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

pvu-miR2118

Organism

Phaseolus vulgaris

Species

Mature miRNA Sequence(5'-3')

UUGCCGAUUCCACCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

AAGAGCUUAAGGAAGUGAUGGGAGAUGGGUGGGUUGGUAAAACAUAAGAGAAUGAAUAUUUCUCACUCUGUUUUGCCGAUUCCACCCAUUCCUAUGAUUUCCUUUGCUUCCUCUCUUUCCACUCU

miRBase

Precursor miRNA Structure(5'-3') 

--------------AA    UU        G       A        -           -UAA     UG 
                GAGC  AAGGAAGU AUGGGAG UGGGUGGG UUGGUAAAACA    GAGAA  A
                ||||  |||||||| ||||||| |||||||| |||||||||||    |||||  A
                UUCG  UUCCUUUA UAUCCUU ACCCACCU AGCCGUUUUGU    CUCUU  U
UCUCACCUUUCUCUCC    -U        G       -        U           CUCA     UA

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

gma-miR2118a-3p      UUGCCGAUUCCACCCAUUCCU-
gma-miR2118b-3p      UUGCCGAUUCCACCCAUUCCU-
pvu-miR2118          UUGCCGAUUCCACCCAUUCCUA
mac-miR2118          UUGCCGAUUCCUCCCAUCCCUA
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