| mature miRNA: ATGCTTTGCTGGTTCATTTTC species: Pinus taeda database: miRNEST The numbers on the right side of the alignments show a score calculated for them. When calculating the score, a mismatch is given a score of 1, bulge: 2, and wobble: 0.5. |
| Predicted miRNA targets | |||||||||
gi|74166677|gb|DT636606.1|DT636606 EST1151537 Normalized pine embryo library, Lib_D Pinus taeda cDNA clone PIMGT76 3' end, mRNA ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): CGGCCGGGGGAAAGTTGGGCTTGGCCAACCTATTGGAGCTCAGGGAGGAATGTTTGAGAGAATTTCACTTCTCAGATGCATATAAAACAATTAAACAAAGGGAAAATGAAGCATCACTTGCTGTTTTACCAGATCTTTTAATGGAACTCGATAACATGGATGAGGAGAAGAGATTGCTAGCTCTTATTGAAGGTGTCCTTGCTGCTAACATCTTTGATTGGGGTTCACGTGCTTGTGTTGATCTGTACCATAAAGGCACAATTATTGAGATCTATCGCATGAGTCGCAAAAAGATGCAACGTCCCTGGCGGGTGGATGATTTTGATATGTTCAAAAAAAGAATGTTAGGGTCTGGAAAAGAGAAGCCCAAACCACATAAACGAGCACTTCTCTTTGTAGACAACTCTGGTGCTGACATTGTCCTTGGGATGTTGCCTCTAACACGTGAACTTCTTCGTCGTGGGACAGAGGTTGTCCTTGTTGCAAATTCCCTCCCTGCTCTTAATGATGTGACTGCAAGTGAACTTCCTAATATTGTGACTGAAGCAGCAAAGCATTGCGACATTTTACGTAAAGCTGCTGAAGCAGGAGAACTGCTAGTGGATGCAATGGCCACTGATCGGGAAGACAATGTGAAAAATATCTCTTCTGTGCCTCGTCTAATGGTGGTTGAAAATGGTTGTGGAAGTCCATGCATAGACTTCCGACAAGTAAGCTCAGATTTAGCTGCTGCAAATGAGGCGGACCTGGTCATTTTGGAAGGGATGGGTCGTGCTTTGCATACAAACTACAATGCTCGTTTTAAATGCGATGCCCTTAAGCTTGCAATGGTGAAGAA | |||||||||
gi|34353493|gb|CF395076.1|CF395076 RTDS2_9_F01.g1_A021 Drought-stressed loblolly pine roots DS2 Pinus taeda cDNA clone RTDS2_9_F ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): CTTCCATAAAGAACGGTTATTTCCTAGCAGTGCTCGAAATCAATGCACAGGACTTCGCAACCGACAAAGCATCATATCAGAAAGTCCACCTAGTAATTCTGTTGGGTTTTTCTTTGGATCAACACCACCAGACAACCATGGTGGCAGTTTTGCTGGAAGTAGTTCGCCAGTTGGTTCCATGCCAAAGTCTTTTCCTCCTTTCCAGCATCCAAGTCATGAACTTTTGGAAGATCATGGTTTTAAACAACAGAAATATTTGAAATTCTACAAGCGTTGCCTGGCAGAGCGCAAGAGAGTTGGTACTGGTTGCAGTGAGGAAATGAATACTCTCTACAGATTTTGGTCATTTTTCCTCAGAAATAATTTCAACCGCTCCATGTATAATGAGTTCCGAAGATTAGCACTGGAAGATGCAGCAGCAAAGTATAATTACGGCATGGAGTGCCTTTTTAGGTTCTACAGCTATGGATTGGAGAAGAAATTTAAGGAAAGTCTCTATGAGGATTTTGAACAGTTAACCCTTGAATTCTACAAGAAGGGGAATCTTTATGGTCTTGAAAAATATTGGGCATTTCATCATTATCGCAAGAAGGATGCTAGGCCTTTGAAAAAGCATCAAGAATTGGAAAGGTTACTTACAGAGGAGTTCCGAACAATACACGACTTTCCAGCANAAGATAAATTGCCCAAAGATGTTAATGCAAATGAGAAAGCGAGCAATGGTTTATCATCTATGGATGATGTGAAGACTGGGATATCCATCTGCTGAGCAAATCTTGTTGATATTTGAGCCATCAGTTGCATATCTGATCATATA | |||||||||
