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

stu-miR482e-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

AGUGGGUGGUGUGGUAAGAUU

miRBase

Precursor miRNA Sequence(5'-3')

GUGUUUCGGGGAGGUGUUGGAGUGGGUGGUGUGGUAAGAUUUCAUAUUUAUUUUCCAUAAAAAUUGAGAUCUUGCCAAUACCGCCCAUUCCUAUGGCUUCCGAUCAUUUCU

miRBase

Precursor miRNA Structure(5'-3') 

----   UU     G  G   U              -            -UA     U 
    GUG  UCGGG AG UGU GGAGUGGGUGGUGU GGUAAGAUUUCA   UUUAU U
    |||  ||||| || ||| |||||||||||||| ||||||||||||   ||||| U
    UAC  AGCCU UC GUA CCUUACCCGCCAUA CCGUUCUAGAGU   AAAUA A
UCUU   -U     -  G   U              A            UAA     C

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

sly-miR482e-5p      UGUGGGUGGGGUGGAAAGAUU
stu-miR482e-5p      AGUGGGUGGUGUGGUAAGAUU
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