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

mdm-miR828b

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

UCCUCUUCGUAAUGUUUCUUGCUCAAAUGAGUAUUCCAGCCACAGUUUGCAUGCAGCUUGCAUAUAUAUAUAUAAGAACAUGUAUGUGUAUAUAUAUAUAGCACUGGUGCUUCUGCAAUCCUGAGAUGCUCAUUUGGGCAAGCAACGUUACAAGAGGA

miRBase

Precursor miRNA Structure(5'-3') 

       C        U                  C   CCACA U     --U   G -U   A            AGA   U 
UCCUCUU GUAAUGUU CUUGCUCAAAUGAGUAUU CAG     G UUGCA   GCA C  UGC UAUAUAUAUAUA   ACA G
||||||| |||||||| |||||||||||||||||| |||     | |||||   ||| |  ||| ||||||||||||   |||  
AGGAGAA CAUUGCAA GAACGGGUUUACUCGUAG GUC     C AACGU   CGU G  ACG AUAUAUAUAUAU   UGU U
       -        C                  A   ----- U     CUU   G UC   -            --G   A

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
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