Table 7. Decoy sequences of NFκB and HOXD10 for each miRNA promoter.
| miRNA promoter | TXN bound | Start from TSS | End from TSS | Predicted binding sequence | Wt decoy sequence (5′ → 3′) (Ds DNA) |
Mt decoy sequence (5′→ 3′) (Ds DNA) |
Transfected T4-2 cells | ||
|---|---|---|---|---|---|---|---|---|---|
| Scramble | F | TTGCCGTACCTGACTTAGCC | |||||||
| R | GGCTAAGTCAGGTACGGCAA | ||||||||
| miR-34c | NFκB | −787 | −778 | AGGGAATCAA | F | CCTTGAAAGGGAATCAATCC | F | CCTTGAAAtGtAcTaAcTCC | Ctrl (pDCF1) |
| R | GGATTGATTCCCTTTCAAGG | R | GGAgTtAgTaCaTTTCAAGG | ||||||
| −769 | −760 | TGGGAAGTTT | F | CCTTGAATGGGAAGTTTTCC | F | CCTTGAATtGtAcGgTgTCC | Ctrl (pCDF1) | ||
| R | GGAAAACTTCCCATTCAAGG | R | GGAcAcCgTaCaATTCAAGG | ||||||
| −427 | −418 | TGGGAACCTT | F | CCTTGAATGGGAACCTTTCC | F | CCTTGAATtGtAcCaTgTCC | Ctrl (pCDF1) | ||
| R | GGAAAGGTTCCCATTCAAGG | R | GGAcAtGgTaCaATTCAAGG | ||||||
| −64 | −55 | TGGGAAGCCG | F | CCTTGAATGGGAAGCCGTCC | F | CCTTGAATtGtAcGaCtTCC | Ctrl (pCDF1) | ||
| R | GGACGGCTTCCCATTCAAGG | R | GGAAGtCgTaCaATTCAAGG | ||||||
| −56 | −47 | CGCTTTCCCA | F | CCTTGAACGCTTTCCCATCC | F | CCTTGAACtCgTgCaCcTCC | Ctrl (pCDF1) | ||
| R | GGATGGGAAAGCGTTCAAGG | R | GGAgGtGcAcGaGTTCAAGG | ||||||
| -3 | 6 | GGGGAATGAG | F | CCTTGAAGGGGAATGAGTCC | F | CCTTGAAGtGtAcTtAtTCC | HOXD10/pCDF1 | ||
| R | GGACTCATTCCCCTTCAAGG | R | GGAaTaAgTaCaCTTCAAGG | ||||||
| HOXD10 | −864 | −855 | AGTTTGTATT | F | CCTTGAAAGTTTGTATTTCC | F | CCTTGAAAtTgTtTcTgTCC | HOXD10/pCDF1 | |
| R | GGAAATACAAACTTTCAAGG | R | GGAcAgAaAcAaTTTCAAGG | ||||||
| −385 | −376 | CCCTTCTATT | F | CCTTGAACCCTTCTATTTCC | F | CCTTGAACaCgTaTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATAGAAGGGTTCAAGG | R | GGAcAgAtAcGtGTTCAAGG | ||||||
| miR-30e | NFκB | −2888 | −2879 | GATATTCCCA | F | CCTTGAAGATATTCCCATCC | F | CCTTGAAGcTcTgCaCcTCC | Ctrl (pCDF1) |
| R | GGATGGGAATATCTTCAAGG | R | GGAgGtGcAgAgCTTCAAGG | ||||||
| HOXD10 | −2553 | −2544 | TGGTTGTATT | F | CCTTGAATGGTTGTATTTCC | F | CCTTGAATtGgTtTcTgTCC | HOXD10/pCDF1 | |
| R | GGAAATACAACCATTCAAGG | R | GGAcAgAaAcCaATTCAAGG | ||||||
| −2230 | −2221 | GCGTGATATT | F | CCTTGAAGCGTGATATTTCC | F | CCTTGAAGaGgGcTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATATCACGCTTCAAGG | R | GGAcAgAgCcCtCTTCAAGG | ||||||
| −2122 | −2113 | TTTTTTTATT | F | CCT TGAATTTTTTTATTTCC | F | CCTTGAATgTgTgTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATAAAAAAATTCAAGG | R | GGAcAgAcAcAcATTCAAGG | ||||||
| −1967 | −1967 | TACTCATATT | F | CCTTGAATACTCATATTTCC | F | CCTTGAATcCgCcTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATATGAGTATTCAAGG | R | GGAcAgAgGcGgATTCAAGG | ||||||
| miR-144 | NFκB | −3207 | −3198 | AGGGAATTTG | F | CCTTGAAAGGGAATTTGTCC | F | CCTTGAAAtGtAcTgTtTCC | Ctrl (pCDF1) |
| R | GGACAAATTCCCTTTCAAGG | R | GGAaAcAgTaCaTTTCAAGG | ||||||
| HOXD10 | −2850 | −2841 | AATAGAATGA | F | CCTTGAAAATAGAATGATCC | F | CCTTGAAAcTcGcAgGcTCC | HOXD10/pCDF1 | |
| R | GGATCATTCTATTTTCAAGG | R | GGAgCcTgCgAgTTTCAAGG | ||||||
| −2715 | −2706 | AATACAAAAA | F | CCTTGAAAATACAAAAATCC | F | CCTTGAAAcTcCcAcAcTCC | HOXD10/pCDF1 | ||
| R | GGATTTTTGTATTTTCAAGG | R | GGAgTgTgGgAgTTTCAAGG | ||||||
| −2412 | −2403 | CCATATTATT | F | CCTTGAACCATATTATTTCC | F | CCTTGAACaAgAgTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATAATATGGTTCAAGG | R | GGAcAgAcTcTtGTTCAAGG | ||||||
| −2336 | −2327 | AATAAGAGTA | F | CCTTGAAAATAAGAGTATCC | F | CCTTGAAAcTcAtAtTcTCC | HOXD10/pCDF1 | ||
| R | GGATACTCTTATTTTCAAGG | R | GGAgAaTaTgAgTTTCAAGG | ||||||
| −2312 | −2303 | ATTTATTATT | F | CCTTGAAATTTATTATTTCC | F | CCTTGAAAgTgAgTcTgTCC | HOXD10/pCDF1 | ||
| R | GGAAATAATAAATTTCAAGG | R | GGAcAgAcTcAcTTTCAAGG | ||||||
Note: the transcription factor binding sites are underlined, whereas mutated nucleotides are indicated in lower case.