miRNEST 2.0: an integrative microRNA resource miRNEST 2.0, an integrative microRNA resource :: Browse




mature miRNA: CCTTCTCATCGATGGTCTAGA
species: Raphanus raphanistrum
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|158660979|gb|EX770870.1|EX770870 RR4BW70TF RR4(PB) Raphanus raphanistrum subsp. landra cDNA 5', mRNA sequence 

CCTTCTCATCGATGGTCTAGA
||||||||||||||  |. ||
GGAAGAGTAGCTACGTGGCCT

EST sequence (targeted fragment marked with yellow):
GGAAGTCAAAAGGGTTTTCTCATCACTGTTCCTTCCTCTTTCTATCTGTGATTTTCATTACAACCTCTGCTCTTTCCCGTGAACACTCTCTGTATCTGTAAACTGGGAATAAAAAAAGCTGCTAATGTATCTGTAAAGTGAAAGACTTTTCGATGCGAATCTCTCTCCATCGGTTTTAGAAATAGAAAGATTTGTACTTTCAGTGTTTGTTAGATCTGTTGAATAAATCGGAGTCAATGTCGGATCCACCTCGATTCCGATCGGTTCTTGGTCCAACCGGGAACAAACCGCAGAGGAAACCGCCGGGGATGATGAAGAAGACGGTTGACTCAAAAGATGAGAAGAAAACGAAGAAACCACCAGATACTACTCCGGATTCGCCAACGACGACTCTGAGGCAGTGCTCTTCGATTCTGAGACGGAACAGTGCTTCTTCCATGACTGCTTCTTATTCCTCTGATGCCTCTTCTTCTTGCGACTCGTTGCCTCTGAGCGTCGCGTCTTCTTCTTCCGACTGTAAGAAGAAGCCTGTGAGGCGAAGCGGGTCTGTCTCCTCCTCCCCCTCCGGTGCATCGATGAGAAGGAAGCAGGTTGATGAGAAAGAAG


gi|158661754|gb|EX771645.1|EX771645 RR4C658TF RR4(PB) Raphanus raphanistrum subsp. landra cDNA 5', mRNA sequence 

CCTTCTCATCGATGGTCTAGA
 |||||| |||||||| .|||
AGAAGAGGAGCTACCACGTCT

EST sequence (targeted fragment marked with yellow):
GAGTTCTCTTACAATTGGGGAACAAATCTGCGCCGTCTTCGTACCTTTCGTTGTCATTATTGATGTCATCTTCTCCACCTTCGGACAATGCTTCGATTGCCGCCGCCGCCGATCGCCTCAGATATGTCAGCACCCCGATCTGACTCGTCTTGCCCATGAATCTCAATTTTCAGTCAATGAAGTTGAAGCATTGTATGAGTTATTCAAGAAACTCAGCTGTTCAATTCATTGATGACGGCTTGATTCACAAGGAAGAGCTTCGGCTAGCGCTTGTCCAAGCTCCAAACCTGTTTCTTGATAGGGTTTTTGATTTGTTCGATGAGAAGAAGAATGGGGTTATCGAGTTTGAGGAGTTTATCCATGCCTTGAGTGTGTTTCATCCCTCTGCACCATCGAGGAGAAGATCGACTGTAAGATCAGTGCCCTACTAATACTGTATGTAATATCTGTGGATGAGC


gi|158648009|gb|EX757900.1|EX757900 RR2CT58TF RR2(MS) Raphanus raphanistrum subsp. raphanistrum cDNA 5', mRNA sequence 

CCTTCTCATCGATGGTCTAGA
||.|||||||| ..|||| ||
GGGAGAGTAGCAGTCAGAGCT

EST sequence (targeted fragment marked with yellow):
GAATCTTCAGAGTAAAAATACCAATGGCTTCTTCTGGACTGGGAAACGGAGTAGGCAGTTCGAGATCTTCCAAAGGTGTAAAAGCCTCTTCTAGTTCTGTCGATTGGTTGACCAGAGATTTGGTTGACATGAGGATAAGGGACAAGGTCGAGACTGACGATGAGAGGGATAGTGAACCAGATATTATTGATGGCGCTGGCACTGAACCTGGGCATGTGATTAGAACCACACTCCGTGGACGAAATGGCCAATCAAGACAGACAGTCAGTTACATATCAGAACATGTAGTTGGTACTGGCTCCTTTGGCATGGTTTTCCAAGCCAAATGTAGGGAAACTGGGGAGATTGTTGCAATCAAGAAGGTTCTACAAGACAAGCGTTACAAGAACAGGGAGCTACAGATCATGCAGATGCTAGACCACCCCAATGTCGTTGCTTTAAAGCATAGCTTCTACACGAGAGCAGATAATGAAGAGGTTTATTTGAATCTTGTCCTTGAGTTTGTGCCTGAGACCGTCAATCGGGCTGCGAGAAGTTACACTAGGACGAACCAGCTCATGCCTTTGATATACGTTAAACTCTACACCTATCAGATTTGCAGGGCGCTTGCTTACATCCATAATAGCTTCGGTCTTTGTCACCGCGATATTAAGCCTCAAAACCTGCTAGTGAACCCACATACGCATCAGCTAAAAA


