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Contents:In the table below, Illumina Nextera Handle sequences have been added and highlighted in bold. Primers for the on-target have been added for convenience. The table below is sorted by the CFD off-target score. Sites with very low CFD scores < 0.02 are unlikely to be cleaved, see our study Haeussler et al. 2016, Figure 2.
In the protocol by Matthew Canver, Harvard, two PCRs are run: one PCR to amplify the potential off-target, then a second PCR to extend the handles with Illumina barcodes. Please click here to download the protocol. Alternatively, you can have a look at Fu et al, 2014.
If a primer was not found, the reason is usually that the region around the off-target is too repetitive. To avoid unspecific primers, all repeats are masked for the primer design (not for off-target search). If you think that we should change the parameters here or should use different primer3 settings, please let us know.
| Name | Primer Sequence | Tm | CFD Score |
|---|---|---|---|
| mm0_exon_Pop5_chr5_115238094_F | TCGTCGGCAGCGTCTGCGGTTCAAGCACAGGTAA | 60.1 | 1.00 |
| mm0_exon_Pop5_chr5_115238094_R | GTCTCGTGGGCTCGGCTCGCACAGAAGGTACCTGC | 60.7 | 1.00 |
| mm3_intron_Lhx4_chr1_155741353_F | TCGTCGGCAGCGTCTCGAACTGCCGAAACCAAGA | 59.8 | 0.50 |
| mm3_intron_Lhx4_chr1_155741353_R | GTCTCGTGGGCTCGGACAACTTTACCCCAGCTGGC | 60.5 | 0.50 |
| mm4_intergenic_Gm15496|Slc7a14_chr3_31309972_F | TCGTCGGCAGCGTCCTCATCGAGGATGCTACCGG | 59.7 | 0.48 |
| mm4_intergenic_Gm15496|Slc7a14_chr3_31309972_R | GTCTCGTGGGCTCGGACCTACGGGAAGGGGATCTC | 60.1 | 0.48 |
| mm3_exon_Elac2_chr11_64979223_F | Primer3: not found at this Tm | N.d. | 0.38 |
| mm3_exon_Elac2_chr11_64979223_R | Primer3: not found at this Tm | N.d. | 0.38 |
| mm4_exon_Dnm1_chr2_32312270_F | TCGTCGGCAGCGTCGGATCCAGCAGGCGGAGG | 62.2 | 0.38 |
| mm4_exon_Dnm1_chr2_32312270_R | GTCTCGTGGGCTCGGCTCTTGTCGCCGGTAGATCG | 60.3 | 0.38 |
| mm4_intergenic_Khdrbs3|Gm24232_chr15_69097135_F | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_Khdrbs3|Gm24232_chr15_69097135_R | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_A730085A09Rik|Kank4_chr4_98817364_F | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_intergenic_A730085A09Rik|Kank4_chr4_98817364_R | Primer3: not found at this Tm | N.d. | 0.28 |
| mm4_exon_Brap_chr5_121660950_F | TCGTCGGCAGCGTCCTGCTCGACGTCGCCCTC | 62.8 | 0.27 |
| mm4_exon_Brap_chr5_121660950_R | GTCTCGTGGGCTCGGTCTGTCTGACTGCCAGCTTG | 59.9 | 0.27 |
| mm4_intergenic_Cct8l1|Gm10062_chr5_25529668_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_Cct8l1|Gm10062_chr5_25529668_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_Cldn23|Gm22030_chr8_35847616_F | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_intergenic_Cldn23|Gm22030_chr8_35847616_R | Primer3: not found at this Tm | N.d. | 0.26 |
| mm4_exon_Nhlrc1_chr13_47014460_F | TCGTCGGCAGCGTCCGTGGTAGCAGGTGAGAGTC | 59.8 | 0.24 |
| mm4_exon_Nhlrc1_chr13_47014460_R | GTCTCGTGGGCTCGGCTGTGACACCAGCGATTGC | 59.5 | 0.24 |