gi|66973095|gb|DR049528.1|DR049528 RTBOR1_17_F09.b1_A029 Roots plus added boron Pinus taeda cDNA clone RTBOR1_17_F09_A029 3', mR ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): TTCACAATTGCAACATTCCATGTTAAAAAACCCATTATAGTTGCAAATATATATATTGCACCAAATGCAAAAATTAAAGAGATAATTAATTTCATCAAATTCATTTTAGAGCACACATGCAACAGCTAACCAATTGTGCTTGTTGGTGGTTTTAATTTGGACATGTTGCAAACTAGCCATCAAAAAAAAAAACTCCTACAAATAGTCATCATACAAATAGTCTTACCATCATACAAATAGTCTTACCATATCTTTGTTGTCACCTTGAGTCATTTTTCCAATGTTTGTATTCTACAATTTCATTGTTGACTTGTCACAATATTTGTCACATTTGCAAATGTGCACCTTTGACATATGCCTTGATCTCGTTTAGGAGGAGGTACCAGCAAAGCATGATTGGAATCTTCATATTGCACAGGCTGGTCTGGACCTGTTCCCGAGCCATGCAAGGGGGGAGGTAGGGGCATTCTTGCTTGGCCTGGTCCGTAATCAATTGGAAAATGTGAGAACTGTCCAAGTAGGTCTGGAACCATGGAACCCTCTTGTACCTGAGTTGCTGCAGTAACTTCATGAGATAATCCCACATGCCAAGGGGCGAAGGGGTTTTGCTGAAACTCTTGAATAGCTGAGGCTTGCAGAGGGATCCTTTGATTGTTATCCTGGAAAGTTTGTATACCATTTTGAACTGGCAACCCCTCCAAGATAGTGACCAAACTTGT | |||||||||
gi|48934282|gb|CO163741.1|CO163741 FLD1_43_B04.g1_A029 Root flooded Pinus taeda cDNA clone FLD1_43_B04_A029 5', mRNA sequence ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): ATCGGAGTGGCGCTCAGCTCCGACGGCCTTGCCTTCCACCGCCACCGTGGCCCGCTGCCAGGTGGTGCCGTCATGGATCCCTCCAACGATCCCGATGCCTTCGATTGTGTCCACGTTGCCATCAGCGATGCCGTCTGTAACGGTGAAAATTTGCTTTTTTACTATTTCGGCGGCGGGATGGAGGGAGAGGGGAGGCGGCTGTTGCCGGGATTAGCCTCTTCCGGCGATGGAATCCACATCGACGGCAGGGAAGGGCCGTTGCTCGACGTCGGGGAGCCCGGTGCCTGGGATCAGAACGGCGTCTCTTGGCCGAGGATTTTTCCCGGCGACGATGGCGGGCGGCTGTTTATGACGTATCACACCAGAGAATCAGGCGGGGCGGCCGGGATAGGGTTTTTCTCGGCGGGCATGGCAGTTTCCGAAGACGGTAAAAACTGGCAGAAGGTCGGCAAGATTCTGTCGTGCGGAGATGCAGGGTCGTGGGACGAGGGCGGAGTGTCGGTGCGCCACGTCTTAAAGGTGGGCCCGAGATTTCTCATGTTCTACGAGGGGTCTAATTTCAAGTTCGAGTTTGCGATTGGCTTGGCCATCTCGGAAGACGGGCTAACGTGGCACAAGGATGAGTACGTAGGGAGAGAGCCAGGTGGACCGATTTTGACCGCTCGGAAAGGTGAGGATGTGTGGGATAATTTGATAGTGGGCACTCCTTACGTGTTGCAGATGCCAGATGGCAGTTTCCGGATGTATTATTTAGGGGTTGGGAAACGAGAGGGAGAGGAGATGAGTCAGCAAGGTATTGGATTAGCTGTTACCGATGGA | |||||||||
gi|34354278|gb|CF395861.1|CF395861 RTDS2_17_D02.g1_A021 Drought-stressed loblolly pine roots DS2 Pinus taeda cDNA clone RTDS2_17 ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): TTGTTCACGAAATAAGGAATGGAATCCACTTTTTTTTGAGCAAAATCCTATTCTGTTATTTCAACTGAAGCAGGTGGAGTTCCTTAAGTTGGTAGAGGATGGGAATTATGCTGGGGCTCTCAGAGTTGCACGCTCTGACTTGGGTCCACTTGCTGCAAGTTATCAAAATTTGCTCAAACCTTTGAAAGAGACATTGCTGGCCTTGGCAAGACCAGAGGAGAGTGCATCAGTAAAGCATATTCCACTGAATATTGTCGCTACTTCTCTCCAGGTTGCATTGGGTGCCAGTATTGGGATTGAAGAACCACAATTGATGAAGATAATGAGGGCAACAATTTATACCCATGCACAGTGGTTTAAGCTTCAAATGTGTACAGATCGATTTGAGAAACTTTTGAGGATAAATGAGTTGAAAGAGATGGATCCTGGGATGGTTAAAAAATTAAAATCTGAGGCCAACCCAGACTTGTGCAGTGGTGCTACTTCCCATGTTACTGGAAGTTCATGTAATTCAATGCCGTCAGATGGTAGTAATCAACCACCAGAGGCTTCTGGAGGTCTCTTTAATGAAACTGCAATCCTCCAAGTCATGGAATTTTTAGCTTTGCCAAGATCTGACGCAATCCAGTTACTTGCACAGTACGATGGGAGTGCTGATGCAGTATTTCAGCAAATGTTTAGTTAAATTATTTAATAAGATATATTGGTTCATTTGTTAATATTATTCGAAATCTCAATTCCATTCATTCATTTGCTTTGTAAGGA | |||||||||
gi|49447981|gb|CO366664.1|CO366664 RTK1_29_G01.b1_A029 Roots minus potassium Pinus taeda cDNA clone RTK1_29_G01_A029 3', mRNA se ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): GATAACTGCTTCACAATGGTGATGGATTATTCACAATAAAATCTTTACTGGCTTCACAAAACAAACCGATTCAAACAGATTCAACCTCATGGATCTGAAAGGCATATACAGGAAAGCACACTGATATGAAAATATGGAAGAGGACAGATGCAGGAGAAACGGATGCTCGAGAGTGTTGCAAAGGACCTGTTCTGGGAGCACAAATGGAGCAAATGAATGTTTGGGGCGAGGGATCATTTCAAAATTGCGCAGGCATTGGTTTGAAAATGTGCCAGCACAGCAGGTGCCAGCTCAGAGGTGGTGGGTCACCCGTTCCCGGAAAAAGTTGCCGTCTAGCTCCCGGAGAAACGATGGATGGCATAGGCATGTATGTATGGTGAGGCCGCTATCGGGTGCATTAAAGGCCCGATAGCAGGCTAGTTAGCTCTTGCCATCATCATGAACCTTTTAATACATGCTTGACATTCCTTTTTACAACCCTTGGGCATTAACTGGACACTAATTCCAAGAATCTTGAAAATATCAGCTAGAAACATTGTGAGTTTATCAGCCAGTGGTGAAATAGTGGCAGAAAATCAGGAGATGATGGAAAATTTCATTATCCAACACAATTGCACTAGCTGAATTTTACCAGCCACTGCAAACAGTGTTTTATAGCTGAAAACACATCATTATCATGCAAGTAAACTATATATGCATTAGTACAATTTCTCTTTTTAGCTGCTGCTTTTTCTTC | |||||||||
gi|37562845|gb|CF665602.1|CF665602 RTCNT1_17_C02.b1_A029 Root control Pinus taeda cDNA clone RTCNT1_17_C02_A029 3', mRNA sequenc ATGCTTTGCTGGTTCATTTTC EST sequence (targeted fragment marked with yellow): TTGGGTCCAGGATAACTTTTGGGAAATGGGTGATACTGGACCTTGTGGGCCATGTTCTGAAATTCACTTTGATAGAATTGGAAACCGTGATGCAGCTTCCTTAGTCAATAATGATGATCCTACATGCATTGAAATCTGGAACATTGTCTTCATTCAGTTCAACAGGGAAAGTGATGGCTCTCTGAAGAATTTACCAGCAAAGCATGTTGATACAGGAATGGGATTTGAACGGTTGACTTCAATTCTCCAAAATAAGATGGGCAACTATGAGACAGATATTTTCATGCCTATATTTGATGCAGTGCAACGGGCAACAGGAGCACGACCTTACTCTGGTAAAGTTGGGGCAGAAGATGGAGATAAAATTGACATGGCTTATAGGGTAGTGGCAGACCATATAAGAACATTATCATTTGCTATTGCAGATGGTTCTCGCCCAGGCAACGAGGGCCGTGAATATGTACTTCGTCGCATTCTCCGCCGAGCTGTGCGGTATGGACGGGAAGTTCTGAAAGCTCAAGAAGGTTTCTTCAGTGGGTTGGTGAGCACTGTCGTTGAAGTCATGGGGAATGTTTTTCCAGAACTGAAGCAACATGAAGAGAATATCAAGGAAATTATTGCTGAAGAGGAATTGAGCTTTGGCAGGACTTTAGTCAAGGGCATTGAAAAATTCAA | |||||||||