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

mtr-miR319d-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

AGAGCUCUCUUCAGUCCACUC

miRBase

Precursor miRNA Sequence(5'-3')

AGAAAAAUAGUUCAAGAGAGCUCUCUUCAGUCCACUCAUGGAUAGGAAAAGGUUUUGAAUUAGCUGCUGACUCAUUCAUUCAAACACAAUAAGAAGAAGCAUGAUGAAUAUGCUAUAUUGUGAAUGUGUGAAUGAUGCGGGAGCUAAAUUUCAUCUUUCUCUUGUCUUUGCUUGGACUGAAGGGAGCUCCCUUUUGCUGUUUAUAUA

miRBase

Precursor miRNA Structure(5'-3') 

-AGAA       UC   A                 CU  U        A    UUU    --      G   AC        U  AA       AGAAGA      A 
     AAAUAGU  AAG GAGCUCUCUUCAGUCCA  CA GGAUAGGA AAGG   UGAA  UUAGCU CUG  UCAUUCAU CA  CACAAUA      AGCAUG U
     |||||||  ||| |||||||||||||||||  || |||||||| ||||   ||||  |||||| |||  |||||||| ||  |||||||      |||||| G
     UUUGUCG  UUC CUCGAGGGAAGUCAGGU  GU UCUGUUCU UUUC   ACUU  AAUCGA GGC  AGUAAGUG GU  GUGUUAU      UCGUAU U
AUAUA       UU   C                 UC  U        C    --U    UA      G   GU        U  AA       -----A      A

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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