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

zma-miR408b-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CAGGGACGAGGCAGAGCAUGG

miRBase

Precursor miRNA Sequence(5'-3')

GACAGGGACGAGGCAGAGCAUGGGUAGGGGGCCAUCAACAGAAUUCCAAAUUUGAUUUCUGUUUGCUCGCUCACAAAAUGGAGGGACUCACCACAAACACACUCAGGCGUUGUUGCUCCCUCCCCUGCACUGCCUCUUCCCUGGCUC

miRBase

Precursor miRNA Structure(5'-3') 

--GA      C       A   U   U       CAUCAACAGAAUUCCAAAUUUGAUUUCUGUUUGCUCGCUC 
    CAGGGA GAGGCAG GCA GGG AGGGGGC                                        A
    |||||| ||||||| ||| ||| |||||||                                         
    GUCCCU CUCCGUC CGU CCC UCCCUCG                                        A
CUCG      U       A   C   -       UUGUUGCGGACUCACACAAACACCACUCAGGGAGGUAAAA

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

zma-miR408b-5p      -CAGGGACGAGGCAGAGCAUGG
stu-miR408a-5p      ACAGGGACGAGGCAGCGCAUG-
osa-miR408-5p       -CAGGGAUGAGGCAGAGCAUGG
bdi-miR408-5p       -CAGGGAUGGAGCAGAGCAUGG
                     ****** *  **** *****