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-miR396e-3p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

CUCAAGAAAGCUGUGGGAGA

miRBase

Precursor miRNA Sequence(5'-3')

GGUCAUGCUUUUCCACAGCUUUCUUGAACUUCUUUGCCUUGCUUAAUCUGUGUAUAUAUAGAUCACUACAUGUACAGCUCCUAUAUAUAUAAAUAUAUGUAUGUAUAGCGCCAUGGAAGCUCAAGAAAGCUGUGGGAGAACAUGG

miRBase

Precursor miRNA Structure(5'-3') 

GGU    C                   A     U  CCUUGCUUAAUCUGUGUAUAUAUAGAUCACUACAUG 
   CAUG UUUUCCACAGCUUUCUUGA CUUCU UG                                    U
   |||| ||||||||||||||||||| ||||| ||                                    A
   GUAC AGAGGGUGUCGAAAGAACU GAAGG AC                                    G
--G    A                   C     U  CGCGAUAUGUAUGUAUAUAAAUAUAUAUAUCCUCGA

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

csi-miR396e-3p      GCUCAAGAAUGCCGUGGGAAA-
zma-miR396e-3p      GGUCAAGAAAGCCGUGGGAAG-
ptc-miR396g-3p      -CUCAAGAAAGCCGUGGGAAAA
ptc-miR396e-3p      -CUCAAGAAAGCUGUGGGAGA-
                      ******* ** ******