TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

aly-miR835-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UGAAGAAGAUACGCAAGAAAG

miRBase

Precursor miRNA Sequence(5'-3')

GAUGCAAUGCUAGAUGGUCAUCUUUGUGGUUAAGCUCUUUCUUGCAUAUGUUCUUUAUCUCUAUUGAUUGAUAUUUUUCAGCGAGCAACAUUAUAUAUAUAUAUAUAUAUUUUACCUGGAUUUGUAAGAUAAUUUUUAGAUUUCUCGACGUUAUACGCAACAUUAUAAUUUCUGUUGUAGUCAACUUCUGCUGCAACCCAUCCACAAAGCUUAUCAUGCGAGAUUAAACACUUUCUCGAUGGGUUGCAAUAGAACAUCACUAAAAUAGAAGUGAUAUUGUUUGGAAAAACGUCAAAGAACCGAUAUCUUAUAAACAUCUUACAAAUCCAGGUAGAAGAGAAUAUGAGGUUGCUUGUUGAAAAUAACAAUCUAUAAAUUUGAAGAAGAUACGCAAGAAAGAGUUCUAAACACAAAGCUGAUCAAACAUUCUAUUUGAAGAGUU

miRBase

Precursor miRNA Structure(5'-3') 

GAUGCAAUGCUAGAUGGUCAUCUUUGUGGUUAAGCUCUUUCUUGCAUAUGUUCUUUAUCUCUAUUGAUUGAUAUUUUUCAGCGAGCAACAUUAUAUAUAUAUAUAUAUAUUUUACCUGGAUUUGUAAGAUAAUUUUUAGAUUUCUCGACGUUAUACGCAACAUUAUAAUUUCUGUUGUAGUCAACUUCUGCUGCAACCCAUCCACAAAGCUUAUCAUGCGAGAUUAAACACUUUCUCGAUGGGUUGCAAUAGAACAUCACUAAAAUAGAAGUGAUAUUGUUUGGAAAAACGUCAAAGAACCGAUAUCUUAUAAACAUCUUACAAAUCCAGGUAGAAGAGAAUAUGAGGUUGCUUGUUGAAAAUAACAAUCUAUAAAUUUGAAGAAGAUACGCAAGAAAGAGUUCUAAACACAAAGCUGAUCAAAC     AU 
                                                                                                                                                                                                                                                                                                                                                                                                                                         AUUCU  U
                                                                                                                                                                                                                                                                                                                                                                                                                                         |||||   
                                                                                                                                                                                                                                                                                                                                                                                                                                         UGAGA  A
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------U     AG

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

ath-miR835-3p      UGGAGAAGAUACGCAAGAAAG
aly-miR835-3p      UGAAGAAGAUACGCAAGAAAG
                   ** ******************