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

mes-miR828a

Organism

Manihot esculenta

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

CCUCCUUGUAAUGUUUCUUGCUCAAAUGAGUAUUCCAAUCACAGUUGCAUUUUGCAUACACAAUCUCCUUUGCUUUUCUUUCAGUAUCUCCACUGUAAAUUUUGUGGUUGCUGAUGCUGCUGUGUCUCUGAGAUGCUCAUUUGAGCAAGUAAUGUUAUAAUGGGAGG

miRBase

Precursor miRNA Structure(5'-3') 

      --         U                  C  --AU      U     UU   UA     UCUCC     UUUUCUUUC 
CCUCCU  UGUAAUGUU CUUGCUCAAAUGAGUAUU CA    CACAGU GCAUU  GCA  CACAA     UUUGC         A
||||||  ||||||||| |||||||||||||||||| ||    |||||| |||||  |||  |||||     |||||         G
GGAGGG  AUAUUGUAA GAACGAGUUUACUCGUAG GU    GUGUCG CGUAG  CGU  GUGUU     AAAUG         U
      UA         U                  A  CUCU      U     -U   UG     ---UU     UCACCUCUA

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

ath-miR828          UCUUGCUUAAAUGAGUAUUCCA
aly-miR828-5p       UCUUGCUUAAAUGAGUAUUCCA
lus-miR828a         UCUUGCUCAAAUGAGUGUUCCA
mes-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mes-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828b-5p      UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ppe-miR828-5p       UCUUGCUCAAAUGAGUAUUCCA
gma-miR828b         UCUUGCUCAAAUGAGUAUUCCA
gma-miR828a         UCUUGCUCAAAUGAGUAUUCCA
vvi-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mac-miR828          UCUUGCUCAAGUGAGUAUUCCA
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