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-miR158a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCCCAAAUGUAGACAAAGCA

miRBase

Precursor miRNA Sequence(5'-3')

ACGUCAUCUCUGUGCUUCUUUGUCUACAAUUUUGGAAAAAGUGGUGACGCCAUUGCUCUUUCCCAAAUGUAGACAAAGCAAUACCGUGAUGACGU

miRBase

Precursor miRNA Structure(5'-3') 

        U U   CUU           A   U     A       A 
ACGUCAUC C GUG   CUUUGUCUACA UUU GGAAA AGUGGUG C
|||||||| | |||   ||||||||||| ||| ||||| |||||||  
UGCAGUAG G CAU   GAAACAGAUGU AAA CCUUU UCGUUAC C
        U C   AAC           -   C     C       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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