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

gra-miR8691

Organism

Gossypium raimondii

Species

Mature miRNA Sequence(5'-3')

AGAUGAUGAGAAAGGAAAGUCAAG

miRBase

Precursor miRNA Sequence(5'-3')

UGCUUUUUUUAGAUGAUGAGAAAGGAAAGUCAAGAUGAAUGAACAAGUUUGAUUUUUAUUUGAUUGGUUUGUUAUGUUCAUGUUAGUCUGGUAAAAAGUCUUAAACUAGGUCUGAGGAUUUAAUCUGUGCUUCUUCUUUGUUGGAAUUUUCUUUUUUUUUAUUUGGAAAUUAUU

miRBase

Precursor miRNA Structure(5'-3') 

UGCUU           U           G  AA      UGAACAAGUUUGAUUUUUAUUUGAUUGGUUUGUUAUGUUCAUGUUAG 
     UUUUUAGAUGA GAGAAAGGAAA UC  GAUGAA                                               U
     ||||||||||| ||||||||||| ||  ||||||                                               C
     AAAGGUUUAUU UUUUUUCUUUU AG  UUGUUU                                               G
UUAUU           U           A  -G      CUUCUUCGUGUCUAAUUUAGGAGUCUGGAUCAAAUUCUGAAAAAUGG

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

gra-miR8691      AGAUGAUGAGAAAGGAAAGUCAAG---------
bra-miRN316      -------------UGAAUGUCUUUCUCUUCAUC
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