCGGCAGCGTCCCCTTTCCAGCTTCCTCTCC 59.7 0.03
mm4_intron_Ece1_chr4_137927284_R GTCTCGTGGGCTCGGTCATGAAGCTAAGCGGCCTT 59.7 0.03
mm4_intergenic_4732419C18Rik|Rab4a_chr8_123769155_F Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_4732419C18Rik|Rab4a_chr8_123769155_R Primer3: not found at this Tm N.d. 0.03
mm4_intron_Cp_chr3_19963807_F Primer3: not found at this Tm N.d. 0.03
mm4_intron_Cp_chr3_19963807_R Primer3: not found at this Tm N.d. 0.03
mm4_exon_Keap1_chr9_21239040_F TCGTCGGCAGCGTCCTTGGAGAAGGGCACGCG 61.1 0.03
mm4_exon_Keap1_chr9_21239040_R GTCTCGTGGGCTCGGGGGTGGGACGGAGGTGAG 61.3 0.03
mm4_intron_Bfsp1_chr2_143861604_F Primer3: not found at this Tm N.d. 0.03
mm4_intron_Bfsp1_chr2_143861604_R Primer3: not found at this Tm N.d. 0.03
mm4_intergenic_Gm8919|Gm8935_chr3_11742824_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Gm8919|Gm8935_chr3_11742824_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_6330403A02Rik|Parp1_chr1_180484110_F TCGTCGGCAGCGTCAGGAATGCTTGCTTGAGGGA 59.2 0.02
mm4_intergenic_6330403A02Rik|Parp1_chr1_180484110_R GTCTCGTGGGCTCGGCACCGCATCTTCACCAGGTA 59.7 0.02
mm4_intron_Sdk2_chr11_113833345_F TCGTCGGCAGCGTCAAGAAGAGCGAGGATGTGGG 59.4 0.02
mm4_intron_Sdk2_chr11_113833345_R GTCTCGTGGGCTCGGAAACCTCGTCTGCAACCTCC 60.2 0.02
mm4_intergenic_E2f1|Pxmp4_chr2_154574340_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_E2f1|Pxmp4_chr2_154574340_R Primer3: not found at this Tm N.d. 0.02
mm4_exon_Zfp652_chr11_95768453_F TCGTCGGCAGCGTCGCAATGCTGACCTTCCAACC 59.7 0.02
mm4_exon_Zfp652_chr11_95768453_R GTCTCGTGGGCTCGGGGCCTAGCGGGTACAAAAGT 60.0 0.02
mm4_intergenic_Gm5973|Gm9915_chr1_41403942_F TCGTCGGCAGCGTCTCTCCACTCAGCTCAAGGAA 57.9 0.02
mm4_intergenic_Gm5973|Gm9915_chr1_41403942_R GTCTCGTGGGCTCGGGCTGGACAGGTCTCCATTGA 59.3 0.02
mm4_intergenic_Hdhd2|Katnal2_chr18_76976747_F TCGTCGGCAGCGTCCAGTACCTGTGAGGGCAAGG 60.0 0.02
mm4_intergenic_Hdhd2|Katnal2_chr18_76976747_R GTCTCGTGGGCTCGGATGCCCCGTGTAACTCTCTG 59.4 0.02
mm4_intergenic_Gm10479|1700030C10Rik_chr12_20740116_F TCGTCGGCAGCGTCAGGAGAGGGAGTACTGGAACA 59.2 0.02
mm4_intergenic_Gm10479|1700030C10Rik_chr12_20740116_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATATT 60.1 0.02
mm4_intron_Abcc8_chr7_46144587_F Primer3: not found at this Tm N.d. 0.02
mm4_intron_Abcc8_chr7_46144587_R Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Hist1h2al|S1pr3_chr13_51369162_F TCGTCGGCAGCGTCCCTGGTTTCTGCATCTGGGT 59.9 0.02
mm4_intergenic_Hist1h2al|S1pr3_chr13_51369162_R GTCTCGTGGGCTCGGTATAACATGCTGGGCCAGGC 60.1 0.02
mm4_intergenic_Gm23440|Rapgef2_chr3_79008253_F Primer3: not found at this Tm N.d. 0.02
mm4_intergenic_Gm23440|Rapgef2_chr3_79008253_R Primer3: not found at this Tm N.d. 0.02
mm3_intron_Mgat5b_chr11_116952818_F Primer3: not found at this Tm N.d. 0.01
mm3_intron_Mgat5b_chr11_116952818_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Fam196a|Dock1_chr7_134959662_F TCGTCGGCAGCGTCCACTCACTCCCAGTTGCTGT 59.8 0.01
mm4_intergenic_Fam196a|Dock1_chr7_134959662_R GTCTCGTGGGCTCGGTGGGTCTGGACAGAAGTGGA 60.1 0.01
mm4_intergenic_Gm10476|Gm17391_chr12_22604504_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATATT 60.1 0.01
mm4_intergenic_Gm10476|Gm17391_chr12_22604504_R GTCTCGTGGGCTCGGAGAGGAGAGGAGTACTGGAACA 59.3 0.01
mm4_intergenic_Ltbp4|Shkbp1_chr7_27339726_F TCGTCGGCAGCGTCTGCTGCCGAAATTTCTCCCT 59.9 0.01
mm4_intergenic_Ltbp4|Shkbp1_chr7_27339726_R GTCTCGTGGGCTCGGGGAAGCCAGATCCATCCCTG 59.8 0.01
mm4_exon_Zbtb10_chr3_9251683_F TCGTCGGCAGCGTCTACAGCACCGAGGAGGAGG 60.3 0.01
mm4_exon_Zbtb10_chr3_9251683_R GTCTCGTGGGCTCGGGTCTCTCCTTCGCCAGCTC 59.8 0.01
mm4_intergenic_Hdac4|Ndufa10_chr1_92217557_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Hdac4|Ndufa10_chr1_92217557_R Primer3: not found at this Tm N.d. 0.01
mm4_exon_Pddc1_chr7_141410574_F TCGTCGGCAGCGTCGGATCCCTCTGTTGTGCACA 59.9 0.01
mm4_exon_Pddc1_chr7_141410574_R GTCTCGTGGGCTCGGTTTCGTGTTCAGGACTGGGC 60.5 0.01
mm4_intergenic_Gm24728|Lmo4_chr3_143923332_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Gm24728|Lmo4_chr3_143923332_R Primer3: not found at this Tm N.d. 0.01
mm4_intron_Smoc1_chr12_81138972_F TCGTCGGCAGCGTCGTTGGTCCCTGCAGTATGCT 60.0 0.01
mm4_intron_Smoc1_chr12_81138972_R GTCTCGTGGGCTCGGATGGGTAGGTGGCTGCTTTC 60.0 0.01
mm4_intron_Cacna1d_chr14_30273288_F TCGTCGGCAGCGTCGAAAGGGCCTCTCTGAGCTG 60.1 0.01
mm4_intron_Cacna1d_chr14_30273288_R GTCTCGTGGGCTCGGGCCCTGCTCACTTTTCAAGC 60.0 0.01
mm4_intron_Tdg_chr10_82631437_F Primer3: not found at this Tm N.d. 0.01
mm4_intron_Tdg_chr10_82631437_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Gm26007|Gm7199_chrX_163395164_F Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Gm26007|Gm7199_chrX_163395164_R Primer3: not found at this Tm N.d. 0.01
mm4_exon_Tmem150b_chr7_4725151_F TCGTCGGCAGCGTCCTCGGGGCTCTTTTCCCTATC 59.9 0.01
mm4_exon_Tmem150b_chr7_4725151_R GTCTCGTGGGCTCGGAACTTGGAAAGGTGAGGGCC 60.1 0.01
mm3_intergenic_Maml3|Gm10728_chr3_51886707_F Primer3: not found at this Tm N.d. 0.01
mm3_intergenic_Maml3|Gm10728_chr3_51886707_R Primer3: not found at this Tm N.d. 0.01
mm3_intergenic_Gm5633|Gm22908_chr12_21799430_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.01
mm3_intergenic_Gm5633|Gm22908_chr12_21799430_R GTCTCGTGGGCTCGGAGAGGAGAGGAGTACTGGAACA 59.3 0.01
mm3_intergenic_Gm3993|Gm10479_chr12_20404238_F Primer3: not found at this Tm N.d. 0.01
mm3_intergenic_Gm3993|Gm10479_chr12_20404238_R Primer3: not found at this Tm N.d. 0.01
mm4_intron_Arhgef7_chr8_11758666_F TCGTCGGCAGCGTCGTAGGGCCGGGATGGAGG 61.2 0.01
mm4_intron_Arhgef7_chr8_11758666_R GTCTCGTGGGCTCGGGAGGCTTCTTCCCGGTACAG 59.8 0.01
mm4_intron_Astn2_chr4_65835896_F Primer3: not found at this Tm N.d. 0.01
mm4_intron_Astn2_chr4_65835896_R Primer3: not found at this Tm N.d. 0.01
mm4_intergenic_Tmem63b|Tmem63b/Gm16172_chr17_45665670_F TCGTCGGCAGCGTCCTCTGATCTGAGCACGGCAG 60.5 0.01