gi|167495526|gb|FD980095.1|FD980095 RR3GK14TF RR3(NY) Raphanus raphanistrum subsp. raphanistrum cDNA 5', mRNA sequence 

CCTTCTCATCGATGGTCTAGA
||||||||||||||  |. ||
GGAAGAGTAGCTACGTGGCCT

EST sequence (targeted fragment marked with yellow):
GTCCCCCCTTCTCTTCTTTCTGAGTTCTCTCAAGTCAAAAGGGTTTTCTCATCACTGTTCCTTCCTCTTTCTATCTGTGATTTTCATTACAACCTCTGCTCTTTCCCGTGAACACTCTCTGTATCTGTAAACTGGGAATAAAAAATCTGCTAATGTATCTGTAAAGTTGTTTGTTAGATCTGTTGAATAAATCGGAGTCAATGTCGGATCCACCTCGATTCCGATCGGTTCTCGGTCCAACCGGGGACAAACCGCAGAGGAAACCGCCGGGGATGATGAAGAAGACGGTCGAATCAAAAGATGAGAAGAAAACGAAGAAACCACCAGATACTACTCCGGATTCGCCAACGACGACTCTGAAGCAATGCTCTTCTATTCTGAGACGGAACAGTGCTTCTTCCATGACTGCTTCTTATTCCTCTGATGCCTCTTCTTCTTGCGACTCGTTGCCTCTGAGCGTCGCGTCTTCTTCTTCCGACTGTAAGAAGAAGCCTGTGAGCCGGCGAAGCGGGTCTGTCTCCTCCTCCCCCTCCGGTGCATCGATGAGAAGGAAGCAGGTTGATGAGAAAGAAGACAAGGCTGCTGCTGCTGCTGCTGCTAGTAATGCTGATTGCTTCGCTGACGGTAGAAAAAGATGTGCTTGGATCACTCCTAAAGCTGACACGTGTTATGTTGCTTTCCACGACGAAGAATGGGGAGTTCCTGTTCAGACGACAAGAAGCTTTTTGAGTTGCTATGTCTCTCCGTGCTCTATCCGAGCTCTCTTGGACCGACATTCTCTCTAGAAGC


gi|158661483|gb|EX771374.1|EX771374 RR4C240TF RR4(PB) Raphanus raphanistrum subsp. landra cDNA 5', mRNA sequence 

CCTTCTCATCGATGGTCTAGA
||||||| ||||||.  ||||
GGAAGAGCAGCTACTCCATCT

EST sequence (targeted fragment marked with yellow):
GGGGGAGCGTAGTGTTGGAGCACACAAATTGCTTGCCTCCTCCGCTTCTCGACGATATTCTGCCGACATCTGTTAAAACAAACACGTCTTCTTCTTCCTCTTCGTCTTCACAATTATGGATCTCAGCCACTCTACTTCGGATTAATTAAGAAGATATTTGTTTCCTGTTGTTGGATCTGAAACGGAAAATCAATCAATCAAACAAGGAAGGAAGGGGAAGATGGGGTTCTTCAGCACAGTACTAGGGTTTTGCGGATTTGGGATAGGGATATCCATGGGGCTCGTCATCGGTTACTTCCTTTTCATCTACCTCCAGCCCAACGACGTCAAGGATCCAAAAATTGAACCGATAGCAGAGCAAGATCCCAAATCCATGCTCCGTATGTTCCCCGAGATCCCTCTCTGGGTCAAGAACCCCGACTTCGACCGTGTTGACTGGATAAACAAATTCCTCGAGTACATGTGGCCTTACCTCGACAAGGCAATCTGCAAAACCGCACGCAACATAGCCAAGCCCATCATCGAGGAGCAGATCCCCAAGTACAAGATCGACTCCGTCGATTTCGAAACCCTCACTCTCGGCTCTCTCCCTCCCACTCTCCAAGGCATGAAAGTCTACCTCATCGACGAGAAGGAGCTGATCATGGAGCCTTGCTTGAATGGGCCGCTAACCCCAATGTCTTGGCTGCTATCAAGCTTTGGACTCAAGTTACTGT