| mm4_intron_Midn_chr10_80148728_F | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intron_Midn_chr10_80148728_R | Primer3: not found at this Tm | N.d. | 0.21 |
| mm4_intergenic_Wdr86|Crygn_chr5_24744222_F | TCGTCGGCAGCGTCCCCCAGGAGAAGCTTTCCTC | 59.7 | 0.20 |
| mm4_intergenic_Wdr86|Crygn_chr5_24744222_R | GTCTCGTGGGCTCGGGAGAAGACCCCGCCTGAATC | 60.1 | 0.20 |
| mm4_intergenic_Fam221a|Stk31_chr6_49395482_F | TCGTCGGCAGCGTCCTTTCGGGAGCAGAGCGG | 60.5 | 0.19 |
| mm4_intergenic_Fam221a|Stk31_chr6_49395482_R | GTCTCGTGGGCTCGGGTGCTGCTGCGCTATAGC | 59.0 | 0.19 |
| mm4_exon_Eif4e2_chr1_87214171_F | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_exon_Eif4e2_chr1_87214171_R | Primer3: not found at this Tm | N.d. | 0.17 |
| mm4_intron_RPL24/RP24-288C12.6_chr16_55966639_F | TCGTCGGCAGCGTCGACCGACGGGAAGGTAAAGG | 60.1 | 0.16 |
| mm4_intron_RPL24/RP24-288C12.6_chr16_55966639_R | GTCTCGTGGGCTCGGCCCTCAAGTTTCCCATCCCA | 59.2 | 0.16 |
| mm3_intergenic_Cnksr3|Ulbp1_chr10_7391197_F | Primer3: not found at this Tm | N.d. | 0.14 |
| mm3_intergenic_Cnksr3|Ulbp1_chr10_7391197_R | Primer3: not found at this Tm | N.d. | 0.14 |
| mm4_intron_Car2_chr3_14886799_F | TCGTCGGCAGCGTCCTGGGGATACAGCAAGCACA | 60.0 | 0.14 |
| mm4_intron_Car2_chr3_14886799_R | GTCTCGTGGGCTCGGGACGTACCAGAGCGGAGAC | 59.5 | 0.14 |
| mm4_exon_Shank3_chr15_89500148_F | TCGTCGGCAGCGTCTGCTCTCGCTCCCCAACTA | 60.3 | 0.13 |
| mm4_exon_Shank3_chr15_89500148_R | GTCTCGTGGGCTCGGGTCCAGACGCAGGCACTTC | 61.0 | 0.13 |
| mm4_intron_Nufip2_chr11_77686647_F | TCGTCGGCAGCGTCCTAGATGGGAAAAGCGCGGA | 60.1 | 0.13 |
| mm4_intron_Nufip2_chr11_77686647_R | GTCTCGTGGGCTCGGGCCTCTCCCATGCTAAAGGG | 60.1 | 0.13 |
| mm4_intron_Spata5_chr3_37481360_F | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intron_Spata5_chr3_37481360_R | Primer3: not found at this Tm | N.d. | 0.11 |
| mm4_intron_Phip_chr9_82974984_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Phip_chr9_82974984_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_exon_Adra2a_chr19_54047023_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_exon_Adra2a_chr19_54047023_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Rad23b_chr4_55350581_F | TCGTCGGCAGCGTCGGGGCAGATGGCGTGGAG | 62.8 | 0.10 |
| mm4_intron_Rad23b_chr4_55350581_R | GTCTCGTGGGCTCGGCCCACCTGTGCACGTCAG | 60.6 | 0.10 |
| mm4_intron_Fam178a_chr19_44931467_F | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_intron_Fam178a_chr19_44931467_R | Primer3: not found at this Tm | N.d. | 0.10 |
| mm4_exon_Prkcd_chr14_30605791_F | TCGTCGGCAGCGTCGCCCCACAGAGTCTAGGGTA | 60.0 | 0.10 |
| mm4_exon_Prkcd_chr14_30605791_R | GTCTCGTGGGCTCGGTGACAAGATTATCGGCCGCT | 59.5 | 0.10 |
| mm4_exon_Gm17391_chr12_22622913_F | TCGTCGGCAGCGTCGACACTGGGTATCGGGCAC | 60.1 | 0.09 |
| mm4_exon_Gm17391_chr12_22622913_R | GTCTCGTGGGCTCGGCATCGATGAGGTGAGCGGTA | 59.3 | 0.09 |
| mm4_exon_Gm17330_chr12_23968671_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_exon_Gm17330_chr12_23968671_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Rasa2_chr9_96631077_F | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_intron_Rasa2_chr9_96631077_R | Primer3: not found at this Tm | N.d. | 0.09 |
