| mature miRNA: TCGGACCAGGCTTCATTCCC 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|48936389|gb|CO165848.1|CO165848 FLD1_57_B08.g1_A029 Root flooded Pinus taeda cDNA clone FLD1_57_B08_A029 5', mRNA sequence TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): GCCCAAGCAAATCAAAGTCTGGTTTCAAAACCGCAGGTGTAGGGAGAAGCAGCGCAAGGAAGCTTCTCGTCTCCAGGCTGTGAACAGAAAGCTTTCTGCCATGAACAAGCTGTTAATGGAGGAGAATGACCGCTTGCAGAAACAAGTCTCGCAGTTGGTCTACGAGAATGGATATTTCAGGCAGCAGGTTGCAGAATGCCTCCATAGCAACTACAGACACTAGCTGTGAGTCTGTGGTTACAAGTGTTAAACATCAACAGCAAAATCACCTGACGCCCCGGGATCTCCCCAGGGATGCTAGCCCTGCTGGACTCCTTTCTATTGCAGAGGAGACTTTAACAGAGTTTCTTTCAAAGGCTAAAGGAAATGCTGTTGAGTGGATCCAGATGCCTGGGATGAAGCCTGGTCCGGATGCTATTGGAATTGTCACTATTTCACATGGGTGTACTGGAGTAGCTGCACGAGCTTGTTCTCTTGTTGGTATAGACCCTACAAAGGTTGCAGAGATTCTCAAAGATCGCACATCTTGGCTTCGGGATTGCCGAAGTGTGGATGTTCTTACTGCTTTCTCAACTGGAAATGGAGGAACAATTGAGCTTTTATACATGCAGATGTATGCGCCAACTACTTTAGCTTCCGCCCGAGATTTCTGGACTCTTAGATACACTTCTGTATTGGAAGATGGTAGTCTTGTGGTTTGCGAGAGATCCTTGAGTGGAACTCAGGGAGGTCCCAGCATGCCCGCGGTGCAGCAGTTTGTTAGAGCAGATATGCAACCCAGTGGATATTTGATTCGGCCATGTGAAGGTGGAGGATCTCTAATTCATATTGTTGACCATATGGATTTGGAGCCATGGAGTGTTCCTGAAGTGCTACGTCCTCTGTATGAATCATC | |||||||||
gi|21825243|gb|BQ699927.1|BQ699927 NXRV131_E07_F NXRV (Nsf Xylem Root wood Vertical) Pinus taeda cDNA clone NXRV131_E07 5' simil TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): GAATGCATCTGTGGCTGCCACAGACACAAGCTGTGAGTCTGTGGTAACTAGTGGTCAGCACCAACATAATCCAACACCTCAGCATCCCCCAAGAGATGCTAGCCCCGCTGGACTCCTGTCTATAGCAGAGGAGACCTTGACAGAGTTCCTTTCAAAGGCTAAAGGAGCTGCTGTCGATTGGGTCCAGATGCCTGGGATGAAGCCTGGTCCGGATTCGATTGGTATTGTAGCTATTTCGAATACTTGTAATGGAGTAGCTGCACGTGCTTGCGGTCTTGTAGGATTAGATCCTACAAAGGTTGCAGAGATTCTTAAAGATCGCCCATCTTGGCTTCGTGATTGTCGTTGCCTTGATGTCTTGACTGCGTTTCCTACTGGAAATGGTGGAACAATCGAGCTTTTATACATGCAGACATATGCGGCCACTACTTTAGCTTCTGCTAGAGACTTCTGGACTCTGAGATACACAACAGTGTTGGAAGNNGGCAGTCTTGTGGGTTNNGAAAGGTCCTTGAGTGGTACTCNNNGTGGTCNANNNATACCGCCAGTGCAG | |||||||||
gi|68086204|gb|DR179644.1|DR179644 RTMNUT1_23_A03.g2_A029 Roots minus micronutrients Pinus taeda cDNA clone RTMNUT1_23_A03_A029 TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): TGTCGGCCTCAATGAAAGCCTACCTAGCCGAAAAATACATGTCCGGCCCCAAAGCGGACGCGATCCTCGCTCGCACGACAGCAAAGAAGAAAAAGCGAAAGGCTGCTACTTCCAGCTCTAATCCCATTGCATCTGGTTCTGGGGCTGGGCCTTCTGGGTTCATCGTGGATGATGACGCTTCGTGGGTCCCACCTCCAAAGGATGAAGATGAGGACGATCTTGATGACGCTCTGGTGGTTAAAGACCGGAGCTTCAAGCGACGGAAGGTCGATGACCCCCCACCACCGTCATCAACTGGCCAAAGCGGGACCACGAAATCTGGCGATGGGTGGACGACGATCCAAGAAGGCGTAGCTGGTGACCAAGAGGATGGCACCCCTCCTCCCACCGCCGACGAATTACCCCAAATCGCAGGCGTCGTAGAAGACGCTCCGCCGTCCGGGATCTCGGGTGGTCTCCTGACAAAGGCCCAACTTCGAAAGAAGCTTGGTCCGAAATCCACGAAAGGGGGGAAATCTTCGGAAGACGCGGAAGAGCTCGCGCGTCAGCAGGAGACGGTGTATCGAGACGCGTCTGGCCGAAAGATTGACATGAAGGCTGAAATGGCGGAGGCGG | |||||||||
