| mature miRNA: AGACCCAAAATCCTTGGTTCA species: Gossypium hirsutum 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|109859586|gb|DW488565.1|DW488565 GH_RMIRS_070_C05_R Cotton Normalized Library random primed Gossypium hirsutum cDNA, mRNA seq AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): ATCAGGCAGAGGACGAGACAATTGTGGGTCGATGAAATACTAGTGTACAACCGGCATCCTACACAAAATGTGGGAGTTTCAAGTTAGGAGTCAAAGTGTTCAATTATGAGTTCAGCAGCAGCACCCATTGTACCAACCCCACCAATGCCAAGCAAGGCCAGAGCAAGCTCCTCCTCATGCCATTGTCTTAATCCCTTGCTTAGCCTCCTTAACACGTCTACATCCACCTCTAGGACCCAATTTGGGGTGCATCCAACCATTAGACTTACGAATCCCGACACATAGGCATGCCATGTGGCTCCATCACAACCGAGCGATATCTTTCCATCTAGTGCACTTGCAAGGAACTCCATGTGTGAACCAAGGATTTTGGGTCTCCGCTTTGATGCTGATGAAGAAGAATCAACTCCCCAAGCAAAAGCACCACAAAGCACTGTGAAATATGCAAGTGCATATCCACCGAGCATTGCCACGAGCCCTGATCCTTGATCCCGGTCAGACCTATGAACGGATATGAACCAAGAAGGTAAAGTTTCCTTTATCAATGATTGAACCAGACCATGGCCACCAGACAACCATACTATAGAAGCAGCTAGGGAGGCTGCAAGTTTCACCCTTGTCATTGCTGCAGCAAGAGAAACCTGCCCGTATTTCATTCCATTCTTGCTTCTCTTCAGCTTGTCTAGTTT | |||||||||
gi|109849515|gb|DW478494.1|DW478494 GH_RMIRS_014_E02_R Cotton Normalized Library random primed Gossypium hirsutum cDNA, mRNA seq AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): ATCAGGCAGAGGACGAGACAAAGTGACACACAAGAGTTTTGCACCACGCTGCAGCATAGGACGCCTTTGACCATAGAAAGGGCTCTCAAGCACCATAATTGCAATGTTTTGTTTCAATAATGGTCCACCAAGACGCAATCTCCGTTCAAATGTATGGTCTCCTGTGCCTGCTAGGTGAACCACACATGCCATCTTTTGAGGTGGCACATCTTTTGGGACAAGGAAAGCAACCCTCGCATTATGACTTTCAGGAGGCAATGCACTAAGCAACTGCTCATCACAAGGGGTCCTAAACACACCTTCTCTCAAACAAGCATTTTGGGTCTCCCAAACAGTTCTCCAAATGGGTTGAATCAAGCTTGGAGGCCAGTTTTGGCCTTCAACTTCAGGGAACAACTGGCTTATCAATCTCTCCAGAAGCTCAAGCTTTGTTCCACCCCACCCTCTTGGGAAGAACGGTGGGCTAATCTTTGTTCTATGCACAAATGCACCATATACATGGTCTAGAATGTAATGAAGCATCCCTATATTAACTGTAACCATATTGTTTTTCTCTTTTTGAAGAAAACCAGATTTCAAAATTGCTTAAAAGAGAGGAAATTTGTATCTTTTTATTGATTCCGCTTCAGTATCAACAACCCAGTAATCAGAACTCAATAACAAGATTAGTTTTTTTCATAAAAAGAACATTGATTAGAATGTGGAGAAAAGCACAATACAATTAGATCTGTTGAATAAAACCATACCTTCCCCTCTAAAATCAATGAACAAGAGCTGTATAGTATTCA | |||||||||