| mm4_exon_Dok4_chr8_94876163_F | TCGTCGGCAGCGTCCGCGCTTCGTATTCCCCTAT | 60.0 | 0.07 |
| mm4_exon_Dok4_chr8_94876163_R | GTCTCGTGGGCTCGGCACCCTACCTTCCCCTCCC | 60.6 | 0.07 |
| mm4_exon_St3gal3_chr4_118134586_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_St3gal3_chr4_118134586_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm13605|Gsn_chr2_35232876_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_intergenic_Gm13605|Gsn_chr2_35232876_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Klk13_chr7_43713778_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Klk13_chr7_43713778_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Socs7_chr11_97362599_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Socs7_chr11_97362599_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Cacna1a_chr8_84559330_F | Primer3: not found at this Tm | N.d. | 0.06 |
| mm4_exon_Cacna1a_chr8_84559330_R | Primer3: not found at this Tm | N.d. | 0.06 |
| mm3_intron_Pitpnm3_chr11_72135629_F | TCGTCGGCAGCGTCCTCCGCCCACCTGGTTGG | 62.7 | 0.06 |
| mm3_intron_Pitpnm3_chr11_72135629_R | GTCTCGTGGGCTCGGCCCGGGACATGGCCAAGG | 62.8 | 0.06 |
| mm4_exon_Noxo1_chr17_24696234_F | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_exon_Noxo1_chr17_24696234_R | Primer3: not found at this Tm | N.d. | 0.05 |
| mm4_intron_Ift88_chr14_57424249_F | TCGTCGGCAGCGTCCTCCCTGCTGCCCTCTCC | 61.4 | 0.05 |
| mm4_intron_Ift88_chr14_57424249_R | GTCTCGTGGGCTCGGGAGGAGCACCATCCAAGTGT | 59.6 | 0.05 |
| mm4_intergenic_Zeb2/Gm13476/ZEB2_AS1_3/ZEB2_AS1_4|Zeb2_chr2_45117164_F | TCGTCGGCAGCGTCGAACTTCGCTCCCTCTGTCG | 60.4 | 0.05 |
| mm4_intergenic_Zeb2/Gm13476/ZEB2_AS1_3/ZEB2_AS1_4|Zeb2_chr2_45117164_R | GTCTCGTGGGCTCGGCGAGCCAGGTCAGCTGAC | 60.1 | 0.05 |
| mm4_intergenic_Ski|2610002J02Rik_chr4_155222759_F | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_intergenic_Ski|2610002J02Rik_chr4_155222759_R | Primer3: not found at this Tm | N.d. | 0.04 |
| mm4_exon_Klf4_chr4_55532433_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Klf4_chr4_55532433_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Cntn5|Gm25365_chr9_10904830_F | TCGTCGGCAGCGTCGTTGAGAGATGCAGGCAGGT | 60.0 | 0.03 |
| mm4_intergenic_Cntn5|Gm25365_chr9_10904830_R | GTCTCGTGGGCTCGGGGAGAGACCCAGCCAGTCA | 60.6 | 0.03 |
| mm4_exon_Spast_chr17_74339344_F | TCGTCGGCAGCGTCCCAAGAGGAGCTCCGGGA | 60.3 | 0.03 |
| mm4_exon_Spast_chr17_74339344_R | GTCTCGTGGGCTCGGGTACTCGAAGGCCTGCTTGT | 60.0 | 0.03 |
| mm4_exon_Eif2ak3_chr6_70844735_F | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_exon_Eif2ak3_chr6_70844735_R | Primer3: not found at this Tm | N.d. | 0.03 |
| mm4_intergenic_Ncoa7|Hey2_chr10_30803187_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Ncoa7|Hey2_chr10_30803187_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_1700025G04Rik_chr1_152090161_F | TCGTCGGCAGCGTCCGCCTGGAGTAAAAGCCGAA | 60.6 | 0.02 |
