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-miR172d-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCAACAUCUUCAAGAUUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

GAUUCAGAAUUUGAAGUUAGUGGCAGUCAUUGUUUGCUAUUGCAACAUCUUCAAGAUUCAGAAAUCAGAUUCUUUUAUGGGUUUUCUUUUGAGCCUAUAUUAUUUGGUUUGAGAAUCUUGAUGAUGCUGCAGCGGCAAUUAAAUGGCUUAUUUAUCUAGGGUU

miRBase

Precursor miRNA Structure(5'-3') 

GAUUCAGAAUUUGAAG    -   --C       -GU     A     A    U         AG         UCUUU         UC 
                UUAG UGG   AGUCAUU   UUGCU UUGCA CAUC UCAAGAUUC  AAAUCAGAU     UAUGGGUUU  U
                |||| |||   |||||||   ||||| ||||| |||| |||||||||  |||||||||     |||||||||   
                GAUC AUU   UCGGUAA   AACGG GACGU GUAG AGUUCUAAG  UUUGGUUUA     AUAUCCGAG  U
------------UUGG    U   UAU       AUU     C     C    U         AG         ---UU         UU

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

ath-miR172d-5p      GCAACAUCUUCAAGAUUCAGA
aly-miR172d-5p      GCAACAUCUUCAAGAUUCAGA
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