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

csi-miR2275b-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

AGAAUUGGAUGGAACUAAACA

miRBase

Precursor miRNA Sequence(5'-3')

CCAUUUGCAUUUCUUUAUUAGUUGUAUGUAAGAAUUGGAUGGAACUAAACAGAUUAACUACUAAAUAGUAAGAUCGAAAUAUUCUUUUUCUGUUUAGUUUCCUCCAAUAUCUUAUCUCCAACUUCUAAACUAUACAACGCAAAAAUAAAGUUCUAAGUAAUUGGAGGACCAAAACAGACAUGUC

miRBase

Precursor miRNA Structure(5'-3') 

-----------------------------------------------------------CCAUUUGCAUUUCUUUAUUAGUUGUAUGUAAGAAUUGGAUGGAACUAAACAGAUUA    C 
                                                                                                                   ACUA U
                                                                                                                   |||| A
                                                                                                                   UGAU U
CUGUACAGACAAAACCAGGAGGUUAAUGAAUCUUGAAAUAAAAACGCAACAUAUCAAAUCUUCAACCUCUAUUCUAUAACCUCCUUUGAUUUGUCUUUUUCUUAUAAAGCUAGAA    A

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

csi-miR2275a-5p      AGAAUUGGAUGGAACUAAACA-
csi-miR2275b-5p      AGAAUUGGAUGGAACUAAACA-
osa-miR1850.3        CUGUUUAGUUCACAUCAAUCUU
                         ** * *   *  ** *