| mature miRNA: ATGTAATTCATTCTAGCATTT 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|193219328|gb|EY196968.1|EY196968 D01_P11_010 Cotton ovule and fiber 3-5 days post anthesis Gossypium hirsutum cDNA, mRNA sequ ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): AAGAATTCGGCACGAGCCAGGATGCTAGACAGTCCGCTTCTTCGATAAACCGCCCTTCGCTCGAAATGGAACTCATATGTGATTTAAGAGGGCATATCGAGCAACTTCACAGCGAGATTAGTGAACTAAGAAAATCAGTTATGACATGCATGGACATGCAGATGAAATGGCAACACTACTCCCTTAATCGAGAAGTTCATTCGGTTGAAGGGGAAGGGAAGAATTCAGCAGATAGGACGCCTTGGAAGCGTAGTTGTTGTATTTGCTATGAAATGCAGGTGGACTCACTTTTGTACAGATGCGGGCACATGTGCACCTGTCTGAAATGCGGGAATGAATTACAATGGAGGAGTGGAAAGTGCCCAATATGCCGAGCTCCAATACTGGATGTTGTGCCTGCCAAGTGATGACGCATCGCATCGAGTTCTTGCTCCAGAGGACCGTACGTCGTCTGCATTAATTCTTACTTAACACTAATTCAAATTAATGCAGCACATTAATTAATTACCATTTTCATTTTCTTGTAATAATTTAATTTTTGAAGTTTAATCATATATCTCAATGGTTTTGTCTTTTGTATAGNTTTTCTATGTAATCACTAGATACATGTATCATGTGTACTATATACCCTATATTTGGAATGCACATATGTCGTGTATTGGTCCTGTCTCTTGNATTCACTACTCTTTATCCAATTTCTCCCATTAATTACTTATACAACAAGTCATAATAAAAAAAAAAAAAAAA | |||||||||
gi|109864977|gb|DW493953.1|DW493953 GH_RMIRS_099_F12_F Cotton Normalized Library random primed Gossypium hirsutum cDNA, mRNA seq ATGTAATTCATTCTAG-CATTT EST sequence (targeted fragment marked with yellow): AGGGAGCCACTGGAGTAGATATTAGTTTTCATTAGATTCACTGGCTTTCTTGCCGGAAAAAAAGAAGAGAGAAATGACTAGGATGAATTACGTGAGAGAGAACGTTCCTCTCTCACGCTTCGGCGTATTGGTAGCTCAGCTTGAGTCCATCGTTGCATCCGCATCGCAGAAATCTCCCGACCCTCTCCTTTGCTTTGATCTTCTCTCCGATCTCCTCACTGCCCTCGACGATGAGCCTAAGGAATCTATCTTGTTGTGGCAAAGAAAATGTGAGGATGCCTTATATTCCTTGCTTATTCTTGGTGCTAAACGTCCTGTGCGTCACTTGGCATCGGTAGCAATGGCAAGGATAATATCTAAAGGAGATAGCATTTCAATATACTCAAGGGCCAGTAGTCTCCAAGGATTTCTTTCTGATGGGAAGCGGAGTGAGCCGCAGAGAATTGCTGGTGCTGCATAGTGTTTGGGCAAGTTATATCAGCATTTTGGAAGAAGAATAACTTCGGGTTTGCTTGAAACAACTATTATTGCTACAAAACTGATGAAATATCATGAGGAGTTTGTGAGACAAGAGGCTTTGCTCATGCTTCAGAATGCTTTGGAAGGCTGTGGTGGTAGTACTGCTGCTTCAGCATATACTGAGGCATTTCGTCTCATTACAAGATTTGGCATTGGAGACAAAGCTTTTGTTGTTAGAATAGCTGCAGCACGTTGTTTGAAGGCTATTGCCAACATAGGGGGACCTGGTCTAGGGGTTGCAGAATTTGATAGTTTAGCTACATATTGCGTCAAGGCGGGTGGGTCTCTTTNGTATC | |||||||||
