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

stu-miR156d-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GCUCUCUAUGCUUCUGUCAUCA

miRBase

Precursor miRNA Sequence(5'-3')

UUGACAGAAGAUAGAGAGCACUAAUGAUGAUAUGCUAAUUUCAUUCAGCAAAAGCAUCUCACUUCAUUUGUGCUCUCUAUGCUUCUGUCAUCA

miRBase

Precursor miRNA Structure(5'-3') 

--U         -           U     --   U     AAUUUCA 
   UGACAGAAG AUAGAGAGCAC AAUGA  UGA AUGCU       U
   ||||||||| ||||||||||| |||||  ||| |||||        
   ACUGUCUUC UAUCUCUCGUG UUACU  ACU UACGA       A
ACU         G           U     UC   C     AAACGAC

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

ath-miR157a-3p               GCUCUCUAGCCUUCUGUCAUC-
ath-miR157b-3p               GCUCUCUAGCCUUCUGUCAUC-
aly-miR157a-3p               GCUCUCUAGCCUUCUGUCAUCA
mtr-miR156g-3p               GCUCUCUAGACUUCUGUCAUC-
aly-miR157d-3p               GCUCUCUAUGCUUCUGUCAUC-
fve-miR156g-3p               GCUCUCUAUGCUUCUGUCAUC-
dca-miR156-b2.0r1-17334      GCUCUCUAUGCUUCUGUCAUC-
stu-miR156d-3p               GCUCUCUAUGCUUCUGUCAUCA
csi-miR156e-3p               GCUCUCUGUGCUUCUGUCAUCA
aly-miR157b-3p               GCUCUCUAAGCUUCUGUCAUCA
csi-miR156g-3p               GCUCUCUAUUCUUCUGUCAUC-
mtr-miR156h-3p               GCUCUUUAUUCUUCUGUCAUC-
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