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-miR167b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGUCAUGCUCUGACAGCCUCACU

miRBase

Precursor miRNA Sequence(5'-3')

AUCUGCACAACUUGUUGCUCAGGUAUUUUGAAGACAAGUCCACAAGGGAACAAGUGAAGCUGCCAGCAUGAUCUAUCUUUGGUUAAGAGAUGAAUGUGUAAACAUAUUGCUUAAACCCAAGCUAGGUCAUGCUCUGACAGCCUCACUCCUUCCUGGUUUAGGACCAUUCACUGAUAAAGCAUUCCACAUGCCGAU

miRBase

Precursor miRNA Structure(5'-3') 

   U   --CAACU    -GC    GUAUUU    GACAA    ---  AA     CA     A    - -C           U   U    -   A   GA    G 
AUC GCA       UGUU   UCAG      UGAA     GUCC   AC  GGGAA  AGUGA GCUG C  AGCAUGAUCUA CUU GGUU AAG GAU  AUGU U
||| |||       ||||   ||||      ||||     ||||   ||  |||||  ||||| |||| |  ||||||||||| ||| |||| ||| |||  ||||  
UAG CGU       ACGA   AGUC      ACUU     CAGG   UG  UCCUU  UCACU CGAC G  UCGUACUGGAU GAA CCAA UUC UUA  UACA A
   C   ACACCUU    AAU    ------    ---AC    AUU  -G     CC     C    A UC           C   C    A   G   --    A

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

aly-miR167b-3p      GGUCAUGCUCUGACAGCCUCACU
csi-miR167e-3p      GGUCAUGCUCUGACAGCCUCACU
stu-miR167c-3p      GGUCAUGCUCGGACAGCCUCACU
osa-miR167c-3p      GGUCAUGCUGCGGCAGCCUCACU
zma-miR167d-3p      GGUCAUGCUGCUGCAGCCUCACU
zma-miR167c-3p      GAUCAUGCUGUGGCAGCCUCACU
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