gi|109870147|gb|DW499123.1|DW499123 GH_TMIRS_032_H12_F Cotton Normalized Library dT primed Gossypium hirsutum cDNA, mRNA sequenc ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): CGGACAGGAAGTACAAAGAAACTTGGAGATATGGTTGGCCAGAATTATAGGAGACCTGGAAGGGATTCTGGCCAGAGATGGCTCTTGCTCTTCTCGTATTAGGGAATACTGCGTTTCTAGATACAACGGTCATTTTGTGCAGTAGTAGAAACAAATATTGGTCTAACAAAATACCCTCTCTCTTAGTAAATATGAACTGATAATGTCATATAGTAGTAGTTCTAGTAGTTAGTTTATCCGCGAGGATGATATTGGAAGGTCAGGGTCAGCCAAAGCGGGCACGAAACAATCCATGGATTCCATTAGAAACAACTTACAGGAAGTACAAAGAAACTTGGAGATATGGTTGGCCAGAATTATAGGAGACCTGGAAGGGATTCTGGCCAGAGATGGCTCTTGCTCTTCTCGTATTAGGGAATACTGCGTTTCTAGATACAACGGTCATTTTGTGCAGTAGTAGAAACAAATATTGGTCTAACAAAATACCCTCTCTCTTAGTAAATATGAACTGATAATGCCATATAGTAGTAGTTCTAGTAGTTAGTTTATCTGCGAGGATGAATTACATTTCAATTTACAGCAGCGTATGTAATTGTAAT | |||||||||
gi|73851210|gb|DT460230.1|DT460230 GH_ON38P19.r GH_ON Gossypium hirsutum cDNA clone GH_ON38P19 3', mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GAAGGTTCACACTTTCTGTAGGCGCCTTCTTGCCATCATATCGCTGTTTACCAAAAGAGAAAGGAACATATTTGTATTTGATCATGTGCAATATTTGTCTCTTCATTGTTAGAATGAATAACATTAGCCAGTAGAAAAGGAGTATAGGCCAAAAGACAGGCACATCAAACAGACTGAAGAACGTCATCACAAAAGCAATGCAGAAGGCCTTTGTAATAGAGTACCAGAATTTGAACTCGGGGAGTCGGCGAACGAAAGGGCGAAACTCATCGGATCCGCGGGTGGGGAGCGATGGGCCATCCTGCATCTCGGGGTCCACTTGAGGAGAAAGGAACCCCATCAGGAGATTCAGCAAGTAGATGCCGAGGCCGTAGGTGATGATGTAGAAACCCTGCACAAAGTAGACGCGTACGGCGTAGATCAGCACCAGCACCAGACATGCTATCCAGCGGTGCAGAATGTGCGGGACAGTCTTGTCCAGAACATGCTGGTACCGACGCGACACCTCGAAGCTCCACCGCGATACAGCGGTTGCAGGAGACGATTGGGATAGATCGTCACCATCTAGGCCACCGCCGGTTGGTCTGGTCTCCATCGGGGGGCCTAACTAACAATAAAGAAATAAGTACAAAGCCTCTTCGTTTTCCTTTTCGCCGAAACAAGTTTGTTCCTTTCAGTTTTTTTCCCCTGAAACAATAGTGTCTCGGACGCGTGGA | |||||||||
gi|54121118|gb|CO496627.1|CO496627 G.h.fbr-sw06017 G.h.fbr-sw Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GCTTAGCGTGGTCGCGGCCGAGGTACCAACTGCAGTTCTCATTCACGTGCCTGGATGAAGAATATTATGTAGTTAGTTTATATTCAGTATGTAATTACTGTGGTTATCATTTATGTGATGAAATAACCAAAATTTGTGTGAAACAGTGAAAGTGGTGTAAGTGGAGGAAAAGGGAAAAACGAAGGAAAGCCTGAAAGGGAAGTGCTTCAATGAATTATATTTTGCTTTGTTTGCAAAAAAAAAAAAAAAAAAAAAGTACCTGCCCGGGCGGCCGCTCG | |||||||||
gi|73859009|gb|DT461748.1|DT461748 GH_CHX04A12.x GH_CHX Gossypium hirsutum cDNA clone GH_CHX04A12 5', mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): TTTTTTTTTTTTTTTTTTTTTTTTAGCAAACATTTCTATATTATATATTTTCATAAAAATGTAGCATACGCAACAAATGATATTGCTCTCACAATGATGATGGTAAAACTATGACTACATTTAACTGCCGTTAAGAAATGAAATACATTAAAAAAGAAGAAAAAAAACAACCCTCCCCTAGGTGACGACTCCCTGCTCATACATATCATAAATGAAAGAATGAATTATGTTTTGCCTGCCCAATCAAAAACAATTTCGCCACCCTACTTGGACCAAGCAACTGTATCAATTTCTGCTTGAGCACTACGGTATAATTCCAGCCTCTTTGCGAGAGCACTGCGTCGCTCCATGACTGCTGGATCCTCATTCAACAATGCCGACAATCGTTTTTGCTCCAGTTTACCCAACTCAGTGTAGAAGAAGTCAAGCAGGCTTCTTTTAGCTTCACGGACTTGACAGTAAACAATGGACTTTGGAATCGAGTGGCGCANAGTGGCGCAAACCATGTTAACATA | |||||||||
