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

gma-miR171j-5p

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

AUGAAGUAGUUAUUGUGAUAUUGGCCUGGUUCACUCAGACAUGUAUACCACGGCACGGUUGUGUCCUUGCUAGAAAGAUUUAAAACAAAAUACAUGUUGUGAUUGUGGUUUUGGGUUUGAUUGAGCCGUGCCAAUAUCUCAGUGCUAUUUCAU

miRBase

Precursor miRNA Structure(5'-3') 

          U    U         C       C      AUGUAU       -     -U     CC   --C    A 
AUGAAGUAGU AUUG GAUAUUGGC UGGUUCA UCAGAC      ACCACGG CACGG  UGUGU  UUG   UAGA A
|||||||||| |||| ||||||||| ||||||| ||||||      ||||||| |||||  |||||  |||   ||||  
UACUUUAUCG UGAC CUAUAACCG GCCGAGU AGUUUG      UGGUGUU GUGUU  ACAUA  AAC   AUUU U
          -    U         U       U      -GGUUU       A     GU     -A   AAA    A

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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