| mm4_exon_1700025G04Rik_chr1_152090161_R | GTCTCGTGGGCTCGGGCCACCGCTTCTTTCACACT | 61.1 | 0.02 |
| mm4_intergenic_Ica1l|Wdr12_chr1_60043092_F | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_intergenic_Ica1l|Wdr12_chr1_60043092_R | Primer3: not found at this Tm | N.d. | 0.02 |
| mm4_exon_Trnau1ap_chr4_132329430_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Trnau1ap_chr4_132329430_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm3_intergenic_Mir181c|Gm26887_chr8_84183773_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm3_intergenic_Mir181c|Gm26887_chr8_84183773_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Klf11_chr12_24651359_F | TCGTCGGCAGCGTCGCAGGGAGCGGTGTATTTTG | 59.5 | 0.01 |
| mm4_exon_Klf11_chr12_24651359_R | GTCTCGTGGGCTCGGCACCTCCGCCTTCCTTGC | 60.7 | 0.01 |
| mm4_intergenic_Tshz1|Zadh2_chr18_84087577_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intergenic_Tshz1|Zadh2_chr18_84087577_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Smad3_chr9_63757407_F | TCGTCGGCAGCGTCCACTCCCCGTCCCCTACA | 59.9 | 0.01 |
| mm4_intron_Smad3_chr9_63757407_R | GTCTCGTGGGCTCGGTGCATTACCATCCCCAGGTG | 59.7 | 0.01 |
| mm4_intron_Scn5a_chr9_119512906_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_intron_Scn5a_chr9_119512906_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Vps37b_chr5_124032176_F | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Vps37b_chr5_124032176_R | Primer3: not found at this Tm | N.d. | 0.01 |
| mm4_exon_Gpc4_chrX_52164726_F | TCGTCGGCAGCGTCTTTTCGACTTGAGCTCCGCA | 60.2 | 0.00 |
| mm4_exon_Gpc4_chrX_52164726_R | GTCTCGTGGGCTCGGTCTGTCCCCTAAAGGTGGGA | 59.5 | 0.00 |
| mm4_exon_Cebpb/Tmem189_chr2_167689908_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Cebpb/Tmem189_chr2_167689908_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm23144|Pim3_chr15_88862031_F | TCGTCGGCAGCGTCCCACGAAGAACGAGGGAACA | 59.9 | 0.00 |
| mm4_intergenic_Gm23144|Pim3_chr15_88862031_R | GTCTCGTGGGCTCGGGAAAGGACACGGGGACTCAG | 60.0 | 0.00 |
| mm4_intron_Slc6a11_chr6_114131518_F | TCGTCGGCAGCGTCAGATCATCGGACTGGGCAAC | 59.8 | 0.00 |
| mm4_intron_Slc6a11_chr6_114131518_R | GTCTCGTGGGCTCGGACGAGAGGTGTCACCCCA | 59.8 | 0.00 |
| mm4_intergenic_Hmgn1|Wrb/Gm15317_chr16_96127772_F | TCGTCGGCAGCGTCGTGGGAGAACCGGATGGAAC | 60.3 | 0.00 |
| mm4_intergenic_Hmgn1|Wrb/Gm15317_chr16_96127772_R | GTCTCGTGGGCTCGGGCCTAGACAGCCAATGGAGG | 60.1 | 0.00 |
| mm4_intron_Hivep1_chr13_42052259_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intron_Hivep1_chr13_42052259_R | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_intergenic_Gm13501|Gm13503_chr2_53485260_F | TCGTCGGCAGCGTCAGCTCCAGCCCCAGAATCT | 60.3 | 0.00 |
| mm4_intergenic_Gm13501|Gm13503_chr2_53485260_R | GTCTCGTGGGCTCGGAGTCAAATGAGGCAAGGGACA | 59.5 | 0.00 |
| mm4_exon_Maf/Gm15655_chr8_115706214_F | Primer3: not found at this Tm | N.d. | 0.00 |
| mm4_exon_Maf/Gm15655_chr8_115706214_R | Primer3: not found at this Tm | N.d. | 0.00 |
These only list off-targets that have primers in the table above. Primers underlined, off-targets in bold.
