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

bdi-miR5281a

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UCUUAUAAAUAGGAACGGAGG

miRBase

Precursor miRNA Sequence(5'-3')

ACUCCCUUCGUUCCUAUUUAUAAGACGUCUUGGCAAGUCAAUUUGGCUUGCCAAAACGUCUUAUAAAUAGGAACGGAGGGAAUAC

miRBase

Precursor miRNA Structure(5'-3') 

--AC                          C             
    UCCCUUCGUUCCUAUUUAUAAGACGU UUGGCAAGUCAA 
    |||||||||||||||||||||||||| ||||||||||| U
    AGGGAGGCAAGGAUAAAUAUUCUGCA AACCGUUCGGUG 
CAUA                          A

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

mtr-miR5281e      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281f      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281d      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281c      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281b      -UCUUAUAAAUAGGACCGGAGGGAG
bdi-miR5281b      -UCUUAUAAAUAGGAACGGAGG---
bdi-miR5281a      -UCUUAUAAAUAGGAACGGAGG---
mtr-miR5281a      CUCUUGUAAAUAGGAUCGGAGGGA-
ptc-miR7815       -CUCUUCAAAUAA-AUCGUGGGA--
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