mm4_intergenic_Tmem63b|Tmem63b/Gm16172_chr17_45665670_R GTCTCGTGGGCTCGGCGTGTGTACGTTCAGAGCCT 60.0 0.01
mm4_intron_Cldn2_chrX_139808007_F TCGTCGGCAGCGTCTCCGAGTATGGGCAGAAAGC 59.8 0.00
mm4_intron_Cldn2_chrX_139808007_R GTCTCGTGGGCTCGGGAGGCTGCCTGAATCTCCAA 59.7 0.00
mm4_intron_Thsd4_chr9_60181558_F TCGTCGGCAGCGTCCCCTGGGAAAGTGCCAATCA 60.2 0.00
mm4_intron_Thsd4_chr9_60181558_R GTCTCGTGGGCTCGGAGCCTGGGATTTAACGCACA 59.9 0.00
mm4_intergenic_Gm9726/mmu-mir-8099-2|Gm26055_chr12_94693149_F TCGTCGGCAGCGTCAATGCTGGTAGTCTGGGTGC 60.0 0.00
mm4_intergenic_Gm9726/mmu-mir-8099-2|Gm26055_chr12_94693149_R GTCTCGTGGGCTCGGGCTCATCCTGCTGTGGGAAT 60.1 0.00
mm4_intron_Gm11755_chr11_119123382_F TCGTCGGCAGCGTCTCATATCCTCCTCCCACCCC 59.8 0.00
mm4_intron_Gm11755_chr11_119123382_R GTCTCGTGGGCTCGGAATGCCAGCAAGGAGTCCTC 60.0 0.00
mm4_intergenic_Zfyve28|Rnf4_chr5_34304336_F TCGTCGGCAGCGTCCATGGGACGGTCATAGCCTC 59.9 0.00
mm4_intergenic_Zfyve28|Rnf4_chr5_34304336_R GTCTCGTGGGCTCGGGCCAGGACAGCTCTGTAGTG 60.1 0.00
mm4_intron_Ablim2_chr5_35799369_F TCGTCGGCAGCGTCATGCTGGTTTGCAGCCCTAT 60.0 0.00
mm4_intron_Ablim2_chr5_35799369_R GTCTCGTGGGCTCGGAATTCACTGAGGGTCCCTGC 59.6 0.00
mm4_intron_Rptor_chr11_119776273_F Primer3: not found at this Tm N.d. 0.00
mm4_intron_Rptor_chr11_119776273_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Ubap2|Dcaf12_chr4_41275681_F TCGTCGGCAGCGTCGTAGTTCTGGCGGAGAGTGG 59.8 0.00
mm4_intergenic_Ubap2|Dcaf12_chr4_41275681_R GTCTCGTGGGCTCGGGAGGACGTTCTGGGTGTCTG 60.0 0.00
mm4_intergenic_Gm5449|Drd1a_chr13_53956292_F TCGTCGGCAGCGTCCTCGCCCTCACACTGAATGA 59.7 0.00
mm4_intergenic_Gm5449|Drd1a_chr13_53956292_R GTCTCGTGGGCTCGGGTGCAGATGCCCAGGAGAAG 60.7 0.00
mm4_intergenic_Gm9286|Gm20474_chr12_23514028_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm9286|Gm20474_chr12_23514028_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm6838|Gm10476_chr12_22355030_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm6838|Gm10476_chr12_22355030_R GTCTCGTGGGCTCGGAGATGGGAGGAGTACTGGAACA 59.9 0.00
mm4_intergenic_Gm5784|Gm6802_chr12_19473401_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm5784|Gm6802_chr12_19473401_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm5633|Gm22908_chr12_22014170_F TCGTCGGCAGCGTCCTCTAGCAGCCTGAGGGTTG 59.8 0.00
mm4_intergenic_Gm5633|Gm22908_chr12_22014170_R GTCTCGTGGGCTCGGACAGAACCAGGACGTAACCC 59.3 0.00
mm4_intergenic_Gm5633|Gm22908_chr12_21914243_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm5633|Gm22908_chr12_21914243_R GTCTCGTGGGCTCGGCAGGAAAGGGAAAGTTTGGGG 59.0 0.00
mm4_intergenic_Gm4425|Gm20486_chr12_22166947_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm4425|Gm20486_chr12_22166947_R GTCTCGTGGGCTCGGAGAGGAGAGGAGTACTGGAACA 59.3 0.00
mm4_intergenic_Gm3944|Gm5784_chr12_19162779_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm3944|Gm5784_chr12_19162779_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm3944|Gm5784_chr12_18962835_F TCGTCGGCAGCGTCAGATGGGAGGAGTACTGGAACA 59.9 0.00
mm4_intergenic_Gm3944|Gm5784_chr12_18962835_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm23913|Gm10480_chr12_18119502_F TCGTCGGCAGCGTCACAGAAAAGGGAAAGTTTGGGG 58.9 0.00
mm4_intergenic_Gm23913|Gm10480_chr12_18119502_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm23913|Gm10480_chr12_17977652_F TCGTCGGCAGCGTCACAGAAAAGGGAAAGTTTGGGG 58.9 0.00
mm4_intergenic_Gm23913|Gm10480_chr12_17977652_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm21989|Asap2_chr12_21098274_F TCGTCGGCAGCGTCAGAACCAGAATGTAACCCGGT 59.0 0.00
mm4_intergenic_Gm21989|Asap2_chr12_21098274_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm21863|Gm3993_chr12_20047040_F TCGTCGGCAGCGTCAGAGGAGAGGAGTACTGGAACA 59.3 0.00
mm4_intergenic_Gm21863|Gm3993_chr12_20047040_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm20472|Gm20473_chr12_23325655_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_Gm20472|Gm20473_chr12_23325655_R GTCTCGTGGGCTCGGAGAGGAGAGGAGTACTGGAACA 59.3 0.00
mm4_intergenic_Gm17391|2410018L13Rik_chr12_22889694_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm17391|2410018L13Rik_chr12_22889694_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm10480|5730507C01Rik_chr12_18498415_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Gm10480|5730507C01Rik_chr12_18498415_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_9030624G23Rik|Gm9312_chr12_24235607_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_9030624G23Rik|Gm9312_chr12_24235607_R GTCTCGTGGGCTCGGACTGGAACAAACAGAACCAGGA 59.7 0.00
mm4_intergenic_5730507C01Rik|Gm3944_chr12_18627528_F TCGTCGGCAGCGTCCAGGAAAGGGAAAGTTTGGGG 59.0 0.00
mm4_intergenic_5730507C01Rik|Gm3944_chr12_18627528_R GTCTCGTGGGCTCGGGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_2410018L13Rik|Gm26140_chr12_23174875_F TCGTCGGCAGCGTCGCCTGAGGGTTGGGCATAAT 60.1 0.00
mm4_intergenic_2410018L13Rik|Gm26140_chr12_23174875_R GTCTCGTGGGCTCGGGGGAAAGTTTGGAGGCAAAGT 58.9 0.00
mm4_intron_Kirrel3_chr9_35017851_F TCGTCGGCAGCGTCGCCACAGTGAAATCGGCAAC 60.3 0.00
mm4_intron_Kirrel3_chr9_35017851_R GTCTCGTGGGCTCGGTAGCTCCAGGCAAGTGTGTG 59.9 0.00
mm4_intergenic_Ccr2|Ccr5_chr9_124118693_F TCGTCGGCAGCGTCTATCTTGCCAAGGCCACTGG 60.0 0.00
mm4_intergenic_Ccr2|Ccr5_chr9_124118693_R GTCTCGTGGGCTCGGAGGGTAGCTGAAGATATGGGAGA 59.8 0.00
mm4_exon_Ccz1_chr5_144014837_F TCGTCGGCAGCGTCCGGGAACTGCTTCTCCTGG 60.0 0.00
mm4_exon_Ccz1_chr5_144014837_R GTCTCGTGGGCTCGGGGAAGTGCGGTGTTCCCTAA 59.9 0.00
mm4_exon_Adprhl1_chr8_13235789_F Primer3: not found at this Tm N.d. 0.00
mm4_exon_Adprhl1_chr8_13235789_R Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Syf2|Gm16225_chr4_135059802_F Primer3: not found at this Tm N.d. 0.00
mm4_intergenic_Syf2|Gm16225_chr4_135059802_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.

