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-miR2118c

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UUCCUAAUGCCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GGAAGAGGAAGUAAAGAUGAUCUAAGAGCAGUGGGCAUGGGAACAUGGAGGAAGGCCUAUGAGGUUGAAACCUCAUUUUGUGUCUUCCUAAUGCCUCCCAUUCCUAUCGUUCUUAGGUGAUCCUUCCUCUUGC

miRBase

Precursor miRNA Structure(5'-3') 

 G         UAAA   G          A     C      -A   GG        - --U       U 
G AAGAGGAAG    GAU AUCUAAGAGC GUGGG AUGGGA  CAU  AGGAAGGC C   AUGAGGU G
| |||||||||    ||| |||||||||| ||||| ||||||  |||  |||||||| |   |||||||  
C UUCUCCUUC    CUA UGGAUUCUUG UAUCC UACCCU  GUA  UCCUUCUG G   UACUCCA A
 G         ----   G          C     U      CC   -A        U UUU       A

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