gi|164367097|gb|ES849761.1|ES849761 UFL_672_34 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): AGTGGGTCCAAAGAATTCGGCGCGAGATAGTATCCGCCAGTATCAAGTTCCTCTGGAGAAGTACATGGGCATGATGGATTTGCAGGAGTTAAATGAAAGGGTGGTCTACAAACTTCTGATCGACAATGGTGAGGAGTTACTGGCTGGTGGCTATACCCCAACTGGTGGTGAGGGTTGGCAGAAATATGGGAGCATCTTCAGGGGCCCTCAGGGTCTTTTTATCAGTTTGAAAGAAAAGGGGAAGATTCATGAAGTTCTGAGAAATTGGCCTCAGAGGGATATTCAAGTCATCGTCGTCACTGATGGGGAAAGGATTTTGGGTCTAGGGGACCTTGGCTGGCAGGGAATGGGAATTCCTATAGGGAAGCTCTCTTTATATACTGGACTTGGAGGAGTTCGTCCTTCTGGTTGGTTGGCTGGAAGCATTGGTGGGGGTACAAACAATGAGCAATTGGTGAATGGTGAATTCTATATAGGGGTTAGGGGAAGGAGAGCTACTGGGCAGGAATATGGCGAACTTATGGACGAATTCATGAGTGGAGTCAAGCAGAACTATGGGGAAAAAGTTCTCATTCAGTTTGGAGATTTTGCAAACCACAATGGCTTCGATTTGCTTGGTAAATATGGCACAACTCATCTGGGTTTCAATGGTGATATTCAGGGAACAGCATCTGTGGTCCTTGGAGGGCTTGGTGCTGGACTAAAAGTAGTCGGGGGAACCTTGGCTGATCATAGATTT | |||||||||
gi|164267719|gb|EV483061.1|EV483061 031C05 Cotton Lambda Zap Express Library Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): TTTCAAATCCCTAATCCCCCTTCCTAATCGCCGATCATCTCCACCAGATGGTGCGCGGCGAGTCTGGAGGAATTCAACCCTGAAATCTTTCCTCAGCTTAGATTCAACGAAGAAAGGAGAAGAAATCCATGGCCTGTTTGCACGAAACGGCCGTACAGAGGAGTGGGGAGAGGCGCACGTGAAAGAGGCCGTGCGGGGAAACTGCTCGTGGGAGCCCGACCCCTGGCACTGTTCTGGCATGTTCCAGAAGCTTCTGGTGTTCTCGGCTGCTGAGATTCCTTTCGGGTTTGGGCCTTTTATAAATTGGGCTAGGGATTTTGGGTATTGTCCTGGTCTTTGAGCTTAAGTATATGTTTGGGCTGTTCGGGTATTAGGCCAAATGTAATTGGGTTGGATTTGTTTTTTATATTTGGGTTAGTATAAGTTTGGTATCTATTGAAGGTTGTAAGTGGACGATTTGGGCTATTTTAATTTTGGACTCTATTTTAACTTATTTGGGTTTAAAAAAACAAAAAAAAAAAAAAAAA | |||||||||
gi|78340381|gb|DT560655.1|DT560655 EST1071295 GH_TMO Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): ATTTCCACTAACAAAAGCTCTAGACTCTTGTCTTCCCACATTTTCTCTCACCATGATTTCCTTGCACAGAAGCTGTTTTCTGAACAACACTGGCATTTCTGGGTCATCAAGCCCTTTCTCATACAAGCTGAAGAAGCTGCCACCAGCTTCTGTCAAAGTCACAGCTTTAGGCCCCAACAGGGATCGAAACAGCAGCGTTTTGATTGAAAACAACAACCCATTGAAAGAAATAAAAGAAGATGACACTTCTTCTGTTGCTGATGTGGACCCCAATCCTACTGTTACCGGCGAAGACCGCGACCTCTACTATGACGCCGCCGCCACCGACGATCAACTTGTCACCCCTTGGTCTCTCTCTGTTGCCAGTGGGTATTCGTTGTTGCGAGATCCTCACCACAACAAAGGACTCGCCTTTAATGAGAAAGAAAGAGATTCTTATTACTTGCGTGGTCTTCTTCCCCCCACAGTTATTTCCCAAGAACTTCAGGTGAAGAAAATGATGTATAGTATCCGCCAGTATCAAGTTCCTCTGCAGAAGTACATGGCCATGATGGATTTGCAGGAGTTAAATGAAAGGCTGTTCTACAAACTTCTGATCGACAATGTTGAGGAGTTACTGCCTGTTGTCTATACCCCAACTGTTGGTGAGGCTTGTCAGAAATATGGGAGCATCTTCAGGCGCCCTCAGGGTCTTTTTATCAGTTTGAAAGAAAAGGGGAAGATTCATGAAGTTCTGAGAAATTGGCCTCAGAGGGATATTCAAGTCATCGTCGTCACTGATGGGGAAAGGATTTTGGGTCTAGGGGACCTTGGCTGTCAGGAATGGGAATTCCTATAGGGAAGCTCTCTTTATATACTGCACTTGGAGGAGTTCGTCCTTCTGCTTGCTTGCCTGTAACCATTGATGTGGGTACAAACATGAGCAATTGTTGAATGATGATTTTAT | |||||||||
