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

mes-miR828b

Organism

Manihot esculenta

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

CCCUUCCAUAGGAAGGCCUCUUGCUCAAAUGAGUAUUCCACAAUCUUCUUAGAGGAAGACAUAAUUUUCCACUUAAACGUCGUUUCAAUAGUUUACCUUCAUUUCUUUCAGUAGUCAGUCUCUCUAACAGUUGGAAUGGAUACUCAUUUAGGCAAGAUGCUUUGCAUGAGAGGG

miRBase

Precursor miRNA Structure(5'-3') 

     C   A G     C       C           CCACAAUCUUCUUAGAGGAAGACAUAAUUUUCCACUUAAACGUCGUUUC 
CCCUU CAU G AAGGC UCUUGCU AAAUGAGUAUU                                                 A
||||| ||| | ||||| ||||||| |||||||||||                                                 A
GGGAG GUA C UUUCG AGAACGG UUUACUCAUAG                                                 G
     A   - G     U       A           GUAAGGUUGACAAUCUCUCUGACUGAUGACUUUCUUUACUUCCAUUUGA

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

ath-miR828          UCUUGCUUAAAUGAGUAUUCCA
aly-miR828-5p       UCUUGCUUAAAUGAGUAUUCCA
lus-miR828a         UCUUGCUCAAAUGAGUGUUCCA
mes-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mes-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828b-5p      UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ppe-miR828-5p       UCUUGCUCAAAUGAGUAUUCCA
gma-miR828b         UCUUGCUCAAAUGAGUAUUCCA
gma-miR828a         UCUUGCUCAAAUGAGUAUUCCA
vvi-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mac-miR828          UCUUGCUCAAGUGAGUAUUCCA
                    ******* ** ***** *****