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

csi-miR9560-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UCAUAUUUGCUCCACCACCUGUGG

miRBase

Precursor miRNA Sequence(5'-3')

CAAGGUGUGAUUCUGAAUGCACAGGAGGUGGAACAAAUAUGAAAUUUUCAUUGAAAUUCAUAUUUGCUCCACCACCUGUGGAUUCAAAUUCAGCCUUAGAGAU

miRBase

Precursor miRNA Structure(5'-3') 

-----C     G   UUC     G      A      A          A   U 
      AAGGU UGA   UGAAU CACAGG GGUGGA CAAAUAUGAA UUU C
      ||||| |||   ||||| |||||| |||||| |||||||||| ||| A
      UUCCG ACU   ACUUA GUGUCC CCACCU GUUUAUACUU AAG G
UAGAGA     -   UAA     G      A      C          A   U

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

bra-miR9560a        --ACAGGUGGUGGAACAAAUAUGAGU
bra-miR9560b        --ACAGGUGGUGGAACAAAUAUGAGU
csi-miR9560-5p      --ACAGGAGGUGGAACAAAUAUGAAA
csi-miR9560-3p      UCAUAUUUGCUCCACCACCUGUGG--
                      * *   * *  * **  * **