gi|58027233|gb|CX713974.1|CX713974 RTPQ1_15_G12.g1_A032 Roots treated with paraquat Pinus taeda cDNA clone RTPQ1_15_G12_A032 5', TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): CATTTTATTTACCAGCAGATCTCCACTTCTACTTCCACTTCCACATCCAGATCGAAACTCTGCTAACATTCCTGATGACTCTATTCTGCTATTGGTGAGGAATGACTGTGACTGTGGTGACAGCGCAATCTTTTGGAATGGAAGCGGGCAAGTACGTTCGGTACACTGCAGAGCAGGTGGAAGCTCTGGAACGCCTTTACAATGACTGCCCAAAGCCCAGCTCTCTGCGTCGCCAGCAGCTCATCAGAGAATGCCCAATCCTTTCACACATCGAGCCGAAGCAAATCAAAGTCTGGTTCCAGAATCGAAGATGTAGAGAGAAACAACGCAAGGAGGCAAGTCGTCTCCAGACTGTCAACAGAAAGCTCACAGCCATGAATAAGCTTCTTATGGAGGAGAACGATCGCCTTCAGAAGCAAGTCTCGCAGTTGGTTTACGAGAATGGCTATTTCAGACAGCAGATACAGACTGTTTCTATTACCACCACAGATACTAGCTGTGAGTCTGTTGTTACTAGCGGTCCGCATCCGCACCACCTCACACCCCAGCATCCCCCAAGGGATGCTAGCCCCGCTGGATTCCTGTCTATTGCAGAGGAGACTTTGACGCAGTTTCTTTCAAAGGCTACAGAGACTGCTGTTGATTGGATCCAGATGCCCGGGATGAAGCCTGGTCCGGATTCTATAGGCATTGTGACTATTTCTAACAGTTGCACTGGAGTTGCTGCACGAGCTTGTGGCTTTGCAGGTCTCGAACCTTCAAAGGTCGCAGATATTCTTAAAGATCGTCCCGCTTGGCTTCATGATTGT | |||||||||
gi|30356689|gb|CD018039.1|CD018039 NXCI_163_A10_F NXCI (Nsf Xylem Compression wood Inclined) Pinus taeda cDNA clone NXCI_163_A10 TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): ACATAATCCAACACCTCAGCATCCCCCAAGAGATGCTAGCCCCGCTGGACTCCTGTCTATAGCAGAGGAGACCTTGACAGAGTTCCTTTCAAAGGCTAAAGGAGCTGCTGTCGATTGGGTCCNNATGCCTGGGATGAAGCCTGGTCCGGATTCGATTGGTATTGTNNNTATTTCGAATACTTGTAATGGAG | |||||||||
gi|66690324|gb|DR012818.1|DR012818 HEAT1_15_E07.b1_A029 Root at 37 C for 24 hr Pinus taeda cDNA clone HEAT1_15_E07_A029 3', mRNA TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): GCATACAAAAATCCAATAATAAGTGCAATGAAAACGTTGTAATATAATGGAAATCATGAGAGTAAGGATTGTTCAATATCTCACCCAATGATGCGCCTGAGAGCCTTGAAAGAGCGGGTCTCCGAGGAATCAATGAATCCCAGTCCATTCGGTATTTTGGCATCAACGTTAGAAATTGGAAGAGTGTTGTGAGGGGAATGAAGCCTGGTCCGACACCATGCGTGACTCTGCCCGCCCGGCTGCTTGTCAGAAAAGTTTTCAGGTCTCGTGCCAGGCTGCAGTCCCCTCACCCCAACTCTGCCATGTCTTCTGCTCGTTGATCCGATCGAATCAGCTCCTCTATTTGCGAGCTGTGTACACTGCATCTACCCCTTTCTTCAAAGGAAATAAACCGTCAAAAATCCAGGTAATTTTTACAACCTATTATCCGAAATTAATGCCTTGAATCAAGAGCTGCACATGGATGACCAGAGTCACGAGGGCATTTTCTATATGAGCTCCCTTAATGGAAAACCTCACCTCTTACAGTTCATGGCCAGTTTTTCATATAAAAAACAAAAAGCTGCAAGATACGCACTGCATCGATCTCTGAGAGCTCGGAGAACGAGCTGCTCAGGCCTCCAGATCTGGTTTTAATG | |||||||||
