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

osa-miR2118m

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GGUGAGCCAGGAAGAGGAUAGAGACUCUAAGAGCAGUAGGAAUGGGAACAUGAAGGAAAGCCAAACCAAGCUCUAACUCCUGGAGUUGGAGAUUUGGUAUAACGAUUUUCCUGAUGCCUCCCAUUCCUACAGUUCUUAGGUCCUUGUUCCUCUUACUUUCGGCUAACACC

miRBase

Precursor miRNA Structure(5'-3') 

    --    --   -       UA   -  U        A            -A   GA       - --CAA      -           
GGUG  AGCC  AGG AAGAGGA  GAG AC CUAAGAGC GUAGGAAUGGGA  CAU  AGGAAAG C     ACCAAG CUCUAACUCC 
||||  ||||  ||| |||||||  ||| || |||||||| ||||||||||||  |||  ||||||| |     |||||| ||||||||| U
CCAC  UCGG  UUC UUCUCCU  UUC UG GAUUCUUG CAUCCUUACCCU  GUA  UCCUUUU G     UGGUUU GAGGUUGAGA 
    AA    CU   A       UG   C  -        A            CC   -G       A CAAUA      A

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

osa-miR2118m      UUCCUGAUGCCUCCCAUUCCUA
bdi-miR2118b      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118j      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118f      UUCCUGAUGCCUCCCAUUCCUA
zma-miR2118e      UUCCUGAUGUCUCCCAUUCCUA
osa-miR2118h      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118k      UUCCUGAUGCCUCUCAUUCCUA
zma-miR2118a      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118p      UUCCCGAUGCCUCCCAUGCCUA
osa-miR2118d      UUCCUGAUGCCUCCCAUGCCUA
osa-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118n      UUCCCGAUGCCUCCCAUUCCUA
zma-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118a      UUCUCGAUGCCUCCCAUUCCUA
bdi-miR2118a      UUUCCGAUGCCUCCCAUUCCUA
osa-miR2118c      UUCCCGAUGCCUCCUAUUCCUA
osa-miR2118q      UUCCCGAUGCCUCCUAUUCCUA
zma-miR2118g      UUCCUGAUGCCUCCUAUUCCUA
                  **   **** ***  ** ****