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

mac-miR828

Organism

Musa acuminata

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAGUGAGUAUUCCA

PmiREN

Precursor miRNA Sequence(5'-3')

ATCCTCCCATTGGCAAGGCCTCTTGCTCAAGTGAGTATTCCATTCGCCGCCTCCCCCGGGCCTCACCAATGAAATACTCACCTGGGCAAGATGCATTCCGTGGAAGGAGGCAT

PmiREN

Precursor miRNA Structure(5'-3') 

----A    C    U  C  G  C         A         C    C --CC    C 
     UCCU CCAU GG AA GC UCUUGCUCA GUGAGUAUU CAUU G    GCCU C
     |||| |||| || || || ||||||||| ||||||||| |||| |    |||| C
     AGGA GGUG CC UU CG AGAACGGGU CACUCAUAA GUAA C    CGGG G
UACGG    A    -  -  A  U         C         A    C ACUC    C

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
                    ******* ** ***** *****