| mm0_exon_Pop5_chr5_115238094 |
TGCGGTTCAAGCACAGGTAAGCAGCGCTGTCCCCGCGCCGTCCCCGCGACCCGGGCCGCGCTCACCCCGCTGTCGCCGCA GGTACCTTCTGTGCGAG |
| mm3_intron_Lhx4_chr1_155741353 |
TCGAACTGCCGAAACCAAGAGTGTGACAGGGGGCTTCTGTACAGCCCTGCGACCCGGGACGCGCTCTCCAACTTCCCGCC AGCTGGGGTAAAGTTGT |
| mm4_intergenic_Gm15496|Slc7a14_chr3_31309972 |
CTCATCGAGGATGCTACCGGGGGACCCATTCCCAGTGGAAGCCCGCGCGACCCTGACCTCGCTCCTTGGTCTTTCCAGAG ATCCCCTTCCCGTAGGT |
| mm4_exon_Dnm1_chr2_32312270 |
GGATCCAGCAGGCGGAGGCCCAGGAGCAGGGCCCCGCGATCCGGGCCGGGCTGGGGGCACGGCGGGGGCTCGGCGCTGCG GCGTGGGGCTGGACGTGGGCGATCTACCGGCGACAAGAG |
| mm4_exon_Brap_chr5_121660950 |
CTGCTCGACGTCGCCCTCGCTGCGAGAAAGCGCGGCCCAGGGCGCGGGGGCGATGCTGTGCGCCTTTCCCAAGCTGGCAG TCAGACAGA |
| mm4_exon_Nhlrc1_chr13_47014460 |
CGTGGTAGCAGGTGAGAGTCCCCGGCGCGAAGGGGGCGGCGCTGAGGGCAGCCGGGGACGCGTGGAGGGTGGAGCCCAGG AGCTCCAGGAGGTGCAGCACCGGCAGGCAATCGCTGGTGTCACAG |
| mm4_intergenic_Wdr86|Crygn_chr5_24744222 |
CCCCAGGAGAAGCTTTCCTCTGGCCCACATCCCAGGAATCACTGTGTGTGAAGAAACCTCATGCTTCTATTACTCAGATT CAGAGAGCCACGGAACCCGGGCCGCGTTCTGCGTTGGCCGATTCAGGCGGGGTCTTCTC |
| mm4_intergenic_Fam221a|Stk31_chr6_49395482 |
CTTTCGGGAGCAGAGCGGAGCGCGTGCGTGGACCGTGGGCGGCCTGGCTGCGCTCGAGGCCTTGAGGCCGGCCACCCACG TGACCAGGGCTGCGCTCCCTCCGCTATAGCGCAGCAGCAC |
| mm4_intron_RPL24/RP24-288C12.6_chr16_55966639 |
GACCGACGGGAAGGTAAAGGCCGGCTGGGCCGAGCGCGGCTCGGGACGCTGGGAGTAGAAGGACGGTCCTCTCTCCCCGA AGGCCCCGGGACCGCGTGTGGGATGGGAAACTTGAGGG |
| mm4_intron_Car2_chr3_14886799 |
CTGGGGATACAGCAAGCACAACGGTGAGTGGGGAGGCCGCGCGCTCCGGGCCGCGCGCTCCGGGTCTCGGCTCAGGCACC TGCCTCGCTCCGCAGATCCCGGAGCGCAGCTTGGATGCCGGGTCTCCGCTCTGGTACGTC |
| mm4_exon_Shank3_chr15_89500148 |
TGCTCTCGCTCCCCAACTAGCCCTCCAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGTCCGGGCTCACGACTC GCTCCGCTGCAGAAGTGCCTGCGTCTGGAC |
| mm4_intron_Nufip2_chr11_77686647 |
CTAGATGGGAAAAGCGCGGACCCGGTCCGGGTGTGCGTCCCGCCGGGCCGGGGATGCCCCCTTCCATTCTTNNNNNNNNN NNNNNNNNNNNNNAGGTGGGGATTGCAGCGCCCTCTCCTTCCCTTTAGCATGGGAGAGGC |
| mm4_intron_Rad23b_chr4_55350581 |
GGGGCAGATGGCGTGGAGCAGCACCGGTCCGCGTGGGCGCTGGTGGCCGCGGCCCGGAGCGCGTGGTCGTGGGGACGGAG GGGGAGGGGAGACCTGGCGGCCTGGGCGCTGGAGCCGGGCCTGACGTGCACAGGTGGG |
| mm4_exon_Prkcd_chr14_30605791 |
GCCCCACAGAGTCTAGGGTACCCATGACCCTCCCCTCCCATCTGACAATCCCCAGACCCCCGCGCCCTGGGCCCAGCTCA CGATGGTGTCCCGGCTATTGGTGGCAGTGCCAGTGCAGCGGCCGATAATCTTGTCA |
| mm4_exon_Gm17391_chr12_22622913 |
GACACTGGGTATCGGGCACCAGGCGCGGAAGCCTAGCGGGTGGCCAGGGCGCAGCCCGATCCCCGCGACCCTAGCCTCCC TCAGGGCGCGGGCTATGCTACCGCTCACCTCATCGATG |