gi|164284790|gb|EV499254.1|EV499254 sg160E02 Cotton Lambda Zap Express Library Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): CCATGTTTGCAGGTCCATGGAGGGTCAACGGGCGATGGATTTCCACTTCCATGCAATGGCGTTGATCCTCAGGCGGAGTGCGCGCTGAGGCACATGGGCAATGGCTGCGGCGCGAGGGAAGCTCGAAAACCCTAGGGTTTCTGAGTTGGCTTAATGTTTTGGGCTTATTGGGCCAACAGAGGTTGGGTTAAGGATTTTGGGTTGTGTTTGGGCCATAGGTGAATTGGGCCTGCTTGGTTGTAGCTAGCTGGGTAGTGTAGTGGGTTTTTAATGTTGTAAATGGACTTAAGTAACTTTGAATTTTATTTTATATTTTTATTGTTTATTGGTTTAGGCTCGGGCCGGGCAAAATAGGCTCGTTACAACCCTTTTATGTAGTTGGCAATAATAACCCTATTCTTAATTAATTGACGCTTTGATATTGTAATATGAAGATAATAATAACCATTCAGATTTCGACCAAAAAAAAAAAAAAAAAA | |||||||||
gi|109841218|gb|DW239778.1|DW239778 GH_TS_02-01-10R_C09_InvR_09Feb04_075_R Stem - 3-5 weeks after planting Gossypium hirsutum cD AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): AACTCTATAAATTCTTATTGTAAACAAAGCTGAAAAGAAAACATAACAACTAGGTACAATGAGCCCCACTTATGAAACAAGGATTTTGGGTCACTCATTCCCCATCTTCTAGTACTCCATACCCATTTGTTTGTTGCAAAAGTCTTTTTTTTTCCAGCATATGATTTCTTGGCTCAATAATTTCTCCATTGCTAGCACCACAAACCAAAGGACTTCAAATGAAATTTAGAGAACAAGATGGTAAATCAAATTAAACACCCTTCACAAACAACTAAATTTCAGTCATGGGCAGTCAAGTACTTGATGAGGCTTTAGTCAAAGACTTGAACGTCACGGATGGAGCGAACATAAACGTACTAGCCTCAACTTGGAACGTGTCATAACGAAGGAAAAACTCCACCAACAACACTCTACACAGCAGCACCACCAGATTTTTCCCGGCACAAGCCTTGTTCTCCGCCGTGGAATCCTCCGTCTCACGCTCATTCGACCAATATACATACTTCAAAAGTTTCTCTCCTTCTTCCCCCACAAATCTATCAGCCACAAACTCCTCAGGGTTCACAAAAATCTTAGGATC | |||||||||
gi|84153938|gb|DN803293.1|DN803293 G.hir-8-10 DAA bolls drought stressed169 8-10 DAA cotton bolls from drought stressed plants G AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): ATTACTGCCTGTTGTCTATACCCCAACTGTTGGTGAGGCTTGTCAGAAATATGGGAGCATCTTCAGGCGCCCTCAGGGTCTTTTTATCAGTTTGAAAGAAAAGGGGAAGATTCATGAAGTTCTGAGAAATTGGCCTCAGAGGGATATTCAAGTCATCGTCGTCACTGATGGGGAAAGGATTTTGGGTCTAGGGGACCCTTGGCNTGTCAGGGAATGGGAATCCCTATAGNGGAAC | |||||||||
