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

ptc-miR828b-5p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

CCUCUUUGUAAUGUUUCUUGCUCAAAUGAGUAUUCCAACAACAGUAGCCUUUUGAACAAGAACAUAUGUUUUUGCCUUGUAUGGUUAUGAUGUUGCUGGUAUUUACUGUUUCUGAGAUGCUCAUUCGAGCAAGAAAUAUUAGAAGAGG

miRBase

Precursor miRNA Structure(5'-3') 

       G               A          ----------------   A     --      -UUUUGAA       A 
CCUCUUU UAAUGUUUCUUGCUC AAUGAGUAUU                CCA CAACA  GUAGCC        CAAGAAC U
||||||| ||||||||||||||| ||||||||||                ||| |||||  ||||||        |||||||  
GGAGAAG AUUAUAAAGAACGAG UUACUCGUAG                GGU GUUGU  UAUUGG        GUUUUUG G
       -               C          AGUCUUUGUCAUUUAU   C     AG      UAUGUUCC       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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