mm3_intron_Slit1_chr19_41704901 TGCTAAGGACACACTGGCAGGAGCCCAGGGAGACCACAGTCACTAAGGTCTGTGGTGAGTGTTCAAATGACCAGTTACCC
ACTGCCATCCCCGAGGGAACAACTGAAGCTGACTTCATGCTAAGGCCGG
mm4_intergenic_6030419C18Rik|Cd276_chr9_58516830 AGGAACTTGATGCCTTTGCAAAAACCCTAGGATATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCCGTATCCCTCATTGGAT
mm4_intron_Nphs1_chr7_30481857 ACAAGAAGCTCCACGGTGAGAGAGGGGAACCTGGCAGCCTCCAGTCTCAGCTTCAAGCTAATCACTGCCATCTCCTGGGA
CCTGAGAGTCAAGGGAAATGAC
mm4_intergenic_Gm26971|Gse1_chr8_120532010 AGGGAATGGAAACCTGGCACCCCCCACGGGGATGGCACTGAGGTGCAGGACAAGGGCCTTTTGGGGGGACAGCTCCTGAG
TGGGGTAGGGTAGGGAGGCGGCGGGGGGTGTTGTCTCCTCCATG
mm3_intron_Sfswap_chr5_129562569 CTGTCCCGTCCTGTTCAGTCCTGTGTCAGGCACTCTCCCTCCCTCCACACTGCCATCTCAGCGGGTAGCTCTGGCCTGTG
CTAATTCAGTTACTCTGATACTTGGCATCACCCAGATGGAGGATGTGCTGCTGT
mm4_exon_Cd2ap_chr17_42830061 GGAGCAGGTTCACTCCCATTCCCCGGAGATGGCAACGGTGAGGTAGGGCCAGTCAAAGGAACTT
mm4_intron_Rasa4_chr5_136109138 GGATGCTCTGAGGCCATCTCAGCTCCCTACAGCCTTCTCCTGGGCTACACAAAAGGGACTGCTTGTCTGCACATGCATCC
TGGACCCTAGGCAAGT
mm4_intergenic_Tbx4|Gm11443_chr11_85931669 TTGGCCTACAGTAGCCATGCTCAACAAACTCAACCAATCATGACATCTACTCTTTAGACCATGACCAGTCCAACACCCCA
CAGCCATCTCTGAGGACAAGGAAGGTAAGAAGGTTCAGGCACTACTGAGGTCCT
mm4_intergenic_Gm5449|Drd1a_chr13_53649630 TAGGGCATTTGGCTGCTGATGCAGCCTGCTTCCTACTGCTATCTACGTGGCTTGTTCAGATGCCGCAGCTGAGCCAGTGT
ACCCTGCAAT
mm4_intron_Dock7_chr4_98952710 AGAATACCCACGAGGAGCCTTATCCCTTGGAGATGGCTGTGGCCAGCCTCTGCATATATCTAAACGAAGCCACAGAAATA
GATTATATTGTAGGTATTAATGAGGTCATGCACATTTAATCTGGAGG
mm4_intergenic_AC158354.1|Gm4804_chr12_15604819 TCTACAGAAGCCCATGACTAGTGCCCCCTGCTGCCATCTCCATGGATGTCAAAGGGGTTTTAAAGATGTAACTAAGGTCA
ATTAGTTGTGTGGGCT
mm4_intergenic_Gtpbp1|Sun2_chr15_79722621 AGTGTGGTGATGCTGGACTGGACGGTCACTGCTGCCATCTCCGAGGAAGAGGACACTGAAGCTCAAGTAAGGGATTTGTG
CTGTGGCATTCGTTCCTGCTCGCCCTACAGCCTTGCCCTACAGCATTGCCCTACAGCC
mm4_intergenic_Gm11726|Socs3_chr11_117934944 CTACCAAGCACCAGCCACTTGCAGGATCTTTCTCTCTTCAGAAGACTTCTTCCAACTTCCATCTCCGTGGAGAGTATTCT
GGGTCTTTCAGTGTGCTGAATGCATAGACTGCTGAGGGGTGTCTCTGCAGTAGGCTG
mm4_intron_Gm3618_chr14_6318077 AATTCTTCTTGCCTGGGCCAGCTGATACATTTCAGAGCCAGGGAGATGGCAGTAGGGTGTGAGGCATATGTCTACCTATG
ATGCTTGGGAACAGGGAC
mm4_intron_Gm2916_chr14_3917732 ATGTCCCTGTTCCCAAGCACCATAGGTAGACATATGCCTCACACCCTACTGCCATCTCCCTGGCTCTGAAATGTATCAGC
TGGCCCAGGCAAGAAGAATT
mm4_intron_Gm21965_chr14_3779530 ATGTCCCTGTTCCCAAGCACCATAGGTAGACATATGCCTCACACCCTACTGCCATCTCCCTGGCTCTGAAATGTATCAGC
TGGCCCAGGCAAGAAGAATT
mm4_intron_Gm11109_chr14_3540136 ATGTCCCTGTTCCCAAGCACCATAGGTAGACATATGCCTCACACCCTACTGCCATCTCCCTGGCTCTGAAATGTATCAGC
TGGCCCAGGCAAGAAGAATT
mm4_intron_Gm10410_chr14_4964050 ATGTCCCTGTTCCCAAGCACCATAGGTAGACATATGCCTCACACCCTACTGCCATCTCCCTGGCTCTGAAATGTATCAGC
TGGCCCAGGCAAGAAGAATT
mm4_intron_Gm10339_chr14_7378819 AATTCTTCTTGCCTGGGCCAGCTGATACATTTCAGAGCCAGGGAGATGGCAGTAGGGTGTGAGGCATATGTCTACCTATG
GTGCTTGGGAACAGGGACAT
mm4_intron_Gm10251_chr14_6642569 AATTCTTCTTGCCTGGGCCAGCTGATACATTTCAGAGCCAGGGAGATGGCAGTAGGGTGTGAGGCATATGTCTACCTATG
GTGCTTGGGAACAGGGACAT
mm4_intron_1700110I01Rik_chr14_3301629 ATGTCCCTGTTCCCAAGCACCATAGGTAGACATATGCCTCACACCCTACTGCCATCTCCCTGGCTCTGAAATGTATCAGC
TGGCCCAGGCAAGAAGAATT
mm4_intergenic_Gm3344|Gm8265_chr14_5626135 AATTCTTCTTGCCTGGGCCAGCTGATACATTTCAGAGCCAGGGAGATGGCAGTAGGGTGTGAGGCATATGTCTACCTATG
GTGCTTGGGAACAGGGACAT
mm4_intron_Gck_chr11_5909813 GTTGCCCCTCTGGTAAAGGGTTTTGCTTTGTCCCTGGGGATGTCAGTGGGGGGCTCTATCTTAACCCGGGTCCTTCTATT
TCCTGGTCTCCCATCTGGGTCTTTCTCATGCTTAGGGACCTTTGCTGCT
mm4_intron_Socs6_chr18_88821854 AGTAGCTTCATAAGGCATAAGCATAAATGCATATGGCTTAAGTTCAATGTCTTCTTTCTATCCAAAACCAAAATATACTT
CTCCCCACTGCCTTCACCTTGGACAGCAAGCATTAGCTGGCTACCTGAGT