gi|164363442|gb|ES802305.1|ES802305 UFL_587_73 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): CTTGCATATAATCTCTTTCACCGAGATGCCTTTACTAGAGTTTGGTTTTATTATTTTCCTAAATTTGTAAAATTTACATCCTAATCATAATTCTTTTGGCCTAGTCAGCCCTTTCAATTTGGGATGACCTCTACTTTGGTATTTGTGATTTTAATTTCAACTCTTTCCATGCCTTGGCTGTGTACCTCACGTTAACTACTATATCCCATTTCATGTTTTAGTTAATGTTTTCTCATGCAATAACCAACAATTCAGTGTGTTTAAGTGGTCATTTGAGAATGAAAAATATGCTGTATTATAGAAAATTGAATGGGAGAATGTTATGGTGTGATACTGTGGAAGTTCTTGTTCTCACCTTGGGTTAACGCTGCTGCTGCTTGGTAAATAGCATTTTTTTTTATGGATCAGTAAAGACTAGCATGCGTTGGTTTTTACTGTAGGATGGGCCAAAGGCAGGGCAGACAGTTCCCCATGTTCACATTCATATACTTCCAAGGAAAGATGGTGACTTTGAGAGGAATGATGAAATTTATGATGAAATAGATGTGAAAGAGAACGAACTGAAGGAAAAGCTCAACTTAGATAAAGAAAGGAAGGACAGAAGCCTGGAAGAGATGTGTAAAGAAGCTGAGGAATACAGGTCTCTTTTCGTCTAGCAATCTTAAGCCTGACTGTTATGTTGCATATGTACCAACTGCAGTTTTCATTCAGGTGCCTGGATGAAGAATATTATGTAGTTAGTTTATATTCAGTATGTAATTACTTTGGTCATCATTTATGTGATGAAATAACCGAACATTGTGTGAAACAGTGAAAGTGGTGTAAGTGGAGGAAAAAGGAAAACAAAGGAAAGCCTGAAAGGGAAGTGCTTCAATGAATTATATTTTGCTTTGTTGGCAAAAAAAAAAAAAAAAAAAA | |||||||||
gi|164335721|gb|ES847533.1|ES847533 UFL_145_23 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GGCTCTTGCTCTTCTCTTATTAGGGAATACTGCGTTTCTAGATACAACAGTCATTTTGTGCAGTAGTAGAAACAAATATTGGTCTAACAAAATACCCTCTCTCTTAGTAAATATGAACTGATAATGTCATATAGTAGTAGTTCTAGTAGTTAGTTTATCTGCGAGGATGAATTACATTTCAATTTACAGCAGCGTATGTAATTGTAATATTCCTTTTCGTCTCCAGCAGGGCAGCCTTAGAAGTCCAATACTCCTTTTAGCTAGCAAAAAAAAAAAAAAAAAAACTCGAGCTCGTGCCGAATTCGGCACGAGTCTAGATGATCTAAAGATGGAACTGCAGGCTAGGAAACAACGGGAGGCAGCTCTTGAAGCTACACTAGCTGAGAGGGAATTCATAGAAGATGAATACAGGAAAAAGATTGAAGAAGCAAAGAAAAAGGAGGAATCTCTAGAGAACGACTTAGCTAACATGTGGGTGCTTGTTGCTAAGTTGAAGAAAGAGGTATCTGCTACACTTGAGAGTAATACAGATAAGCAAAATAGTCATGGAATGGATAATGTTGAAGATCCAAAAGCAAACAACACTGAGAGTAACAATGTCCTGAAAGAGCGACAAGTTTCAGAAGTGTCATCAAAACCAGCCAATGAAATACCCAAGGAAGAACCCCTGGTTGTTCGGCTAAAGGCCCGAATGCAAGAAATGAAGGAAAAAGAGCTCCAATCCCTGGGAAATGGAGATGCCAATTCCCATATGTGGAAAGGATGCTTCAAGTCACAAACTGCAGCATTTCTTCTCCCTTGCCGGCATTTCAATTTATGTAAATTCTGCTCGTTTGCTTGTTCCCAAGGGGCCAATTTGTCCCACTAAAAATTCAAAAAGGCTTTTTTGGCTTTCCCTTT | |||||||||
