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

aly-miR859-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCUCUCCGUUGUAAAAUCAAA

miRBase

Precursor miRNA Sequence(5'-3')

AGUCGCCGAUGGAUAUAGAUAGAUGUCGAAAUCUCUCCGUUGUAAAAUCAAACAUGAGUAUGAAUUUAACCAUGAAGGGAUAUUUUUGAUUCGUAUACUCAUGUUUGAUUUUACAAUAGAUAGAUAUCGACGCCUAUCUCUUGUUAAACAGAGUGAUU

miRBase

Precursor miRNA Structure(5'-3') 

A     - -GAUG    -U      A      A    C  C                       --     -----  A  AU 
 GUCGC C     GAUA  AGAUAG UGUCGA AUCU UC GUUGUAAAAUCAAACAUGAGUAU  GAAUU     UA CC  G
 ||||| |     ||||  |||||| |||||| |||| || |||||||||||||||||||||||  |||||     || ||   
 UAGUG G     UUGU  UCUAUC GCAGCU UAGA AG UAACAUUUUAGUUUGUACUCAUA  CUUAG     AU GG  G
U     A ACAAA    UC      C      A    U  A                       UG     UUUUU  A  GA

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

ath-miR859         UCUCUCUGUUGUGAAGUCAAA
aly-miR859-5p      UCUCUCCGUUGUAAAAUCAAA
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