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

aly-miR158b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCCCAAAUGUAGACAAAGC

miRBase

Precursor miRNA Sequence(5'-3')

UCAGAAGAAUAGUAACUCGUCAUCUCUGUGCCUCUUUGUCUACAAUUUUGGAAAAAGUAGUGUCGCCAUUGUUUUUUUCCCAAAUGUAGACAAAGCGAUACCGUGAUGACGUUAUAGAGAUUUUGUUUGA

miRBase

Precursor miRNA Structure(5'-3') 

     -     -AGUAACU       U U   C U           A   U        -U    U 
UCAGA AGAAU        CGUCAUC C GUG C CUUUGUCUACA UUU GGAAAAAG  AGUG C
||||| |||||        ||||||| | ||| | ||||||||||| ||| ||||||||  ||||  
AGUUU UUUUA        GCAGUAG G CAU G GAAACAGAUGU AAA CCUUUUUU  UUAC C
     G     GAGAUAUU       U C   A C           -   C        UG    C

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

bra-miR158b         --UCCCAAAUGUAGACAAAGCA
aly-miR158b-3p      --UCCCAAAUGUAGACAAAGC-
ath-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
aly-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
ath-miR158b         --CCCCAAAUGUAGACAAAGCA
esa-miR158b         UUUUCCAAAUGUUGACAAAGCA
bol-miR158          -UUUCCAAAUGUAGACAAAGCA
bra-miR158a         -UUUCCAAAUGUAGACAAAGCA
esa-miR158a         -UUUCCAAAUGUAGACAAAGCA
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