gi|164295713|gb|ES840896.1|ES840896 UFL_071_19 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GGCACGAGCCCTGCCAAGATGTCAATGGAGTTCTATTCGTTCGGGCCATATAAGATAGACCCCACGGAAGTCTTCTACACCACCCCCCTTTCCTATGCCATGGTCAACCTCCGTCCTGTTGTTCCTGGTCATGTACTTGTCTGCCCAAGGCGTGAAGTTAAGCGGTTTGCTGATCTCACTGTTGAAGAGACCCAAGATTTATGGCTAACAGCTCAGAAGATTGGTGGAAGACTTGAGTGCTTCCATAAGGCGTCATCACTCACTTTTACCATCCAAGATGGGCCAAAGGCAGGGCAGACAGTTCCCCATGTTCACATTCATATACTTCCAAGGAAAGATGGTGACTTTGAGAGGAATGATGAAATTTATGATGAAATAGATGTGAAAGAGAACGAACTGAAGGAAAAGCTCAACTTAGATAAAGAAAGGAAGGACAGAAGCCGGGAAGAGATGTGTAAAGAAGCTGAGGAATACAGGTCTCTCTTCATCTTGCAATCTTAAGTCTTGACTGTTGCGTTGCATATGTACCAACTGCAGTTTTCATTCACGTGCCTGGATGAAGAATATTATGTAGTTAGTTTATATTCAGTATGTAATTACTGTGGTTATCATTTATGTGATGAAATAACCAAAATTTGTGTGAAACAGTGAAAGTGGTGTAAGTGGAGGAAAAGGGAAAAACGAAGGAAAGCCTGAAAAGGAAAGTGCTTCAATGAATTATATTTTGCTTTGTTTGCATGGAAAAAAAAAAAAAAAAAAAAAAAAA | |||||||||
gi|164337074|gb|EX172389.1|EX172389 F03_L1840A-5-3_028 Cotton 1-14 day post anthesis Lambda Zap Express Library Gossypium hirsut ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GNGNNNGGNGGGNNGGNNNNGNNNNGNGGGGGNNNNNNNGGGGGGGNNNNNGGGNNNNNGGGAACNGGGGGAANNNNNNGGTTTCNTCCAAAAGGGGGAGNAGCTCTACATTTTTNCCCAANAGGGGNNACGGNCGGGAAACTAGCTCTACATCGTATCTCAACTACGGTCGGGAAACTAGCTCTACATCGCATCNCAACAACCTATTCCCCGTCTTGTGCATCCCGTTCCGTTCCGNTTTCGTTTTTTACCCGTTCTGTCTCTGCTACTCCACAACGGTNGGGAAACCAGCTCTACATCGCATCTCCACTACGGTCGGGAAACTAGCTCTACATCGCATGTCCACAGTCCTACGGNCGGGAAACNAGCTCTACATCGAATCTCAACTACGGGCGGGAAACTAGCTCTACATCGCATCTCAACAACCTATTCCCCGTCTTGNGCATCCCGTTCCGTTCCGNTTTCGNTTTTNACCCGNNCNGTCTCTGCTACTCCACAANGGNANTGAATCTGGAACGNATCTTATCTAGAATTCATNAACAACTATGTGAATATGGAAAATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTACGTTTCAAAGACACCTATATTTTAAAATGTCAGCTTGGTAATTAATGAAAGNGCCATTTTTTATTAACAAAATCTTGGGAAATACAATTATTAACCTTCAACGGTTAGGGGCAGACNAANGGNTTTTAACCTCAAGGGACTAAAATACATATAAAAAAAAGGAATNTTTGGGGAGTACTTACTCTATTTCAAAANAAGCCAAACCCCGTACTCACATCCTAGAAAAAGGGTGGNATANTTTAGGAGGAGGGAGGGNNNNAANACAAANCNNCNANNANAAAAANNAAGAANCGNANCNNNANCNCACNACCCCCCCNNAGGCCNGCNGCNCCNANANGGNCGNGNNNCANAGGNNANNCCANGGAANAANCGGGCCCNCAAAGNCG | |||||||||
gi|32452594|gb|CD777483.1|CD777483 pVNC311 pVNC Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GCGGTCCTACTCGTTATCAATGGGATCTTACGTTATCAACAATGTAAAGGTTTGACCTTTAAACAATCTTAAATATTTTTCATACACAGGCAAATTGTTTCAACTATTATTAACAGGATTTTGTGAAATAATCTAATAGTAACTTTCTTCTTTTTTTCCGTTCGGCAGTATCTGTTAGAATGAATTACATTGGGTGACACCAACTTTCTTTTTATATGTTAAGCAGCTTAATAAGATTTCTATCCATCCGCTTACACTTTCATTGGATGCATCGTTTGCTAACTATTAATAGTATTTGTTAATGCTTGATGCAGGAAGCACCTTGTGGGGACTTTGCTACTCACTTTTTCTGCCATCTTTGTGCCATTTGTCAAGAGTACAGGGAGATTCGTGAAAGGGCAGAGGACCCTAAACCCCCTGATCCCTCGAGGTCGACGAATTCGAGCTCGGCCGACTTGG | |||||||||