mm4_intergenic_Tox3|Chd9_chr8_90512765 AGCTCTATTGACAGTCGCATCAATAACTAGATGTGTAATTAACTTTGTTTCCTGCCCCCCGGGGGATGGCAGTGGGGAAG
GGTGAGAACAGAAACTCTCAGTCTCATAGTGGAAGCTTACAGGGCTGTG
mm4_intron_Cacna1d_chr14_30174858 ACCCAAGAACCTGCCTTGTCCAGCTCTTTCTCTGCACAGCACTGCCATCTCCATGGGCAAGGCATCCGTGTGAGGCAAAC
ATCA
mm3_intergenic_Gm20610|Pcbd1_chr10_61080246 TGGAGCTGAGAAACTGATGCTAAACAAAGCGTGAGTGAACATAGTGTGATAGTGTGGTTTTGCAATGAAGGCCTCGGAGA
TGGGAGAGGGGAGAGTGGGTCGGGGGAGGAGAAGAGAGAGAACAGGGCAGGGA
mm4_intron_L3mbtl3_chr10_26374444 GGAGAAGATCGCCGCGACGGTGCGGGTGCCCGGCCCGGCCCCGCGTCCTCCACCCCGCGGGGACGGCAGTGTCGAGCCCG
CGCCGCCGCGTTCCCTAAAAGCACTT
mm4_intron_D630024D03Rik_chr11_31796358 AGGCCCTGTGGTCACTAGATTGAGGATTATTAGAGACTCCAACCTCTCAGTGTATGGCAGAGGAGCGGTTTCTATTTCTG
GTGCCCACTGTCATCTCCAGGGAAATGCCACTCAGCTGCCCCAGAGTCACAATGT
mm4_intron_Nrxn2_chr19_6450731 CTCCTGTGACTTGCCTCCAGGCCTGCAGTAGGTCTGCTTCCCACTGCCATTCCCAGGGGCACTGGTCCATGCCCTACTGT
GAAGGACCAC
mm3_intron_Ccdc141_chr2_77169056 GGCTTTCCCTGCCCATCAATACAAACTTTGCTCTCTGAAGAGGCTGAAGTGCCTTTTCTTTGGAGATGGCAGTGGGGAAG
GGAGCTGGAGAGGGGACCGTGAGTGGTTTT
mm4_intron_Impg1_chr9_80364699 CATCCAGGACCTCCGATTCGTCATCCCCCCTGCCATCTCCTGGGAAGATGGTGAGGGCCTTTGG
mm4_intergenic_Ntm|Gm26435_chr9_30100297 ACCATGAATAACCCGCTGATATTTTTCTGCAGAAAACTGTGCACCCCAGGGCCATCTCCTTGGGGCTAGTAGGGCTCTCC
TTGAAAGCTCCTCAGCCCCTCCAATGGCTAGAAGTGTTTCCCCTTAGCCTTCCTTCTGC
mm4_intergenic_Gm11846|n-R5s182_chr4_12797716 TGCAATGTGGTGAATAAGAGTTACCTAAATATTTAAGAAGGATGAACTAAGAAATGTAATTTTAATGAAAGGAAAGAGTC
TTGGATCCCCTGAGATGGCTGTGGGTCGCTTTCTAGGGCAGAGGTAATTTGCTT
mm4_intergenic_Gtse1|Trmu_chr15_85877768 TAGGCTGATGACCAAAGCCCCACCCTCGGAGATGGCAGAGGCTTGCTTCCCTGTAATTTCTTACCATTGTGGGGGGGCAG
TGTTCCTGAAGCCCACAT
mm4_intergenic_Tars|Npr3_chr15_11533236 GCCCAGCGATTCTCAGAACTGTTGGGAGCTGTTTACTTCCTATTTTGATACCTAGAGCAACAAGAAACAAGCTCTCCACC
AGCATCTCCGTGGCCTTGTCCTGAGTTTGTTATCCGTGCTTTCTGTCAGGAAGC
mm4_intron_Fgf2_chr3_37398673 ACCACAGTTTTCAAGAGCTCCAGAGACAGAAGTACTCATCTGTCCACTGCCATCTCTGTGGTGACTGGGTTACAAACAAG
AGGAAACAAGCTGAAGATGAGGTGAAAATGGGGCTGTCC
mm4_exon_Gm9166_chrX_103926554 GGACGATGGAAAGATTGGCCAAGATGATGGCCCCTGAGATGGCAGTGGCAACCTCCTTGGAGCACTTAACACCAAGACCA
ATGTGACCATTATAGTCCTCAATAGCTACGAAAGCCTTAAATCTGGTCCGCTGGCC
mm4_intergenic_mmu-mir-6351|Tns1_chr1_73905659 ACCTGTGGTCTGGAGTCTGAGAACCACTCAGATCGATATCATTCATTGGTAAGCCGTCTGCGCAGCCTCTCCACTGACAT
CTCCCTGGAGGCTACAAAGCTGGCAGAGGGA
mm4_intron_Dock3_chr9_106942005 GGAGCCTAGTATGAGGGACAAAAAGTAAGTTCAAGAGCTACCCTCTGCCATCACCTCGGTAATGAGAAGCTTCCAAAAAA
TATGTAACAAGTACTCAAGTTTAATGTTCAGGTCATTTAAAGAAGCAATAGCACCACACT
mm4_intron_A330074K22Rik_chr8_120222644 GAACCTCTGGGGCTTGGATGCTTGGGAAGCAACCACATCAAGGGTTTTCTGCTACAAACCAGAACCTCGGAGATGCCAGC
GGTGAGGGAGTTCTCGAGCACACACAAGATTTATGTGTCGAGTCTGTCCTGTCAGC
mm4_exon_Zdhhc14_chr17_5647923 TTTCTCTCTGCACCCTGCTGGCAGCTGTCGGTACCTGGCAGAGAAGATCACCCCTGCCATCCCCGTGGTCGGTGGCATCC
TGTTCTTCTTTGTGATGGGGACACTGCTTCGGACCAGCTTCAGTGAC
mm4_intron_Stoml3_chr3_53501116 GAAGCTGAGTGGAACCTGCTGGAGGCCAGGGGCTGGTTAGGCTGCGCTCTCCACAGCCTTCTCAGAGGGACCTTTAGAAA
TAGCTGTTTGACTTATCTTTACTTCTGCTGTTCATATTTGCTGTCTCTGTGTGTTGGA
mm4_intergenic_D630032N06Rik|Gm22587_chr11_85297038 CAGCTCTTAGGCCTCATGGGCTTCTGGTTCATTAATGAACCGATCCCTAAAACCACGGAGATGGAAGTGCGGACTGACCC
AACACTGTCTGAGCTG
mm4_intergenic_Gm11779|Gm11782_chr4_5397576 AGGATTCCTTTGGTACCTGCTGTACTCCCCAGAGAGATGGCAGTGGGTAGGGGGAACCACTGAAACAGAAAAT
mm4_intergenic_Gm25665|Gm24469_chr8_18323419 AGTGCCATTCCCTCACTCACGCCACGATGATGACAGTGGAGAGCCATGGGCAAACCTGGCATGCAGCTCTCAAGGAGGAG
GCCTTATTCTGAGTCACAAAGAGGCTCATGGAAACCAGGAC
mm4_exon_Gm4980/Gm10605_chr7_99628879 TTTCATGGTGGCTGCCTTCTCATTGCTGCTGACTGCCTTCTCCGAGGGAGAGGGGTTACATAGTTGCAGGCAGCTTTCAT
