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-miR828a

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

UCCUCUUUGUAAUGUUUCUUGCUCAAAUGAGUAUUCCAGCCACAGUUUGCCUGCAGCUUGCAUAUAUAUAUAUAUAUAUAUAUAGCGCUGGUGCUUCUGCAAUUCUGAGAUGCUCAUUUGAGCAAGCAGCGUUACAAGAGGA

miRBase

Precursor miRNA Structure(5'-3') 

       U        U                  C   --CCA   UUU  CUG    UU  A         A 
UCCUCUU GUAAUGUU CUUGCUCAAAUGAGUAUU CAG     CAG   GC   CAGC  GC UAUAUAUAU U
||||||| |||||||| |||||||||||||||||| |||     |||   ||   ||||  || |||||||||  
AGGAGAA CAUUGCGA GAACGAGUUUACUCGUAG GUC     GUC   CG   GUCG  CG AUAUAUAUA A
       -        C                  A   UUAAC   -UU  -UG    --  -         U

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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