gi|164337387|gb|EX172412.1|EX172412 H03_L1985D-5-4_029 Cotton 1-14 day post anthesis Lambda Zap Express Library Gossypium hirsut ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): CTTTCTCCCTGCTATGTCCTAGGAGGGTGTTGCACGACTGTTTTCATGGGAGAAACGACAACGACAGGGGCGGGTAGATTATTCATGTATGTTGATCCACCTTAGGTTCATGAGCTGCCTTCCAAATGCCTCAGTTTCATCTCTCCCAGGCTATTTGGAGCATTGGGATTTCACAGACTAGTATTTAGATAAAACAGTTCAACTCCCACCATACGGTTCTTGCAAATTGTACGACTATAGAGACGGACGGCCAAGTTTTCGACCTTTTGTTGCATCTTTGATGTAAATCCTGAGAGGCCAATTTGGTGGCTCACTGGCGTCCCTTGAAATATAAAAAAGTTAGGGGATTTTTCTTGAGATCGAACTAGTTCTTCGTAAAATCGCACCAAACTTCTTATACTTCCTCCGTTTCACAATGTAATTCATTCTAGCATTTCCCACATTCATATAGTTGTTAATGAATCTGGACGTATTTATCTAGATTCATTAACAACTATGTGAATATGGAAAATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTACGTTTCAAAGACACCTATATTTTAAAATGTCAGCTTGGTAATTAATGAAAGTGCCATTTTTTATTAACAAAATCTTGCGAAATACAATTATTACCTTCAACGTTAGGGGCAGACTAANGGCTTTACCTCAAGGACTAAAATACATATAAAAAAAGGAATATTTGGGAGTACTTACTCTATTCCAAAATAAGCCAACCCCGTACTCACATCCTAGTACAAGGTTGGTATATTTTAGGACGGAGGANNTNNNNNNCCCCCCCCCCCCCCCCCCCCAAACA | |||||||||
gi|164313167|gb|ES837266.1|ES837266 UFL_030_27 Cotton fiber 0-10 day post anthesis Gossypium hirsutum cDNA, mRNA sequence ATGTAATTCATTCTAGCATTT EST sequence (targeted fragment marked with yellow): GGCACGAGCTGACTTCTCGAAACCTGGCATGAGAAGGGTTGCTGTTTTCTTTGCTGTGTCAAAAATCACAGATGAAACCTTCTGGCTTGCTGGCAAAGAAAGAAGACCCCTTGCACCCTCCACGCTATTGTTCATCATGATGGCATTCCAATCTTGAGGGGAATCCACTGCAAGATTCGGAATACAAGCAAAAGGCAAGGGATACAAATTCTTCTTCAGATTTTCCACTGATTCAACATCCAAATGATGGGTAGGAATGGCAAATGCACCACCCACCTGTGTATCAGCTTGGATTGCACAACCCCAGAAACGTAATGCTGAACTGATTGATATTGAAATGTTTGGATTCATCACAAGAAAGCACCCAAATTGATAAGATCCTGAAGATCCTCTCTGCACAACTTACAGCCTTTCAATCTCCTATATCAAAAAATTGGTGAATGATAAAATGAAATACATTCCGTGGTTACCTCAAGAATTCGTTCTAGACTGTCCCATATTTCAGCACTGATTGTTCCAGTGAGTTGGGATGGGTTACCACTTATGCCCATAGCTTCATCTACGAGTCTCAGGAATGAAAGGACCAACCCATCTTCCCAGGTCAATTTTTCTCACCCATGGTTCCCAAGGACTTTCAAAGAAAAGTCTGTGCAAATTTAAAAGGGGGTTGGGTACATTACTTTCTTTTTTAGAAAAAAAAAAAAAAAATGGTTTTTGCCAATTTCCCAACCCTTGCTTTACTGGCTTGGACCCTAATAATTTTTTTAGGTTTTTCTCCGGGGGCTTGAAACACACTCCAAAAAAAAAAAAA | |||||||||