| mature miRNA: CTTGGATTGAAGAGAGCTCCC 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|51495527|gb|CV032702.1|CV032702 RTNACL1_17_G07.g1_A029 Roots plus added NaCl Pinus taeda cDNA clone RTNACL1_17_G07_A029 5', m CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): AGTCGGCGCGAAGCATCACAAGACGAGATATTGGGCGAGACCCTGCAACAGATGACAACGAGTTGGATTGCTTGTCAAGAACAAGCAAACTTTGTATTGTTTATTATCATATATCATCTTAACTTCTGATTTGCTAGTTTGTTAAAATTTGTTTTTGCAGGGAGCAGGTTTCAAAATTCTTTTTCATTGCCTTAGAATGTTATAGCATAGTCCTCTCCTATAGGTTCTGTCCCGCTATATGTTTTTGTTTCAGGATTTTGTAACGTCAAGACTAACTCTGTTGGTATTTGTTTCTTTATTGTTTTTTCTTGTGTTTGCCTTCATAGATGTTTTAGCTCTTAATTATTATAGTTTGTGGGAGGAATGACGGTATTTCTATGGAATCAGTAATTTCTATTTTTGGTATTTTAGTTATCAGTTTTGAAAGTTTATCAATACTGGTAGGTTTTGGTGTAATAGTAAATTTTTTCGTGGTATGAGAGCCTGGACCCAGGTTCAAGTTGGATTGCCATAACTGAGTTTGACTGGATATACTTCTATAGAATCCTTAACTTTCAGCATAAAATTCCTAATTACAGTTTTAGAAAGTTCACCAAGATCCTAGTTACACGTTTAGAAAGTTTACCAACACCTGCTAGATTTTACGTTGATGTTACGTTAGATTTCTAATATAAAAGGGAGGAGGTTACGGGGAGCTTTCTTCAGTCCAACGAAAGGCCGTATAGGGATGATTCAACTGCTGGTTCATGGACTCTACTATCTT | |||||||||
gi|67189868|gb|DR078315.1|DR078315 RTFEPL1_3_G01.b1_A029 Roots plus added iron Pinus taeda cDNA clone RTFEPL1_3_G01_A029 3', mRN CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): CAACAATTCACTATTCACTATTGTCGAAATTAAATATACAATCAAATATTATACAAAATTGACAGGATAAAAGCCTGTTAATCACGCTATTCATGATGGATGTTCATATATGTATTTCACAATATAGATAGATCGATCATGAAATGTATATATACATCAATTTGACGTTATATCTACGCTGTCAGATGTATATGAACAGGAATCTAACTAATGGTATATGTACACAACCAAACGCCTACGCAACTCTCCAACCGCGTATTGCATTAATATTCTGTAACTACTCTGTGCTTATTGCCCGCCATGAATAGCTATCAGTGTATATAATAAAAGTACAACAGCAGGGTCCGCCATGTACAATGCTATATAAGAGTTAGATACTTGTAGGTAAATGAACCAGTAGCCGGGAGTTTCGAACGATCTGGACAAATAAATCACACTTCATAGTTAGGAAAGTACAATGGAAAATTTTCAATGTCATGAATTCTAAGAGAAAAACAATTTACTAATTTCAATATAGAGTCAGTAGGAATGATCCAAACACATGAGAGATTGAACATAAGCAGAATCTGTTAAGCTGAAATGTGAAAAGTATCATATAAAAAAACATAATGTTAACCCGGCTAAACAAAAGGAAACAGCAAAACCTAATTTCAGAAAAATGTATGCTACATAAGGGAGCTCCCTTCAATCCAAGGAAAAGACATTTCCTGGACAAAATCAGCTCCCGCATCATTCACACATCAACCCATTTGTTTCGTTTGTGGGTAAAAAGTGAGTTTGTGAAT | |||||||||
