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

sly-miR164b-3p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

CACGUGUUCUCCUUCUCCAAC

miRBase

Precursor miRNA Sequence(5'-3')

GUUGGAGAAGCAGGGCACGUGCAAAUUCUUGUAUUCGACAAUAUAUGCAUUACUAAUGGUAAUGCAUGAAUUUUGCACGUGUUCUCCUUCUCCAAC

miRBase

Precursor miRNA Structure(5'-3') 

          C              -   UUGUAUUCGACAAUAUAU 
GUUGGAGAAG AGGGCACGUGCAAA UUC                  G
|||||||||| |||||||||||||| |||                  C
CAACCUCUUC UCUUGUGCACGUUU AAG                  U
          C              U   UACGUAAUGGUAAUCAUU

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

sly-miR164b-3p      CACGUGUUCUCCUUCUCCAAC
zma-miR164a-3p      CACGUGUUCUCCUUCUCCAUC
ath-miR164c-3p      CACGUGUUCUACUACUCCAAC
aly-miR164c-3p      CACGUGUUCUACUCCUCCAAC
                    ********** ** ***** *