TGACTGGTGTTAAACACCTCAGCTGGGGAAGAGAAGC
mm4_intron_9330101J02Rik_chr7_139662407 CTCAGCCTGAAGAGAGCCTGCTTCATGGGAAGATTCCCTCTGGGATGGGTGTGGGGAGCACTTGGGCTTCCAGAGATGTG
CTAGAGCAGAGGTGGACCAGCCAGTGTGACTTT
mm4_intron_Ttn_chr2_76802555 AGGCTTAGTGAACTCAACCGGGGGTTCTGAAAGAATCATACTTATTAGCTGTTTCCCTTCTCCAAGAGTTCCAGAACTTT
CTCTGATTCCCTCTGGCATCTCCGGGGCTGCTTCTGTCTCAGTTTGCT
mm4_intergenic_Hsp90aa1|Wdr20a_chr12_110737922 GTGCGCAGTTGGACCATTAAAAACTAGCCCGCCCCCTTCGCTTCGGCCCGCCTTCGTGGGGGCTGGCTCGCCAGTGGGCG
GGGCCGCGGAGAAGGGGGTGGGGAGTGGAGAAAGCGAGCGGCCGA
mm4_intergenic_Tacc3|Fgfr3_chr5_33705502 AATTGAGTCGGCCAGAGTGGCCCCGGGCGTGAGAACAGGAGCCCCCACCCCCAGCTCCAGCCCCGCCTGCCGCATTCCTG
CCTCCCCGGAGATGGCCGTGGCCAGGCCGTCTCCAGGGGGCCCGGAATGCAGCACTCAAT
mm4_intron_Efr3b_chr12_4020723 GGAGCAGAGTGGTGCAAGAGCCAGCTGTGTCACGGCAGAGCAGCAGGGCTTCAGAAGGCAGAGATGTTTCAGCTCAGACA
TTCCCCACGGAGATGGGGGTGGGGCACCAGGAGCATGCAAGCCAGAGGGAAAGGGAG
mm4_intergenic_Gm5108|Grxcr1_chr5_68008363 GGTGGCAACCATTAGTCTTAGTTTGACTTGAGTTGAGATCCCTAAAAGTCTAGAGGAACATCTCAGACCTAGGAGGTGAC
AGTGTGGAGCTTTGTCTCGGGTTCTTCACTACTGAGAGC
mm4_intergenic_Gm13191|Frmd4a_chr2_3990635 TTGGCTGTAGCAAGACAGGGCCAGGCTCTGAGCCAAAACCTCTGAGATGGCAGTAGAGGGCTCAGGGAGACCTGTCCAAA
CTCAGGCTTGTTCAGGACAGC
mm4_intergenic_Rbks|Mrpl33_chr5_31649007 GGAGGGTTTGTGCAGGATCAATATTTCTCTCCTGGAATAGTGAAGAGTCTTGGGCTGAAACTGGGCCAAGAGGCACCCCT
CTGCCATCTTTGGGGTGCATCTCTACTTGTGACACAGGA
mm3_intergenic_Igsf21|Gm13027_chr4_140116978 TGTGGAATGTGGCACAGGTTGGTATTGTTTATTCCACTGAGATGGAGGTGGGGAGCCAAAAGCATTAAGGAGGGTCTTTG
AGTCCAGGGA
mm4_exon_Zmiz1/Zmiz1os1_chr14_25460501 TGTGGGAGGGAAGCTCAGAAAGCTTGTTTCACATTCCTGGCGTCAGGGCCAGGGAGAAAACAGTGGGGAGCACGGCCTCG
GTGTCGCGGTGCAGGCTGCGGGAGCGCGTCGCCCCCTGGCCGGAGACATCTGTCCAGGA
mm4_intron_Clic5_chr17_44254806 GGTTCCCCTCTTCCCTGGAGGGGTTTCTTTTACACTGTACTTCAGCCAATATCTACGCTGCTCCCTGCCATCTCCCAGGA
CGATGCAGGCTTCTCCTGAGCACTCAGCTTCCCACCCGCCATCAGAACGGAGCCTGGAC
mm4_exon_Wfs1_chr5_36988912 CCGCGAAGTTGCTCCGAAACCGCGGAGATTGCAGCGGCCAGCTGAGCAGGCGGAGCGCGCGGCCCTACATTCAGCGCGGC
CCCGGGAAAGGGGGCGGGGCCTGGGCGGGGCCTCTGCCACCCTCCATTCCTG
mm4_intron_Pcgf5_chr19_36436303 AGAATGGTCACACTGCCTGAATTCCTCAGAGAAGGAAATGGGGAGCATTTGATTTTAGAAAAGATGATAAATTCTTGTCG
GGATTTGAAGAGTGAGAATGTTAGCTGTTGCTGCATGACAAAGCACAC
mm4_intergenic_Gm9985|Ggt5_chr10_75593643 TCCCTCCCGGAGAGAGTTTTTGTGTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNAGCATGGAGCTATTCCCTACCCTCTTGCTGCCATT
mm4_intron_Pear1_chr3_87753968 AAGGGACGCATGGTGATCAGGGGGCCATTGACCAGGGCTGACCTGCCCCTTCCCACTGGAATAACCACCCTGGAGATGGG
AGTCGGGGGCCAAACCCATGGGGAGGGGGGGCTCCCAAATCTGAACCGCTAACAGGAGGG
mm4_intergenic_Gm24200|1190002N15Rik_chr9_94474454 TGAGGAGTGTGGTTGAAAGCACAGACCCACAGAGACGGCAGCGGGCAGCAGAGTCTGAGATGAAATGATGCCTAGAACAA
GAACAACAAACAAGTATGGGTCTTTGAAGCCA
mm4_exon_Tfap2b_chr1_19237118 GCGAAGGGGCAGCTAGATAGACCTGGCTTGAGGCTTCCCTCCCCCATCTCCGGGGTTGTCTTCTGTTTCTGTTCTTTTTC
TCTCTCTTCACGTCGGACCTTTCGCCCCCATGCTTTCCTTAGCCA
mm4_intergenic_5930403N24Rik|Gm26535_chr10_37249689 CATTTGGCAGCCCCAGTTTCTCTCTTTCTCACTCTCGCCAGCTCATGAACTCTGTGGCTTAAGCGCTCCACTGCCTTCTC
TGTGGGTGTCTCTAGGCTTCCTCGTTGCCCCACAAACTTCT
mm4_intergenic_Gm12341|Abr_chr11_76532315 GATTCACACCAACAGGCCCTGCTCTGGGACCTGCACCCTGGCAGAGGCCTGCACTGGGGCACCTCACTGCCACCTCCCTG
GCCACCCTGACAGATACGGGAAATGATTAGCTGGGAGAGCCTCTTGGGAAAAGCGTT
mm4_intergenic_Tmem45b|Barx2_chr9_31841683 AAAGAGGGATGCCTCTGTGCCTGGGAGGGGCACAGCAAGCATCAAGCAGAACCAAGGAGAGAGCAGTGGGGATCTCGGAA
GGGGATCAAAGCCACCA
mm4_intron_Eno1_chr4_150239126 CACATTTCCCTCTGGTCTCCAGGTCAGTTTAACCTCTGACCTTCCTTCACTGTTGCTTCCCACTTCCTTCTCTGTGGAGC
CAGAACACTGTTCTATGCAGTCAGAGGATTTAATTTGCCCACAGTACAGGTAGC
