| mature miRNA: CAGCCCTTCTCCTATCCACAA 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|34354519|gb|CF396102.1|CF396102 RTDS2_13_A12.g1_A021 Drought-stressed loblolly pine roots DS2 Pinus taeda cDNA clone RTDS2_13 CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): GGCCTGGTGTTCAACAATTAACACCATGTCATCTGTTGTGTCCAAGGTCGCATCATATATGACATTTTCATTTGATGGACGAGCAAGGCAGACAGGCCATTCCTCAGATTGCAGAGAGAGAGCCCTAATGAATTATGTCCAGCAAAATGTACAGAAGGGAAATGCAGACTCTGTGCTAAGTGCCATAGAAAGTTTTACTGACCATAGTTGGATGCCAATTTTAGGGAAGGAGAAGGGCTGTCTCCTAGATGCTGCAGTGCAGAAATTTGATCCCAAAGTGGCCTTAGAGCTGGGAACTTATTATGGGTACTCTGCCATTAGAATTGCTTCCAAGATGACAAAGCCTGACAGCAAGCTGATTTCTATAGAAATGCACCCACATAACTATGCAATTGCCGGAGAGATGATAGAGCATGCAGGACTTTCCTCAAAGGTGATATTGCTGAGAGGAACACTCAGTGATATGGATGATGCGTTAGAGGAGCTCCTGAATGAAATGGTAGCCCCGCACTTTGATTTCATATTCATGGATCACTTTAAGGACTTTTTTCTCCCAGATTTTCAGTTACTTGAAGACAAAGGTATGATTGGGAAAGGGACAGGCATTGTAGCAGAGAGCATTGGGTATAATGAGGCCCAAAATTACCACAATTATTTGAAAGGACATCGTAAGGAATTGGAGACCGAGATCTACACCTCTGAGAGTCTGTTACCGTGCAAATTGACAGTGT | |||||||||
gi|61770753|gb|DN627657.1|DN627657 EST978473 Subtracted pine embryo library, Lib_C Pinus taeda cDNA clone PTAAN44, mRNA sequence CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): CTAAAATATCTTTCCTTCTCAAACATTTTTCAAATTTGAAATCAAACGTAAAGGATTCAACCATTTGAAATACTTTGGCAACATAAATAATATACATGATTCTTTTGCGGAACAGGAAGCTTTTGAGCCCTGTCTCACATTTTTTCATTGCCGCTCCAAATTGCAGTCAAAGAAATTGATGTGCACAAACTAGTACAGTTGTGGATAGGAGAAGGGCTGGTGAATAGCTAACAGGTAACCCATTTAATGAGCATGGCCATCAAAATACAGGCAGTTGGATAGAAAAAGGGCTGGTTAAAAGCAAAACAAGCAACCCATTCAATGAGTGTGGCCATCAAAATACAGTTGCTTGATCTAACAGCCAACAATGATGCTCCGATGGAATCTCTATTAAATGGGTTTTGTACTGTTTACTAACCCTTCCATATCCACATCCATACACTCTGAACGCATCAATTTCTTCATACCGCAAAATACCAGCTCCCGAGCACTGCAAAACCTTTCAAGGTGCCATCGCTTGTTGTTCGGCGCAATAAGCTAAGGCGCCCCCGCGT | |||||||||
gi|67706510|gb|DR118200.1|DR118200 RTMG1_11_F04.g1_A029 Roots minus magnesium Pinus taeda cDNA clone RTMG1_11_F04_A029 5', mRNA CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): GCAGATACCATCATTATCGTGTGGTTGGGAGAAGGGTTGCTGCAAGATCAGACTGGCCACGACCAATTCGAGATCGGAGGAATCTACATCAACAATTTAGCGGACCGTTGTTTGGTTGAACCGACAGTGAGAGACATTGATGGGCGCGTGCAATTTTTCAGGATGCACGACGTTGTGCGTAGTGGGGGAATACAAATTGCTGAGCAGCTAGAGAGCTTCTACTGTGGCGTAGGTAAGGGTCTCACAACATTGGATGCAAATGAATGTTTAGCACGCACTAGAATTTTGTTGACTGGCAACCAGTTGACTTCTCTTCCAGAGTCTTTTCAGAGCTCCCGAAATCTGCACATAAAAAATTGGATATGAACAGATATTTGGGAG | |||||||||
gi|70776435|gb|DR687959.1|DR687959 EST1078042 Normalized pine embryo library, Lib_D Pinus taeda cDNA clone PWABY66 3' end, mRNA CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): ATTCTTCGCTGTGAATGTCGGACTCGATCTAAGTTCCCGATTGATAAACTTGAAATTTACTGATTATTTAACGTTTCTGGACAAGAAACTTCAAATTTATTTGATCATTTGATGTTATAAACAATTTTGCTTGGTTCGCTTAAAGATGGTTAAAGTCCCATAAAGATTATGTCTGGTTTAAATTTGAGAGGATCCCTAAGCGGGGATCATATGAGAGGTTCTAATGGCGATATTCAGGAGCTTTGCGCGGAAGAGATCGCTAAAGAGCTCGAAATACTGCTTAAAGACAGTCAGCCTCGCTACGAGATGAACGAAAGGGAGCGGGAATATCTTTTCTACAGAAGTGGCAGTGCACCTCCTATTGTGGAAGGTTCCTTGGCCTCTGTCGCGGGTGTATTCTCAGAAAACAATTTAAATTCCGCTCTTGGGTCGGATTTTGCGAATAATAGAGAAATGGGGAGTTTAACTCCTGAAGAGGAACTGAGGAATTATTATGAGTCACATGCGAATCCTAATCGTAGGCTACTTTTCCGCGAGGATTGGCGTTCTGCTCAGCGTTTGCAAGCGGTGTCAGGTTACGGCGGTATTGGCGATTGGAGAAGGGTTGAAGTTGAAGTCTCTTGAAGATGAAAACAGTAAGTCTCTCTTCTCGTCTCAGCCTGTTCTTCCTACTCACGAAGAAGAAGGGC | |||||||||
gi|66689410|gb|DR011904.1|DR011904 HEAT1_8_D12.g1_A029 Root at 37 C for 24 hr Pinus taeda cDNA clone HEAT1_8_D12_A029 5', mRNA s CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): TTTCACTCAAAAGGAATACTTCTATTAAAACTTACAAAAGAACACCTCAGAAGATCCAACAGTACTTAGAGAGTGGCAAGCAGTAGTAGCTCCATAAATGGGAATCTCAAGTTCTTCGAATGTCCAGATAGAAAGAAACATAAACAGATTTAAAGAGACTCTATGGAGATTCCACACTTTGGAGGTGAAAAAAATACAAACATGTCCGAATTTTCCATGAAAATGGAACACAAAAAATAAGGAAATCTCAATATTATCAAGACTCAGATCTCAGTGTAGAAGGAAGGAGGAGTTGCGCTATCCTTGCTTCAACATATAACATTATGACTCAGCTAGCGGGCTATATTGGGAACGCTTTCCTTCTCTCCGTGCTTCCTCTGTTATCAATTCTCTGTGAAGGATTGGCTTCTACATTCAGCTTTCAAGGAAGTACCTCCCATTATAGTGGAGCATAGGCTTGGCTTCAAGCAATTCAGACTCTACTCCAAATGACACTCCTCTGGAGGATACCCTGTCGGGGGTTCTTTTTAATGCCGCTCCAGATTGTCGTAGAAGAAATTGGTGTGGACAAACTAGTACAATTGTGGATAGGAGAAGGGCTGGTACAGAGCAAACAGCCAACCCATTTAATGAGTATGGCCATCGAATTACAGCTGCTTAATCTCGAACAGCCAATGACATACAATAAATGGGTTTTCTACCGTTTACTAACCCTTCTCTATCCACATCCATACACTCTGAACACATCGATTTCTTCACACGGCAAGAAAACAGCTCCCGAGCACTGCAAAACTTGTCATGGT | |||||||||
gi|11778033|gb|BF609910.1|BF609910 NXSI_052_E01_F NXSI (Nsf Xylem Side wood Inclined) Pinus taeda cDNA clone NXSI_052_E01 5', mR CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): ATTAACACCATGTCATCTGTTGTGTCCAAGGTCGCATCATATATGACATTTTCATTTGATGGACGAGCAAGGCAGACAGGCCATTCCTCAGATTGCAGAGAGAGAGCCCTAATGAATTATGTCCAGCAAAATGTACAGAAGGGAAATGCAGACTCTGTGCTAAGTGCCATAGAAAGTTTTACTGACCATAGTTGGATGCCAATTTTAGGGAAGGAGAAGGGCTGTCTCNNNNNTGCTGCNNNGC | |||||||||
gi|66747116|gb|DR024746.1|DR024746 STRS1_67_E07.b1_A034 Shoot tip pitch canker susceptible Pinus taeda cDNA clone STRS1_67_E07_A CAGCCCTTCTCCTATCCACAA EST sequence (targeted fragment marked with yellow): GGAAAGAACGGTATTACATATGATAATAAATATATTACTTTATACAATGATAAGAAGATGGGCCAGGCCAGTTAAATAAAACTATCACTGTAGTGGAAAAATACCAGACTAAATAAATCTCTGTAAATATGCATGGAATTCAAGGAAGAGGTGTGATGTTCCATGTGCACCTTTCTTTCCCTAAGGGGGCATAGGGGGCATTTTGCAGTGGCCAGAAGATTCTATTATTACATACTGTCATGCCATCTCAGGAGGTCTATAACCACTGATCATACATGTTTTTACTGCACTAGTAGTTGATGCAAATTAACCAAACACTGACTTTCTTGCAATGGCATGCAACTGCAAATATATGATAATAAAAGAGCATAAGACAACCAAGCAATTTCTATTTCTTTCCCTGCCCAACAAAATGTTGTGGACAAAGATAATATTATTATGGATGCCTCCAGTTTTTATGTATATGCCCACAGCTACCTAGCAAGATGGATGGAAACTGGAATGAAAAATACTGGAAATTATGAAGAAGTTATGGATGGTGAGGCATTGTGTTCATCATGATCATCTTCTTCTTCAGCAGAAGATGAGGAGGGGGAGGATGTATGGCGATGTATGAGGTGCGCTGATGATCTGTGGGTGAGAGAGGGGCTGAATATGGGTGCCACTGCAGGGGAAGTGAAGG | |||||||||