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-miR319b-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

AGAGCUCUCUUCAGUCCACUC

miRBase

Precursor miRNA Sequence(5'-3')

AUGUAUAAGAGAGCUCUCUUCAGUCCACUCUCAGAUGACUGUAGGGUUUUAUUAGCUGCCGAUUCAUCCAUUCACCUACCAAGAAUCAUGAGGGCGUAUAUGUCUUGGUAGCCGACUGGAUGGCACGGGAGCUACAAAAAGCUUUUCGUUGUUUGUGGUUGGACUGAAGGGUGCUCCCUUGCUUACAAUA

miRBase

Precursor miRNA Structure(5'-3') 

--A    --    A    U            C  U        UGU   G    AU     G   AU       U  AC         AU    AGG 
   UGUA  UAAG GAGC CUCUUCAGUCCA UC CAGAUGAC   AGG UUUU  UAGCU CCG  UCAUCCA UC  CUACCAAGA  CAUG   G
   ||||  |||| |||| |||||||||||| || ||||||||   ||| ||||  ||||| |||  ||||||| ||  |||||||||  ||||    
   ACAU  GUUC CUCG GGGAAGUCAGGU GG GUUUGUUG   UUC AAAA  AUCGA GGC  GGUAGGU AG  GAUGGUUCU  GUAU   U
AUA    UC    C    U            U  U        CUU   G    AC     G   AC       C  CC         --    AUG

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

mdm-miR319b-5p        -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319b-5p        -GAGCUUU-CUUUAGUCCACUCA
mdm-miR319e           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319c-5p        -GAGCUCUUCUUCAGUCCAGUCC
mdm-miR319h           -GAGCUCUUCUUCAGUCCAGUCC
bdi-miR319b-5p        AGAGCUCU-CUUCAGUCCACUC-
mtr-miR319d-5p        AGAGCUCU-CUUCAGUCCACUC-
zma-miR319a-5p        -GAGCUCU-CUUCAGUCCACUC-
zma-miR319c-5p        -GAGCUCU-CUUCAGUCCACUC-
mdm-miR319g           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319f           -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319a-5p        AGAGCUUC-CUUCAGUCCACUC-
aly-miR319b-5p        AGAGCUUU-CUUCGGUCCACUC-
ppt-miR319d-5p.1      -GAGCUUU-CUUCGGUCCAAUA-
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