mm4_intergenic_Rhbdd1|Gm22112_chr1_82382144 ATTGCAGCTTCCAGTGAGCTTCTTTGGGCCAGGGAGAAGGCAGATGGGAGCTTTGTCTTGGCTGAGACCTGCGCATATCC
TGTGA
mm4_intergenic_Fndc3b|Tmem212_chr3_27782243 AGCCAAGTACGGTGAACTGGGCCTCCCTTCAGTGTGGAAGTGCTTGTGACGCTGGCATAATGGATGCTGTATAAGAAGTC
TGCTGAGTTCTCCCCTCTGGAATCTCCGGGGCGCCTGACAGAGCCCTTACCCTCC
mm4_exon_Jun/BC042782_chr4_95050871 GCCTGCTACTGAGGCCACCGCGGGAGCCACCATGCCCGCCCCGCTGACCGGCTGTGCCGCGGAGGTGACACTGGGAAGCG
TGTTCTGGCTATGCAGTTCAGCC
mm4_intergenic_Klc3|Ckm_chr7_19407044 TAGTTCCACCCTCCCTAGCCTTCAGCCCCCAGGAGAGGACAGTGGGGAGTGACACAGAGGTATGGTGGACACAGATAGCA
CATGATGACCTGGAAAGGAACTGGGG
mm3_intron_Tcp11l2_chr10_84609783 TCTCCTCCAGCTGAGAGGACAGGGGTGGGCCTGGCTGCTGACAGTGTCATTGGAGATTCTGGCTTCCCACTGCCATCTCG
TAGGCTAAGTGCCTGCACAGTAAGGTG
mm4_intergenic_Gm14120|Gm25866_chr2_148536877 GTCACAGAAGGCTGGCAATGGACAGCAGAAAGAGCAAAGAGGAAGCCTCACTCACAACCTGGGGTAGGGCAGTGGGGAGC
AATGAGAACAGAGCCTGAGAGACCA
mm3_intergenic_9330133O14Rik|Snai3_chr8_122447592 GGCTCACACGCTATAGGCAATAAGACTAAGACACTCGGATCCTCCAAAGCCTTTACTACTTCTTCACAAGGATCCCTCCC
CACATCCATCTCCGGAGCACAAGTTACATTCCTGAGGCGGC
mm4_intron_Slc41a3_chr6_90635661 ACTGTACCTGGGGCATCTCTGTCCAGTCTGACTGATTCCTGTAACTGTCCTCTTAGGTGGCAGTGAGGAGCCTCACTGCC
TGAGAATCAGATAAGATGACCTAGTTGTACTTTTAGGCCTGTCTGATGTGCA
mm4_intron_Acacb_chr5_114202236 TGCATGAGGGTAAGCCTTGGGCTGGTATTCCACTGGGATGGAAGTGCGGAGCCTGGGCCATAGCTTACTGCAC
mm4_exon_Gm20421/Hes5_chr4_154961380 AACACAGCAAAGGTGAGCCCGGCGCCTGCGCCCGCCTCCTGCTCCCGGCCGATGTGGCTCCCACCGCGCGCGCCCCACTC
ATGCCGCTTCGTCTCCCCACAGCCTTCGCCGCGGCCGCCGGCCCCAAGAGCCTGCACCAG
mm3_intergenic_Irx4|Gm10263_chr13_73270370 TGAGAGCTTCTGTTCAGGCCTCTATGGGCTTCATAAACTGTTCCTAGGGAGATGGCAGTGGCAAGCAGAGGGGCTTGTAA
AGCAGAGAACCCAAGGCGAGCTGCTCTGAAAT
mm4_intergenic_Pdgfb|Rpl3_chr15_80019977 CGGCTGGAAGTTAGCAGAGTCCTTGGATGTCACTTAGAGCTCAGCCAGATGGCTGGGAGGGGACCCACCCACTGCCCTCT
CACCACTGCCCTCTCCCTGGAATGGACAAAGGTTTGTTCTTGTGGAGAAGACCCCTGC
mm4_intergenic_1500016L03Rik|1700109G15Rik_chr11_84641703 TCCCAAACCTGAGAGGGACATAAATTTTCCCCCAGCAGCACCCCGGAAATGGAGGTAGGGAGCCAGGCAAGCTACTATAT
TGCCACTGCGGGCTC
mm4_intergenic_Ikzf1|Fignl1_chr11_11780992 AGTATAGGTCAGAAAGATGGCTCAGCTCCCCACTGTCAATTCTGAGGTTCTCTCTGGAACTGAATTTCATCCCA
mm4_intron_Cmip_chr8_117403508 TCTGACGAGCAGCAGATGAGCTGGACCTTGGGCATGGCAGTGGGGGGCACAGCTTCTTCCATGGTGACAACAGTGTACTC
TGTCTAGCAGGCGCTAGCAGCTGCAGAGAGAGACATGTGTGGCGGAAG
mm4_exon_Camkk2_chr5_122763827 GTGTGACTCTACTGTGGGCCGCCGGGGCATCCGGGGAGAGGACTGTGGGGAGCTGGCTGGTGAGTAGGACAGGGATGGGC
AGATGCAGCGTCCATTCATGTCCAGG
mm4_intron_Sh2d4a_chr8_68295932 TCTTGGGAGAGTGACGAACCTTTCTGAGTGCTTGAGTTGTACCTGGTGAACCCTGGGAGATGGGGGGGGGGAGCTACGAT
CTAAGGTGCTTTGAAAGCTAGGTGTACGAGTCTGAACCTTTTCTGGGGCTGTGAG
mm4_intergenic_Tshz3|Zfp536_chr7_37314107 CCTGACCACAGCCCCTTTAGAGAGCCACCTTCAGATCTGGCGGCTCCTCACTGCCTCTTCCGTGGGAACTGGCGTACTTG
AACCCATTTACACCCGGG
mm4_intergenic_Thrap3|Map7d1_chr4_126230314 ACTCAAGAGGACACTGCCTTCCAGGGAGACGCCAGTGGGGGGCTGGGAAGGGCATGTGAAGAACTTCCATTGTGGCCCAG
AATGG
mm4_intron_Elmo1_chr13_20348937 GGAGCACAGATGACGCTACAGGGCGTGGCCTCTTCCCAAGCCTGTGTATCTGTATGGCCCCTCAGGTCCCCTCTGCCACC
TCTGTGGCTTTCTCTATCACTACCCATCCCTTTGTCTCTGTCATGTGCACTCCAACCA
mm4_intergenic_Pdk4|Dync1i1_chr6_5582856 TGGTGTGTGAGTTTCCTACCACAAAAGTTGTCAGCTCTCTACTGGCATGTCCGGGGCAAAGGAGAGAACCCAGTCTGGCT
GAGTCTCTTGGGGCTGAGATTCACCAGGCCAGCTGGGAGTCCTCAAAG
mm4_intergenic_1700058G18Rik|Kcnmb4_chr10_116434053 GCAGAGAAACTCAGCCGTCAGTCCCTCCCCACCGCCCTCTCCCCGGGGTGACCTATGACCTCATTTATTTGCTTAGTGGA
GATATGAAAACTCTCAAAGAACTATTAGAGACAAAAAAGAAGTCCTTGACAACCAAAGA
mm4_intron_Ece1_chr4_137927284 CCCTTTCCAGCTTCCTCTCCTGCTGCCCTCTGCCCTCTCCTGGGGCTCCCAAAGCTGGGCAAGGGCCAGAGAGTAAAAAC
CCTATTAATCCGTGTGTCACCAAGGCCGCTTAGCTTCATGA
