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-miR398a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGAGUGUCAUGAGAACACAGA

miRBase

Precursor miRNA Sequence(5'-3')

UAAUCAGUGGAAGUAAAGUAUGAAGAAAAAGAGAAGAACAACAGGAGGUGAAAUCUCAAAGGAGUGUCAUGAGAACACAGAUCCUAUGGUUUCUUUACAUUUUCAUUGAAACCAUUGAGUUUGUGUUCUCAGGUCACCCCUUUGAAUCUCCCCUGUUCCUUUAUUUUACCUUACCAAAAUUA

miRBase

Precursor miRNA Structure(5'-3') 

UAAUCAG   -   -       UGAAGAAAAAGAG   AAC      A  U  AAUC       A   U A             C U        UUUACA 
       UGG AAG UAAAGUA             AAG   AACAGG GG GA    UCAAAGG GUG C UGAGAACACAGAU C AUGGUUUC      U
       ||| ||| |||||||             |||   |||||| || ||    ||||||| ||| | ||||||||||||| | ||||||||       
       ACC UUC AUUUUAU             UUC   UUGUCC CC CU    AGUUUCC CAC G ACUCUUGUGUUUG G UACCAAAG      U
-AUUAAA   A   C       -------------   --C      -  U  ---A       C   U G             A U        UUACUU

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

mtr-miR398a-5p      GGAGUGACACUGAGAACACAAG
aly-miR398a-5p      GGAGUGUCA-UGAGAACACAGA
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