gi|34349962|gb|CF391545.1|CF391545 RTDR3_9_E04.g1_A022 Loblolly pine roots recovering from drought DR3 Pinus taeda cDNA clone RT CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): TCTGCCGTTTTCAAGCCACTCGAGCTTTCTTTCAAGCTTCTGCTCGATGGGCGCGCTGGACTATGTATCGAGCTTCTGCGGGGATCGTACTAGACACGTCAAGCAATTACAGTTGCAGACTGTGGTGTTGAGGGTCCGCAATATAGATTGTGACGGCTGTGAGGAGAAAGTGAGGAGGTCAGTCTCGTCCATGAAAGGCGTGCAATCGGTGGATGTGGACAGAAAGGAGCAAAAGTTAACCGTAACTGGATACGTGGAGGTATACAAAGTGCTGCGGAGGGTGAAGCGCACCGGCAAGCCCACAGAGATTTGGCCTTATGTACCTGCCGAAGTGGCATACCATCCCTACGCTGCTGGGGCTTACGACAGCAAGGCTCCTCGCGGCTACGTTCGGGACGTGGACCCGGGTTACATGACGAACCCTAATCGCACAGACGAGCAGTACACTTGCATGTTCAGTGAAGACAATACAAAGGGCTGCACCATCATGTAGATGTACAGTCAAAACTATTTATTGGGGCTGCGGTAGTGGAAGAGGCTCCCAGCTTTTCCTCAACGCCCTCCGTTCTCGGTGACTGGCGGTGTAGGTCAGCTTCTCCATTTTTATGATTATATTTCTGTGACTGGAGTTCTTTTCGATCCAATGGGCTGTTCGTGAA | |||||||||
gi|34356912|gb|CF398495.1|CF398495 RTDS3_15_D09.b1_A022 Drought-stressed loblolly pine roots DS3 Pinus taeda cDNA clone RTDS3_15 CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): GAAGCAAACAGTTTTATAACTGAAGTATCTACTCTTTTTATTGATAGCGTTTTTTTCCTCACAAAAAAAAAGTGAATAGCTTGCGCCATATGAATAACTCAGACTACATTGTTCATAGGATCATATGAGCTTTCATTTTCAGAGACTAAAGTCGGACGCACCGGTGAAGAAGTCGTAACGCCCATCGCTTCTTGTAGAGTTCTCTCTGACACTTCGGCGCGTGGAAGAATCTCTGGAATTGAATCTGTGCTCTCGATTACCGCGTGGATCCCGTTGTTTGATTCGTTGACCTGAGAAATTGCAGCTGCACATTCTGGCTTCTTGTTTCGATTAAGGAGATTCAGAGAATGTCTACACATTGGGCATGAAGAACGCGAGGTGAGCCACTTATCAATGCATTCCATGTGGAAAGCATGATTACATTTGGGCAACACCCGCACCTTTTCTCCTTCCCCAAATTCGGCCAAGCAGATGGGGCAATCAGTGCCCAAGCCCGGTGGAAGCTTAGAGGGAGATGTGTAAACAACAATAGGCAATGCTTTCATGGCCGCTTTCTTCAATCCAATGTCGGCGAACTGGATAACGACGGCATCGGATGGGTTGCCCGCCATTCGTCTGCTGTAGCAACGTACGCATTTG | |||||||||
gi|48937172|gb|CO166631.1|CO166631 FLD1_63_H07.b1_A029 Root flooded Pinus taeda cDNA clone FLD1_63_H07_A029 3', mRNA sequence CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): TGTTGGAGCTCCCTTCAGTCCAACCAAAGCTTGTGCAGCGGTGGTTCAGCTGCTGATTCATGCATTCTACTTCCCTGTCCGTGACTCTCCAGCAGCCTGAACAAATCAATCAATCGACCTGCATGACAGGATAGTGGTGTGCATGACGCAGGAGATGTACTGTCACTAAACACGCATTTCTTGGATTGAAGGGAGCTCCACTTATCCTCATCATCTCTTTCTGCAACTTGTTTATGGAATTTGTTTTGTTTTTAACCTATTTCATCTCTAACAATTTTCTCTTCTCTATTTGTTTTGGGCTTGCTAACAACTGTTATGTGCCCTAAGCCCTGCATGTCAGTGTTCCAATTTTTATTATAGCTGAATCTTTGTTCGAGTCAAATAAGACTTAGGTTTAACTTGATTGATCTGCATCGCTATAGTTTCAGGTTTTGTATATTCTGGTTGTTCACTATGATCTAGTTAGAGTTCGATCGAAAAGAATGGCAAATCTAATGATTATTTGTTGAGTGGCTGATTGTGGTACGTTTCGTTCTGTGCAAGAGTTTGGCCGGTCGCTTTTACATGGTTATGAATTATATTGTTATTTCATTTTAATTCCGATCTGTCGCTGAACGATTGATCTATAGTTGATTGTAACCAGGTTATGTATGAACTGGCCAGAGTGATTGAAAAAGTTTCATTTGTTACAAATAAAATACGATACCAATAATTAATGCTTCAGTGATATGAAATGGTTTGATCCATCTTATTGATTTTTTTTTGCAAAGTTTTATTCTATTACAGAAATAGAATTGTGATT | |||||||||
gi|30357247|gb|CD018597.1|CD018597 NXLV_039_B10_F NXLV (Nsf Xylem Late wood Vertical) Pinus taeda cDNA clone NXLV_039_B10 5', mR CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): CGGCCATTATGGCCGGGGGCTCTATTCAATTCAATAACAATAAGAGGAAGTTGGGTATTGTTTTATCAGAGTCCCATTTACTGTTTTAGGGGCTTTANNTAAAGTAGTTTGCAAGCTATATATTATTACCTCAGGGTCTCTGGGAGTGTTCAGTATCTGAATAAGTGNNNTAGTTGC | |||||||||
gi|34345441|gb|CF387024.1|CF387024 RTDR1_10_B09.b1_A015 Loblolly pine roots recovering from drought DR1 Pinus taeda cDNA clone R CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): GCTTTCTTTCAAGCTTCTGCTCGATGGGCGCGCTGGACTATGTATCGAGCTTCTGCGGGGATCGTACTAGACACGTCAAGCAATTACAGCTGCAGACTGTGGTGTTGAGGGTCCGCAATATAGATTGTGACGGCTGTGAGGAGAAAGTGAGGAGGTCAGTCTCGTCCATGAAAGGCGTGCAATCGGTGGATGTGGACAGAAAGGAGCAAAAGTTAACCGTAACTGGATACGTGGAGGTATACAAAGTGCTGCGGAGGGTGAAGCGCACCGGCAAGCCCACAGAGATTTGGCCTTATGTACCTGCCGAAGTGGCATACCATCCCTACGCTGCTGGGGCTTACGATAGCAAGGCTCCTCGCGGCTACGTTCGGGACGTGGACCCGGGTTACATGACGAACCCTAATCGCACAGACGAGCAGTACACTTGCATGTTCAGTGAAGACAATACAAAGGGCTGCACCATCATGTAGATGTACAGTCAAAACTATTTATTGGGGCTGCGGTAGTGGAAGAGGCTCCCAGCTTTTTCTCAACGCCCTCCGTTCTCGGTGACTGGCGGTGTAGGTCGGCTTCTCCATTTTTATAATTATATTTCTGTGACTGGAGTTCTTTTCGATCCAATGGGCTGTTCGTGAACAAGGGTTCCGCCATGCAAAAATTATCAAATGAGAAGAGAGGCCATAAGCTAAACAACGCGAACAAATAGTGATCGTGTTGAGCTTCCTTGCCCTATTCCTTTATCTGTCATGTCAGCATCCATACATTTTGT | |||||||||