mm4_exon_Keap1_chr9_21239040 CTTGGAGAAGGGCACGCGCTTCCCCCCACCGCGTGCACGGCCCCACGCGCGACCGCGGGCAGCTCCCGGAGCTGGCTCCC
CACCGCATCCTCCGCGGGCGCTCGCTCACCTCCGTCCCACCC
mm4_intergenic_6330403A02Rik|Parp1_chr1_180484110 AGGAATGCTTGCTTGAGGGAGCCACGGAGCTGGTAGTGGGAACCATGCCCTGACCAGTGTGCTGCTGCGGGACATCTGGG
CCAGTTATGACTACCTGGTGAAGATGCGGTG
mm4_intron_Sdk2_chr11_113833345 AAGAAGAGCGAGGATGTGGGGGGGCGGACCAAAGAGCCAGCTCCATGCTGCCAGCTCCGTGGGAGAAAGACAGTACACGC
AGATCACAGCTGCAATCGATCCTATGGTGGTTTGGGGGAGGTTGCAGACGAGGTTT
mm4_exon_Zfp652_chr11_95768453 GCAATGCTGACCTTCCAACCCGGAACTACCTCGCTAAAGCAGCCCAGAGGTCCCCACTGCACTCTCTGTGGAAGCCATAA
AAGTCGCCAGTGTGTCCGTTCACCTTCACAGCTGAATACTTTTGTACCCGCTAGGCC
mm4_intergenic_Gm5973|Gm9915_chr1_41403942 TCTCCACTCAGCTCAAGGAAATCAGTGAGTTTTAACCAAGCAGATGGAAGTGGGGTGCAGTGAGGTGCAATGGAGTAACA
GAACATGTGAGAGCTATGCGATGGATTAGCTTGATGTGACTCAATGGAGACCTGTCCAGC
mm4_intergenic_Hdhd2|Katnal2_chr18_76976747 CAGTACCTGTGAGGGCAAGGCAGTGATCGTGGTGGTCAGCTAGGGTGAGAGGGGCGGAAAGGAGGGATGGTTATGGTTCT
ACGGTGGTCTGCTTTCCCTGGAGCAGGCAGTGGGGAGAACAGAGAGTTACACGGGGCAT
mm4_intergenic_Gm10479|1700030C10Rik_chr12_20740116 AGGAGAGGGAGTACTGGAACAAACAGAACTGCAATGTAACCCTGTTTTTAAAGCACTAACAGGAAAGGGAAAGTTTGGGG
GCAAAATGCCTGGCTCCCCACTGCTGTCTAGGGGGAATATGCCCAACCCTCAGGC
mm4_intergenic_Hist1h2al|S1pr3_chr13_51369162 CCTGGTTTCTGCATCTGGGTGTTTCCAATCATCAGGGGCCGAGGCCAAGCTGCCCAGTGCCATGTCCCCGGATTCTCCAT
TCCCTTCTCTGCTTTGTTTGCCTGGCCCAGCATGTTATA
mm4_intergenic_Fam196a|Dock1_chr7_134959662 CACTCACTCCCAGTTGCTGTCCCTGCTTCCTAGACACCCCAGGAGCACACCTGTTTCTGTGGCTCCCCTCTGACATCTGT
GGGGTAGAGGTGGGAATATATTTCACTGCTTCCTCCACTTCTGTCCAGACCCA
mm4_intergenic_Gm10476|Gm17391_chr12_22604504 GCCTGAGGGTTGGGCATATTCCCCTCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTTCTGTTAG
TGCTTAAAAAACAGGGTTACATTCTGGTTCTGTTTGTTCCAGTACTCCTCTCCTCT
mm4_intergenic_Ltbp4|Shkbp1_chr7_27339726 TGCTGCCGAAATTTCTCCCTTCTGCCCAGGATCCAGGGCATCGGCAATGCTCGTTGCTAGGCAACAGCCTCTAGCTCACC
ACTGCAACTTCCGGGGATGGCAGGGATGGATCTGGCTTCC
mm4_exon_Zbtb10_chr3_9251683 TACAGCACCGAGGAGGAGGGGGCGAGCCCGGGCGATGGCAGTGGGGCGGAAGGCGGCAGCTGCAGCAGCAGCAGGCGGTC
GGGCGGCGATGGTGGGGACGAAGCGGAGGGCAGCGGTGTGGGAGCTGGCGAAGGAGAGAC
mm4_exon_Pddc1_chr7_141410574 GGATCCCTCTGTTGTGCACATGATCTCAGAGCAAACTTATCTGTGTGTAGTCAGAGCCGCTGCAGCTCCCCACTCCCATC
TGATGGGCTGATGAATCACCAGGCATGCCCAGTCCTGAACACGAAA
mm4_intron_Smoc1_chr12_81138972 GTTGGTCCCTGCAGTATGCTACTTGATCCTTCTGGTTTGGAGGTCAATTTGAGGCTCACAACTGCCAGCTCCTGGGGCAG
CAGACACAGCGGCCTGGAAAGCAGCCACCTACCCAT
mm4_intron_Cacna1d_chr14_30273288 GAAAGGGCCTCTCTGAGCTGCAAACCCCGTGCTCAGGACTGACACAAATACCCCTGGAGATGCACGTCCCACACAGAAGG
CAGGGGGGAGCAAAGGCAGGCATGAAGTGTGCTCAGCTTGAAAAGTGAGCAGGGC
mm4_exon_Tmem150b_chr7_4725151 CTCGGGGCTCTTTTCCCTATCTTCTTCAGACCCAATCAACTGTTGTTGGTCTGTTTTCCTGGCTCTTCACTGCCAGCTCC
CAGGCTCCGGGTTCCCTTAGGGCCCTCACCTTTCCAAGTT
mm3_intergenic_Gm5633|Gm22908_chr12_21799430 GCCTGAGGGTTGGGCATAATCCCCCCAGATAGCAGTGGGGAGCCTAGCACTTTGCCCCCAAACTTTCCCTTTTCTCTTAG
TGCTTAAAAAACAGGGTTACATTCTGGTTCTGTTTGTTCCAGTACTCCTCTCCTCT
mm4_intron_Arhgef7_chr8_11758666 GTAGGGCCGGGATGGAGGGTGGTCGGGGGTCGGATCGGGGTCGCGTGAGCTGACGCTGTCCCGAGCGACCGCTCCTCACC
GCCGGCTCCGTGGAGCGGGGCTACCTGTACCGGGAAGAAGCCTC
mm4_intergenic_Tmem63b|Tmem63b/Gm16172_chr17_45665670 CTCTGATCTGAGCACGGCAGGAGGGCAGAGGAGGCCAAGCGGCAGGCATGGGTGCACCCTACTGCCATCTGGGCGGCCTG
GAGACCAGAGGCTCTGAACGTACACACG
mm4_intron_Cldn2_chrX_139808007 TCCGAGTATGGGCAGAAAGCTTTGCTCCCCACTCCAATCTGCCTGGGAAGTACATTATTGCCAGAAGCATGAATTGATTG
AGGGCTAAGCCACTACTCTTTAGTCCCCTTTGGAGATTCAGGCAGCCTC
mm4_intron_Thsd4_chr9_60181558 CCCTGGGAAAGTGCCAATCATTGAAATATTCTCCTATGTCACCCTGTCCAGGCCTTCAATAAAGATCCTTAACAAACACT
GAATGAATACAACCCCCCACTGCCAGCTCTGAGGATGTGTGCGTTAAATCCCAGGCT
