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-miR171a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

UCGUUUUUUAUAUUGUUUUCCUUUGAUCUAUCACUUAAGCACGAGAGAGUCCCUUUGAUAUUGGCCUGGUUCACUCAGAUCUUCCCUGACCACACUCACGUCGUACAUAUGCAUUCUCUCUAGAUUAUCUGAUUGAGCCGCGCCAAUAUCUCAGUACUCUCUCGUCUCUAUUUUGGACUUUGUGAUCUUGUAAAUCGA

miRBase

Precursor miRNA Structure(5'-3') 

   UUU      UU   UUCCUUU A    UCACUUA  C          CC  UU         C       C      CU  CCUGACCACACUCACGUC 
UCG   UUUAUA  GUU       G UCUA       AG ACGAGAGAGU  CU  GAUAUUGGC UGGUUCA UCAGAU  UC                  G
|||   ||||||  |||       | ||||       || ||||||||||  ||  ||||||||| ||||||| ||||||  ||                   
AGC   AAAUGU  UAG       C AGGU       UC UGCUCUCUCA  GA  CUAUAACCG GCCGAGU AGUCUA  AG                  C
   --U      UC   --UGUUU -    -UUUAUC  -          -U  CU         C       U      UU  AUCUCUCUUACGUAUACA

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

bra-miR170          UAUUGGCCUGGUUCACUCAGA
ath-miR170-5p       UAUUGGCCUGGUUCACUCAGA
ath-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
aly-miR170-5p       UAUUGGCCUGGUUCACUCAGA
aly-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
gma-miR171j-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171c-5p      UAUUGGCCUGGUUCACUCAGA
sly-miR171f         UAUUGGCCUGGUUCACUCAGA
csi-miR171f-5p      UAUUGGCCUGGUUCACUCAGA
zma-miR171a-5p      UAUUGGCGAGGUUCAAUCAGA
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