| mm4_exon_Dok4_chr8_94876163 |
CGCGCTTCGTATTCCCCTATTTACCTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCA TGCCCGCGTCTCGGCGCGGCCGGGAGGGGAAGGTAGGGTG |
| mm3_intron_Pitpnm3_chr11_72135629 |
CTCCGCCCACCTGGTTGGGGGGCTCACCTGGGCCGAGCGATCCCTCCCGCCACCCGCCGAGCGCCCCGCGCCGCGCTCAC CTGCGCTGCCCGCCTTGGCCATGTCCCGGG |
| mm4_intron_Ift88_chr14_57424249 |
CTCCCTGCTGCCCTCTCCCTGCCCCGTGCGTGAGCGGCGGCGGGGTCGCGAGGGCAGGCGGGCTGGCGGCGCCCAAGCCC GGCTCCTGGCGACTGCGCTTCCGTAGCCAACACTTGGATGGTGCTCCTC |
| mm4_intergenic_Zeb2/Gm13476/ZEB2_AS1_3/ZEB2_AS1_4|Zeb2_chr2_45117164 |
GAACTTCGCTCCCTCTGTCGGTCCCGGAGCACGTGGGGGGGGGGGGAATCGGCGGCCCGCACCCCCCTGCAACACCCGAC CCCGCCCTGGTACCGCGCGACCCCCGCCCCGCTCCCGGTCAGCTGACCTGGCTCG |
| mm4_intergenic_Cntn5|Gm25365_chr9_10904830 |
GTTGAGAGATGCAGGCAGGTGCAAGTGGGCGCCTCCTCCCGCTGCTGCTCCGGGCTCGCGCGCGGATGCTCCAATGCGTC CANNNNNNNNNNNNNNNNNNNNNTGACTGGCTGGGTCTCTCC |
| mm4_exon_Spast_chr17_74339344 |
CCAAGAGGAGCTCCGGGACCGCGCCGGCGCCCGCCTCGCCCTCGCCCCCAGAGCCCGGACCGGGTGGCGAGGCCGAGAGC GTCCGCGTCTTCCACAAGCAGGCCTTCGAGTAC |
| mm4_exon_1700025G04Rik_chr1_152090161 |
CGCCTGGAGTAAAAGCCGAAAACCCCGGAGCCGGGCCCGCGTGCGTGCGTGCGGGAAGGCGGCGCGCGGCCAGCTCTCTC CAGTCACTGAGCGCGGCGCGCGGCTCGCGGCAACTAAAGTGTGAAAGAAGCGGTGGC |
| mm4_exon_Klf11_chr12_24651359 |
GCAGGGAGCGGTGTATTTTGGTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNAGGCAGAGCCGCGCGGCAAGGAAGGCGGAGGTG |
| mm4_intron_Smad3_chr9_63757407 |
CACTCCCCGTCCCCTACAGGCGCGCGCACACACGCGCACACGCCCTCCCTCTCCACCCGGGCCGCGCTAGGGGGCTGGGC CAGTGCGCCCCCAGCCGCTCTGGGACCCCACCTGGGGATGGTAATGCA |
| mm4_exon_Gpc4_chrX_52164726 |
TTTTCGACTTGAGCTCCGCAGCCAGCAGCGAGGCGCTGAGCGCGGCCAGGGTGCAGAGGAGCGCGAGCAAGCCTAAGCGT GCCATGGTGCGGACCCTGACGGACGCGCTCCCACCTTTAGGGGACAGA |
| mm4_intergenic_Gm23144|Pim3_chr15_88862031 |
CCACGAAGAACGAGGGAACAACACGCGTAACTCGCGGAGCCGGAGAGTGACCTTCCTCAGCGCGGCCTGGGGGGCGAGGC TCGGAAGGCCCCGCCCTACGCTGCCATTGGCTGAGTCCCCGTGTCCTTTC |
| mm4_intron_Slc6a11_chr6_114131518 |
AGATCATCGGACTGGGCAACGTGTGGCGCTTTCCCTACCTGTGCTACAAAAACGGCGGAGGTGAGCGCGGCGGGGATGGC GGGGACGCGGGGCGACACCTGGGGTGGGGTGACACCTCTCGT |
| mm4_intergenic_Hmgn1|Wrb/Gm15317_chr16_96127772 |
GTGGGAGAACCGGATGGAACCGGATTGGAGCCCGCCCCCTCTCCCCCCGCGCCTCCCCGCCAGCCGGGCCGCCCCCAGCC TCCATTGGCTGTCTAGGC |
| mm4_intergenic_Gm13501|Gm13503_chr2_53485260 |
AGCTCCAGCCCCAGAATCTCCCCGCCCCCCGGCCCCCGCTCACTCCACTCCTCCATTTCTTCTTCATTTCCTAGTTTTTG ACATGGTCTAAAAAATTAGCTGAGGTGTCCTTAAACTTTTGTCCCTTGCCTCATTTGACT |