mm4_intergenic_Gm9726/mmu-mir-8099-2|Gm26055_chr12_94693149 AATGCTGGTAGTCTGGGTGCAACCATCATGTTTGCAGCCCACTGCCAGCTCTGTGGACCCTGTTCTCATTCCCACAGCAG
GATGAGC
mm4_intron_Gm11755_chr11_119123382 TCATATCCTCCTCCCACCCCTTCCACCCCCATCTCCAGCTCCTTCCCTGAGAGCTGGCAGTGGGAAGCAGCATGGGCTAG
AAAAGCAGGCGTTGACTGGAGAGGACTCCTTGCTGGCATT
mm4_intergenic_Zfyve28|Rnf4_chr5_34304336 CATGGGACGGTCATAGCCTCGCTCAGCACTGCCCTCTCGGTGGTCATGCACTTCCAAAGTCATCCCCCAAATACATCTCC
TGCTTCCAAGCATGAGCGGCAAGTTGTGTATCACTACAGAGCTGTCCTGGC
mm4_intron_Ablim2_chr5_35799369 ATGCTGGTTTGCAGCCCTATGTGCCTGGCCCCGGCCATGGCAGTGGTGATCACCTGGGCTGTATGGGGACTGGTACTGCC
TTGGCTGCAGGGACCCTCAGTGAATT
mm4_intergenic_Ubap2|Dcaf12_chr4_41275681 GTAGTTCTGGCGGAGAGTGGGTCTAGCTCCCACGTTGCGAGGCTGGCGCTCCGCCCTGCCCTCTGCGCGGGAAAACGCCA
ACCGCCAGCTGCTGAGCCAGACACCCAGAACGTCCTC
mm4_intergenic_Gm5449|Drd1a_chr13_53956292 CTCGCCCTCACACTGAATGATGATGCCAGGCATGGGAGCCACTACTTGCGTGGCTCCCCACTGCCAGAGCCAGGGCCGCT
TCTCCTGGGCATCTGCAC
mm4_intergenic_Gm6838|Gm10476_chr12_22355030 GCCTGAGGGTTGGGCATAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTTCTGTTAG
TGCTTAAAAAACAGGGTTACATTCTGGTTCTGTTTGTTCCAGTACTCCTCCCATCT
mm4_intergenic_Gm5633|Gm22908_chr12_22014170 CTCTAGCAGCCTGAGGGTTGGACATAAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTT
TTCTGTTAGTGCTTAAAAAACAGGGTTACGTCCTGGTTCTGT
mm4_intergenic_Gm5633|Gm22908_chr12_21914243 GCCTGAGGGTTGGGCATAATCCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTCCTG
mm4_intergenic_Gm4425|Gm20486_chr12_22166947 GCCTGAGGGTTGGGCATAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTTCTGTTAG
TGCTTAAAAAACAGGGTTACATTCTGGTTCTGTTTGTTCCAGTACTCCTCTCCTCT
mm4_intergenic_Gm3944|Gm5784_chr12_18962835 AGATGGGAGGAGTACTGGAACAAACAGAACCAGAATGTAACCCTGTTTTTTAAGCACTAACAGAAAAGGGAAAGTTTGGG
GGCAAAGTGCCTGGCTCCCCACTGCTGTCTGGGGGGATTATGCCCAACCCTCAGGC
mm4_intergenic_Gm23913|Gm10480_chr12_18119502 ACAGAAAAGGGAAAGTTTGGGGGCAAAGTGCCTGGCTCCCCACTGCTGTCTGGGGGGATTATGCCCAACCCTCAGGC
mm4_intergenic_Gm23913|Gm10480_chr12_17977652 ACAGAAAAGGGAAAGTTTGGGGGCAAAGTGCCTGGCTCCCCACTGCTGTCTGGGGGGATTATGCCCAACCCTCAGGC
mm4_intergenic_Gm21989|Asap2_chr12_21098274 AGAACCAGAATGTAACCCGGTTTTTCAAGCACTAACAGGAAAGAGAAAGTTTGGGGGCAAAGTGCCTGGCTCCCCACTGC
TGTCTGGGAGGATTATGCCCAACCCTCAGGC
mm4_intergenic_Gm21863|Gm3993_chr12_20047040 AGAGGAGAGGAGTACTGGAACAAACAGAACCAGAATGTAACCCTGTTTTTTAAGCACTAACAGAAAAGGGAAAGTTTGGG
GGCAAAGTGCCTGGCTCCCCACTGCTGTCTGGGGGGATTATGCCCAACCCTCAGGC
mm4_intergenic_Gm20472|Gm20473_chr12_23325655 GCCTGAGGGTTGGGCATAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTTCTGTTAG
TGCTTAAAAAACAGGGTTTCATTCTGGTTCTGTTTGTTCCAGTACTCCTCTCCTCT
mm4_intergenic_9030624G23Rik|Gm9312_chr12_24235607 GCCTGAGGGTTGGGCATAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCCCCAAACTTTCCCTTTTCTGTTAG
TGCTTAAAAAACAGGGTTACATCCTGGTTCTGTTTGTTCCAGT
mm4_intergenic_5730507C01Rik|Gm3944_chr12_18627528 CAGGAAAGGGAAAGTTTGGGGGCAAAGTGCCTGGCTCCCCACTGCTGTCTGGGGGGATTATGCCCAACCCTCAGGC
mm4_intergenic_2410018L13Rik|Gm26140_chr12_23174875 GCCTGAGGGTTGGGCATAATCCCCCCAGACAGCAGTGGGGAGCCAGGCACTTTGCCTCCAAACTTTCCC
mm4_intron_Kirrel3_chr9_35017851 GCCACAGTGAAATCGGCAACCCTCCCCACTGCCCGCTCTGGGGAGGGCGCTGAGGAGCCAAGCTGCCATGCCTGTTGTCA
GCTGTGACCCCCCCTCCCTCCAAGGCTCGGGACCCTCAGACACACACTTGCCTGGAGCTA
mm4_intergenic_Ccr2|Ccr5_chr9_124118693 TATCTTGCCAAGGCCACTGGAGGTCCTGTCTGAGTGACTTTTGAGCCTGTATAGGGCTCCACACTGCCCTCTGGGGGGTG
AGCTAGATCTCCCATATCTTCAGCTACCCT
mm4_exon_Ccz1_chr5_144014837 CGGGAACTGCTTCTCCTGGGCCGCCCAAGCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTCGGG
AGGCTCCCCTCCGCCCGCTCCGAGGCAGCAGCCTTAGGGAACACCGCACTTCC

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.