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-miR3440-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UGGAUUGGUCAAGAGAACCGCA

miRBase

Precursor miRNA Sequence(5'-3')

GUUUGAUAUUAAUACUAACAUCAAAAGUAGAUUGCUUGCCAUUUGGUUAGGAAUUGGUCUGCGGCAUUUUCCACAAGUGUGGUUUCCCUGGCCAAUCCACUUGUAAUGUGUAUUUUGUAAAUAACGCAAAAUGUGCAUUAGAAGUGGAUUGGUCAAGAGAACCGCACUUGUGCAAAAUACCGCAGUCCAAUUUCUGACAAAAUGACAAGCAAUCCAUUUUGGAUGGCUUGUCUGUAUCGAGC

miRBase

Precursor miRNA Structure(5'-3') 

         UA   CUAA    A     A         C     G            U      C     C              C C              G               AA 
GUUUGAUAU  AUA    CAUC AAAGU GAUUGCUUG CAUUU GUUAGGAAUUGG CUGCGG AUUUU CACAAGUGUGGUUU C UGGCCAAUCCACUU UAAUGUGUAUUUUGU  A
|||||||||  |||    |||| ||||| ||||||||| ||||| |||||||||||| |||||| ||||| |||||||||||||| | |||||||||||||| |||||||||||||||  U
CGAGCUAUG  UGU    GUAG UUUUA CUAACGAAC GUAAA CAGUCUUUAACC GACGCC UAAAA GUGUUCACGCCAAG G ACUGGUUAGGUGAA AUUACGUGUAAAACG  C
         UC   -UCG    G     C         A     A            U      A     C              A A              G               CA

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

aly-miR3440-3p       UGGAUUGGUCAAGAGAACCGCA
ath-miR3440b-3p      UGGAUUGGUCAAGGGAAGCGU-
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