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-miR167g-3p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

AGAUCAUGUGGCAGUUUCACC

miRBase

Precursor miRNA Sequence(5'-3')

CACUAUCAGUUGAAGCUGCCAGCAUGAUCUUAACCUCCCUCCUUUGUCGAGGAAAGAACAGAUCAUGUGGCAGUUUCACCUGAAGU

miRBase

Precursor miRNA Structure(5'-3') 

C   A    U           G        UAACCUC    CU 
 ACU UCAG UGAAGCUGCCA CAUGAUCU       CCUC  U
 ||| |||| ||||||||||| ||||||||       ||||  U
 UGA AGUC ACUUUGACGGU GUACUAGA       GGAG  C
-   -    C           -        CAAGAAA    CU

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

csi-miR167a-3p      AGAUCAUCUG-GCAGUUUCACC
mdm-miR167a         AGAUCAUCUG-GCAGUUUCACC
ptc-miR167h-3p      AGAUCAUGUG-GCAGUUUCACC
ptc-miR167g-3p      AGAUCAUGUG-GCAGUUUCACC
ptc-miR167f-3p      AGAUCAUGUG-GCAGUUUCACC
ath-miR167a-3p      -GAUCAUGUUCGCAGUUUCACC
aly-miR167a-3p      -GAUCAUGUUCGCAGUUUCACC
zma-miR167h-3p      -GAUCAUGUU-GCAGCUUCAC-
bdi-miR167d-3p      AGAUCAUGUU-GCAGCUUCAC-
zma-miR167i-3p      -GAUCAUGUU-GCAGCUUCAC-
                     ****** *  **** *****