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

bra-miR170

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

PmiREN

Precursor miRNA Sequence(5'-3')

CACTAGAGAGTCCTCTTTGATATTGGCCTGGTTCACTCAGATCTTCTCGAACCACACCACGGACAGCTCTCTTAGTTATCTGATTGAGCCGCGTCAATATCTCAGTGCTCTCTCGTCTCTC

PmiREN

Precursor miRNA Structure(5'-3') 

----C  U       CCU  UU         C       C      CUUCUCGAACCACACC 
     AC AGAGAGU   CU  GAUAUUGGC UGGUUCA UCAGAU                A
     || |||||||   ||  ||||||||| ||||||| ||||||                C
     UG UCUCUCG   GA  CUAUAACUG GCCGAGU AGUCUA                A
CUCUC  C       --U  CU         C       U      UUGAUUCUCUCGACAG

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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