gi|164251429|gb|ES819186.1|ES819186 UFL_264_42 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): GGCACGAGGAGATTTCAATACATTCATTAGAGCTTGTGAGAAGTATGGACGGAATGATATAAAAAGTATTGCTTCAGAAATGGAAGGGAAAACGGATCAAGAAGTTGAAAGATATGCTAAAGTTTTTAAGGAACGCTTCAAGGAGTTAAATGATTATGATAGGATAATTAAGAACATTGAACGAGGAGAGGCTAGAATTTCCAGAAAAGATGAGATCATGAAGGCAATTGGCAAAAAATTGGATCGGTACAAGAATCCCTGGCTGGAAATGAAGATCCAGTATGGTCAGAACAAAGGGAAGCTGTACAATGAAGAATGTGATCGATTCATGGTTTGCATGGTTCACAAGCTTGGTTATGGGAACTGGGAGGAGTTGAAGGCAGCATTTCGTACATCCCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCGCGAACGACTCAAGAGCTGGCTCGGAGATGTGATACCCTCATCCGATTGGTTGAGAAGGAAAACCAAGAATGTGACGAGAGGGAGCGACAAGCCCGCAAGGAAAAGAAACTTGCCAAGAACATAACACCATCGAAGCGCGGAGGGAGGCAGCCAACTGAGAGTCCTACTCAACAAAAGAAACGCAAGCAGCTATCAATGGATGATTATGCGAATTCGGGTAAAAAGAGGAAGTGAGCGAGTAATGTGAACTACAAATTTTGGGTCTAAAATCTCTGATATTTATTTGGGTTTAAAAGCAGAAATATCAGAACGAGGAATTGGGCTGTAGTTTGCATTTGGTATTTCATGGAACTCTTGAGGTTGGGTGGGAATTAACCACCATTAATGGAAATTAGTTTAGGTTATAAAAGGTGTATAAATGAGTATAGTAAGGTTAATCACAAGGGATTTTTAAGAAACATCTATCTGTTCTTATCCATCTGGATTTGAACCATATGTATTATGCTGACCATTATTATGAAATTATATTGGAGCCGGATACAATTATGACAAAAAAAAAAAAAANAAC | |||||||||
gi|164351248|gb|ES826594.1|ES826594 UFL_413_55 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): GGCACGAGCGGCACGAGATCAAGTTCCTCTGCAGAAGTACATGGCCATGATGGATTTGCAGGAGTTAAATGAAAGGCTGTTCTACAAACTTCTGATCGACAATGTTGAGGAGTTACTGCCTGTTGTCTATACCCCAACTGTTGGTGAGGCTTGTCAGAAATATGGGAGCATCTTCAGGCGCCCTCAGGGTCTTTTTATCAGTTTGAAAGAAAAGGGGAAGATTCATGAAGTTCTGAGAAATTGGCCTCAGAGGGATATTCAAGTCATCGTCGTCACTGATGGGGAAAGGATTTTGGGTCTAGGGGACCTTGGCTGTCAGGGAATGGGAATTCCTATAGGGAAGCTCTCTTTATATACTGCACTTGGAGGAGTTCGTCCTTCTGCTTGCTTGCCTGTAACCATTGATGTGGGTACAAACAATGAGCAATTGTTGAATGATGAATTCTATATAGGGCTTAGGCGAAGGAGAGCTACTGGGCAGGAATATGCCGAACTTATGCACGAATTCATGAGTGCAGTCAAGCAGAACTATGGGGAAAAAGTTCTCATTCAGTTTGAAGATTTTGCAAACCACAATGCCTTCGATTTGCTTGCTAAATATGGCACAACTCATCTGGTTTTCAATGATGATATTCAGGGAACAGCATCTGTGGTCCTTGCAGGGCTTGTTGCTGCACTAAAAGTAGTCGGTGGAACCTTGGCTG | |||||||||
gi|164347173|gb|ES832072.1|ES832072 UFL_418_15 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): GGCACGAGGAGAACTAGTCTCGCGTTTTTTTTTTTTTTTTTTACTATCTGTTATATACACTTTTATTCCAAAATTGTGAGCATAAGAAGTGCTCAACTCAACTTTTGTCCCTCCTACCATTTGGTGAATGCTCAGTAAGTTTTCAATTGGCAGCCATAACAGACACCCTTGGGCTAGGGAGTCCCATGTATGCAAGCCTTGGTGAGACACGGATTTTGGGGCTCGGTCTTGGTGAAGGTATCGGACCACAGTTTCCGAAGCGACCATGTTCAATCCTTGGAGATAGGTTGACTTGTTCCAATGCCTGAGATTGCAGCTCTTTGGGGTAGTCTTTAACACAACCAATTCGAGGGCCAACACCACTTGACCACTTGCAAGACAAACGGTTCGCCATATTGAATGCTGGTTCTTCCACCTTGGCAGCACTGTTGCCTATGCTACTTTGTAGACTCACTGTTGCCGTTGGATCTTTGATCTCCCCATGCTTGGATTCATCAACAGCAACTTTGCATGCGGTGTAGTCATCATCTACTGCACATCTCTGCATAAGAAATGAGGAACCAATAAGCCTAAATGACTATTTAAGCTAAACACATGCAAACTTGGAGAAAATAATGTTAGATTATTACCTTTACATTGGTCAAATCTACATTCTGTTCCTCAGGAAAATAATGAATTCTTTGAAATTATCTTCAGTTGGGAGGTAATGACCACTGTAAAGCAAAATAGCTGGAAAGGAAAATAAACATTTACCATCATACATTAAATATTGA | |||||||||
gi|78351043|gb|DT571317.1|DT571317 EST1081957 GH_TMO Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGG-TTCA EST sequence (targeted fragment marked with yellow): CTGGGTTTGTCTCTCCTTTATCTCTTTCATTGCTTGCTTCGCCTTCGGCCAGTAGCCCCAATTTCTTGCTTCGCCTTTCGTGCTTAGTTTTGCTGCAAAAATGGAATACTTTTGACTTTAAATCCGTTCCTAAATAGTAGAAGGAAAATACCAGTTCAAACACTCTACTAAACTGCATCAAATTTCGGATCCTCCATTTCTTTAAAAGAATTTTCTCAGTTTCTTTTCTATTCCATTTTGATCTTATTTATTTCCCACCAATTTTTCTCACAAACTTCCGCGTTGCTGTTGCAAGCAGTACCGGAAATTCCCCTCTCTTTTTATCTTTAATCGGTTTCCACAGTTATTTTTCTTCGATTATTTGAATGAAGCTGAGGTAGCTGTTTTAGGAACAAAGGCGATTTGAAACATTTTTGAAAGAAAGGATTGATGGATAGTTATTTGAACCAGAACTTCGATTTGAAATCGAAGCATTCGTCGGATGAAGCATTGGAAAAATGGAGGACAGTTGTTGGTTTCGTGAAGAATCCGAAACGGCGGTTTCGATTCACTGCCAACCTCTCCAAACGTTATGAGGCTGCTGCTATGCGTCGCACTAATCAGGAAAAATTGAGAATTGCTGTACTGGTTTCGAAAGCTGCCTTTCAGTTTATATCAGGTGTACAACCTAGTGACTATGTTGTTCCTGAGCAAGTCATAGCTGCTGGTTTTCAACTTTGTGCTGATGAGTTAGGATCCATTGTGGAAGGCCATGATGTGAAGAAACTAAAGTTTCATGGTGGAGTAAGTGGCATTGCTGAAAAACTCTCCACATCCACCAACACTGGACTAAGTTCTGATGCTGCTTTGTTGAGTAAAAGACAAGAGATTTATGGAATCAATAAGTTTGCTGAGCCTGAAGCTAAGGATTCTGGGTCTTTGTTT | |||||||||
gi|84171644|gb|DR460292.1|DR460292 CM085C11 Cotton Lambda Zap Express Library Gossypium hirsutum cDNA, mRNA sequence AGACCCAAAATCCTTGGTTCA EST sequence (targeted fragment marked with yellow): TGAATCGCGGACAACTCAAGAGCTGCTCGGAGATGTGATACCTCATCCGATTGGTTGAGAAGGAAAACCAAGAATGTGACGAGAGGGAGCGACAAGCCCGCAAGGAAAAGAAACTTGCCAAGAACATAACACCATCGAAGCGCGGAGGGAGGCAGCCAACTGAGAGTCCTACTCAACAAAAGAAACGCAAGCAGCTATCAATGGATGATTATGCGAACTCGGGTAAAAAGAGGAAGTGAGCGAGTAATGTGAACTACAAATTTTGGGTCTAAAAGCTCTGATATTTATTTGGGTTTAAAAGCAGAAATATCAGAACGAGGAATTGGGCTGTAGTTTGCATTTGGTATTTCATGGAACTCTTGAGGTTGGGTGGGAATTAACCACCATTAATGGAAGTTAGTTTAGGTTATAAAAGGTGTATAAATGAGTATAGTAAGTTTAATCACAAGGGATTTTTAAGAACAATCTATTCTTACCCGTCTGGATTTGGAACCATATGTATTATGCTGACCATTATTACTGAAATTATATTGGAGCCGGATACGATTATGACCAAAAAAAAAAAAAAAAA | |||||||||