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-miR10996a

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

ACACCAUCGCAUCUCAUGUUCC

miRBase

Precursor miRNA Sequence(5'-3')

UUCUCGAGAAGAGCUGACAUGCAACUGAGAUGCUAAGGUGAUGGUAUUCCAAACCAACCAUGCUAUGUCAUGUUGAAAAGUUAAAACAUAUGACGGUUUGWGAUGGGCUUGAAAUGCCAACACCAUCGCAUCUCAUGUUCCACGUAAGUUACUCUCCACU

miRBase

Precursor miRNA Structure(5'-3') 

UUCUC    AG    G  A  C   -        UAA    A       C   -A   A -  U   AU       UGAAAA 
     GAGA  AGCU AC UG AAC UGAGAUGC   GGUG UGGUAUU CAA  CCA C CA GCU  GUCAUGU      G
     ||||  |||| || || ||| ||||||||   |||| ||||||| |||  ||| | || |||  |||||||       
     CUCU  UUGA UG AC UUG ACUCUACG   CCAC ACCGUAA GUU  GGU G GU UGG  CAGUAUA      A
-UCAC    CA    A  C  C   U        CUA    A       A   CG   A W  U   --       CAAAAU

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

mtr-miR2592bm-3p      GGAAAACAU-GAAUGUCGGGUG--
mtr-miR2592bn-3p      GGAAAACAU-GAAUGUCGGGUG--
mdm-miR10996a         --ACACCAUCGCAUCUCAUGUUCC
mdm-miR10996b         --UCACCAUUGCAUCUCAUGUUCC
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