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

vvi-miR3633a-3p

Organism

Vitis vinifera

Species

Mature miRNA Sequence(5'-3')

UUCCUAUACCACCCAUUCCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GAAAUGGGAGAUGAAUAUUUCGAAAGCAAUAGGAAUGGAUGGUUAGGAGAGAACUCCUCUUAUAUAUUUCUUCAUCUUCUCCGCCGGAGAUGUGGAAGUGCAGUUGGUUCCUAUACCACCCAUUCCCUACGGUUUUCGAAAUUUUCUCCCUUUUC

miRBase

Precursor miRNA Structure(5'-3') 

    U      UGAAU           AA    -     A    -      AG    CCUCUUAUA       U       UC 
GAAA GGGAGA     AUUUCGAAAGC  UAGG AAUGG UGGU UAGGAG  AACU         UAUUUCU CAUCUUC  C
|||| ||||||     |||||||||||  |||| ||||| |||| ||||||  ||||         ||||||| |||||||   
CUUU CCCUCU     UAAAGCUUUUG  AUCC UUACC ACCA AUCCUU  UUGA         GUGAAGG GUAGAGG  C
    U      ---UU           GC    C     C    U      GG    --------C       U       CC

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

zma-miR2118c         UUCCUAAUGCCUCCCAUUCCUA-
osa-miR2118l         UUCCUAAUGCUUCCCAUUCCUA-
osa-miR2118i         UUCCUAGUGCCUCCCAUUCCUA-
vvi-miR3633a-3p      UUCCUA-UACCACCCAUUCCCUA
                     ****** * *  ********