gi|57881766|gb|CX646937.1|CX646937 COLD1_12_A09.g1_A029 Root cold Pinus taeda cDNA clone COLD1_12_A09_A029 5', mRNA sequence CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): TCGAGCTTTCTTTCAGCTTCTGCTCGATGGGTGCGCTGGACTATGTATCGAGCTTCTGCGGGGATCGTACTAGACACGTCAAGCAATTACAGTTGCAGACTGTGGTGTTGAGGGTCCGCAATATAGATTGTGACGGCTGTGAGGAGAAAGTGAGGAGGTCAGTCTCGTCCATGAAAGGCGTGCAATCGGTGGATGTGGACAGAAAGGAGCAAAAGTTAACCGTAACTGGATACGTGGAGGTATACAAAGTGCTGCGGAGGGTGAAGCGCACCGGCAAGCCCACAGAGATTTGGCCTTATGTACCTGCCGAAGTGGCATACCATCCCTACGCTGCTGGGGCTTACGACAGCAAGGCTCCTCGCGGCTACGTTCGGGACGTGGACCCGGGTTACATGACGAACCCTAATCGCACAGACGAGCAGTACACTTGCATGTTCAGTGAAGACAATACAAAGGGCTGCACCATCATGTAGATGTACAGTCAAAACTATTTATTGGGGCTGCGGTAGTGGAAGAGGCTCCCAGCTTTTTCTCAACGCCCTCCGTTCTCGGTGACTGGCGGTGTAGGTCGGCTTCTCCATTTTTATAATTATATTTCTGTGACTGGAGTTCTTTTCGATCCAATGGGTTGTTCGTGAACAAGGGTTCCGCCATGCAAAAATTATCAAATGAGAAGAGAGGCCATAAGCTAAACAACGCGAACAAATAGTGATCGTGTTGAGCTTCCTTGCCCTATTCCTTTATCTGTCATGTCATCATCCATACATTTTGTAATATGACCCTTAGCGTTCTGTCAAAAAAGACGCGTATTCTCATGAATAACCGTGTAAAGTATAATGATTTTTGCCATCATATATGTACCCA | |||||||||
gi|51495441|gb|CV032616.1|CV032616 RTNACL1_17_G07.b1_A029 Roots plus added NaCl Pinus taeda cDNA clone RTNACL1_17_G07_A029 3', m CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): ACCGTGGAAAAAAAGAATTTATAAGCATAAGCTATTGCAATATAGGACAAGCTCTATTGCGTTTAATAGCAATTTTTTGTACTACAGCATTGGATTCATGACACAATTTGCCTCGCCTCGAATCACATAAAAGCAGTACGTCCTTAATAATTTGTCTTATCTCTAATGGGCATCGATGACTGGCCATTCGTGATCATGTCCATTCCGGCACATGCACAGCATGAATTTGTTGGAATGTTTGTAGAATTTTGGATACCTGCCAAGACTAACAACGTATCAGTTTAATACAGCAATTTCGGCGAATCACTTTGCTTGTTAAGCGACCAACGCGAACTTGCTAGCTCAGCCTGTAAAGTCGTTAATATAAGGTAGTGTAATAAATATTACGAGGAAACAACAATCTTAAAAAGCGATTGATACAATTCTTTTAATGTGTTATTCACGGTTGACAAGCATGCAGATTTATAACTATTCATAGCAGAAATGACATGATTAAATGTGTTTGCACAGAAGAACTAACATGAATTATTCAATTTACCATAACAAAATATAATTTCACGAATTGTAAAGAGGCAGTAGACTTTCTGGGAGCTCTCTTCAATCCAAGTAAAAACAGCGTAGTGGCAATACGACTCCCGTGTCATGCACACCATTATCTTGCCGCCAATACTGAACCTCGAGGATTACAAGATAGTAGAGTCCATGAACCAGCAGTTGAATCATCCCTATACGGCCTTTCGTTGGACTGAAGAAAGCTCCCCGTAACCTCCTCCCTTTTATATTAGAAATCTAACGTAACATCAACG | |||||||||
gi|34350782|gb|CF392365.1|CF392365 RTDR3_7_C12.g1_A022 Loblolly pine roots recovering from drought DR3 Pinus taeda cDNA clone RT CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): AAGCACCTCGAGCTTTCTTTCTNGCTTCTGCTCGATGGGCGCGCTGGACTATGTATCGAGCTTCTGCGGGGATCGTACTAGACACGTCAAGCAATTACAGTTGCAGACTGTGGTGTTGAGGGTCCGCAATATAGATTGTGACGGCTGTGAGGAGAAAGTGAGGAGGTCAGTCTCGTCCATGAAAGGCGTGCAATCGGTGGATGTGGACAGAAAGGAGCAAAAGTTAACCGTAACTGGATACGTGGAGGTATACAAAGTGCTGCGGAGGGTGAAGCGCACCGGCAAGCCCACAGAGATTTGGCCTTATGTACCTGCCGAAGTGGCATACCATCCCTACGCTGCTGGGGCTTACGACAGCAAGGCTCCTCGCGGCTACGTTCGGGACGTGGACCCGGGTTACATGACGAACCCTAATCGCACAGACGAGCAGTACACTTGCATGTTCAGTGAAGACAATACAAAGGGCTGCACCATCATGTAGATGTACAGTCAAAACTATTTATTGGGGCTGCGGTAGTGGAAGAGGCTCCCAGCTTTTCCTCAACGCCCTCCGTTCTCGGTGACTGGCGGAGTAGGTCAGCTTCTCCATTTTTATGATTATATTTCTGTGACTGGAGTTCTTTTCGATCCAATGGGCT | |||||||||
gi|48932495|gb|CO161954.1|CO161954 FLD1_32_F02.b1_A029 Root flooded Pinus taeda cDNA clone FLD1_32_F02_A029 3', mRNA sequence CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): TTCTTTTGACTCGAACAAGATTCAGCTATAATAAAAATTGGAACACTGACATGCAGGGCTTAGGGCACATAACAGTTGTTAGCAAGCCCAAAACAAATAGAGAAGAGAAAATTGTTAGAGATGAAATAGGTTAAAAGCAAAACAAATTCCATAAACAAGTTGCAGAAAGAGATGATGAGGATAAGTGGAGCTCCCTTCAATCCAAGAAATGCGTGTTTAGTGACAGTACATCTCCTGCGTCATGCACACCACTATCCTGTCATGCAGGTCGATTGATTGATTTGTTCAGGCTGCTGGAGAGTCACGGACAGGGAAGTAGAATGCATGAATCAGCAGCTGAACCACCGCTGCACAAGCTTTGGTTGGACTGAAGGGAGCTCCAACACATCCAAACCTTATTCTTTCTCCAAAAACTATTCA | |||||||||
gi|74163747|gb|DT633678.1|DT633678 EST1148609 Normalized pine embryo library, Lib_D Pinus taeda cDNA clone PIMFX52 3' end, mRNA CTTGGATTGAAGAGAGCTCCC EST sequence (targeted fragment marked with yellow): CGGCCGGGGGGCTCTATTCAATTCAATAGCAATAAGAGGAAGTTGGGTATTGTTTTATCAGAGTCCCATTTACTGTTTTAGGGGCTTTAGGTAAAGTAGTTTGCAAGCTATATATTATTACCTCAGGGTCTCTGGGAGTGTTCAGTATCTGAATAAGTGCTATAGTTGCAGAAATTGGGCTGTTCTTTAATGCCTGCAGAGTTATTTGTGAGCGAATTCTTAATTTGGATGCAGTTTTCTGAATGCCCACATTAGATTTTATCACTGAATCCAATGTGGGCACTCGCAGAAATTTTACTTAAATCACTGCACGGTTGATCAGAGTTTTTGCGGTAGGCTGCGGCAGTGTATGCTGCTATCGTTTTTGTGGGGCGGGCGTCTGCAAGGCGGAGAACTTTTATTTCTATCTAGTCCTTACTTTGGTTTCAGATCAGGGAAATTCAGAGAATTTTCTGCATTTTTTTTTCTTGTGGGTACATCTGTACATATAAACAAGATGCTGCTTGGAAAGCGAGCGAGGCCTACAATGAGAAGAACTACAAGCATGTCATCGCTTGGTTCAGATTCTTGTCTTGAGCTGAATCCCAAAGAGAAGCAGAGACCATCTCAGGATTGCTCCTCAATAAAGGGCATGACCCTAGGAGAGACTGCACAAGGGCAAGCTGTGGCAATGGGTGTACCAATCAAAAAGGGCATTTGGTGGCCATTGAACGGCTTTGCTTTTCCTAGGCCTAATAGAAGAAAGAATTCAGAGCCTGCCCACTTCCTGCATGCGTGTTTTCTCTGCAAACGCCGGCTGGTCCCAGGCAGGACATCTACATGTACAG | |||||||||