gi|21825120|gb|BQ699804.1|BQ699804 NXRV129_F06_F NXRV (Nsf Xylem Root wood Vertical) Pinus taeda cDNA clone NXRV129_F06 5' simil TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): TTCAAAGCTAAAGAGCTGCTGTCGATTGGGTCCNNATGCCTGGGATGAAGCCTGGTCCGGATTCGATTGGTATTGTAGCTATTTCGAATACTTGTAATGGAGTAGCTGCACGTGCTTGCGGTCTTGTAGGATTAGATCCTACAAAGGTTGCAGAGATTCTTAAAGATCGCCCATCTTGGCTTCGTGATTGTCGTTGCCTTGATGTCTTGACTGCGTTTCCTACTGGAAATGGTGGAACAATCGAGCTTTTATACATGCAGACATATGCGGCCACTACTTTAGCTTCTGCTAGAGACTTCTGGACTCTGAGATACACAACAGTGTTGGAAGATGGCAGTCTTGTGGTTTGTGAANGGTCCTTGAGTGGTACTCNNGGTGGTGCAAGCATACCGCCAGTGCAACATTTTGTGAGAGCAGAAATGCTTCCCAGTGGATATTTGATACAACCTTGCGANNNTGGTGGTTCCATAATCCGAATTGTTGATCACATGGATCTAGNNNNNTGGAGTGTGCCCTGAGNNTTGCGACNNCTATATGAATCGTCCACTNTNCNNGCC | |||||||||
gi|34358741|gb|CF400324.1|CF400324 RTWW1_4_E09.g1_A015 Well-watered loblolly pine roots WW1 Pinus taeda cDNA clone RTWW1_4_E09_A TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): AAGAAGCCCAAAGCTCCCAAGGGATTTAAGCCTGCTCCGGCACATCCTCCATACTTTCAGATGATCAAAGAGGCGATCTCCGCCTTGAAGGAGAAGGGAGGTTCAAGTCCCAGGGCTATCGCCAAATACATGGAGGAGAAGCACAAGACAGTTCTGCCCCCTAACTACAAGAAGACGCTCGCTGTACAGATAAAGAAGCTCGTTTTGGCCGGCAAGCTTACGAAGGTGAAGGCTTCTTTCAAGCTGGCCGAGGGAGCTAAGAAGGCTCCTGCAAAGAAGCCTGTCAAGAAGACTGTGAAGACTGTGAAGCCCAAGGCCAAAACTGCTTCCAAGCCTAAGACTGCCCCCAAATCTGCCAAACCTGCATCAAAGCCTAAGACAGCTAAGAAGGTTGCGAAGGCTCCTGCTGCAAGCAAGACCGCTGCTGCCAAGCCAGCCAAGGCTGCTAAACCAGCAGCCCCAGCAAAGAAGCCAGCTGCAAAGAAGGCTGCTCCTGCTAAAAAGCCTGCGGCTGCCAAGCCGGTGAAGGCCAAGAAGCCTAAGTCCATCAAGTCTGCTAAGGCTCCTGCAAAAGCAAAGCCCGCAGCGAAGGCTCCCGCGGCAAAGAAGGCCAAGAAGGCCTAATTTTGTAAACAATCTACTGAAAAACAAATGGTGTTCCTAAACACCACCATGCTTCTTAGGAAATGCCGACCCTTCTAACCCTGATCTTTG | |||||||||
gi|21827099|gb|BQ701783.1|BQ701783 NXSI_120_E07_F NXSI (Nsf Xylem Side wood Inclined) Pinus taeda cDNA clone NXSI_120_E07 5' sim TCGGACCAGGCTTCATTCCC EST sequence (targeted fragment marked with yellow): CAAGGAAGCTTCTCGTCTCCAGGCTGTGAACAGAAAGCTTTCTGCCATGAACAAGCTGTTAATGGGGGAGAATGACCGCTTGCAGAAACAAGTCTCGCAGTTGGTCTACGAGAATGGATATTTCAGGCAGCAGTTGCAGAATGCCTCCATAGCAACTACAGACACTAGCTGTGAGTCTGTGGTTACAAGTGTTAAACATCAACAGCAAAATCACCTGACGCCCCGGGATCCCCCCAGGGATGCTAGCCCTGCTGGACTCCTTTCTATTGCAGAGGAGACTTTAACAGAGTTTCTTTCAAAGGCTAAAGGAAATGCTGTTGAGTGGANNCAGATGCCTGGGATGAAGCCTGGTCCGGATGCTATTGGAATTGTCACTATTTCACATGGGTGTACTGGAGTNNCTGCACGAGCTTGTTCTCTTGTTGNTATAGNCCCTACAAANNNNGCAGAGATTCTCAAAGATNGCACATCTTGGCTTCGGGATTGCCGAAGTGTGGATGTTCTTACTGCTTTCTCAACTGGANATNNNNNNNCAATTGAGCTTTTATACATGCAT | |||||||||