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-miR482b-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGAGUGGGUGGCAUGGUAAGA

miRBase

Precursor miRNA Sequence(5'-3')

GAAUGUUUCAGGGAGCUUUUGGAGUGGGUGGCAUGGUAAGAUAUCAUAUUUUGUUUUUCAUAAAAAAUGGAAUUGAAAUCUUACCGAUUCCCCCCAUUCCAAUGGCUUCCAGUCAUUUCUCC

miRBase

Precursor miRNA Structure(5'-3') 

----     UUUCA       U          U  C  -        A   U           C 
    GAAUG     GGGAGCU UUGGAGUGGG GG AU GGUAAGAU UCA AUUUUGUUUUU A
    |||||     ||||||| |||||||||| || || |||||||| ||| |||||||||||  
    UUUAC     CCUUCGG AACCUUACCC CC UA CCAUUCUA AGU UAAGGUAAAAA A
CCUC     --UGA       U          C  U  G        A   -           A

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

stu-miR482b-5p      GGAGUGGGUGGCAUGGUAAGA
sly-miR482d-5p      GGAGUGGGUGGGAUGGAAAAA
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