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-miR2118d

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCCCAUGCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GUGGAUCAGGAAGAGGAAGAAAAGAGGGUCUGAGAGCGGUGGGCAUGGGAACAUGGAGGAAAGCCCAAACUCUUCUUCGCCUCUAGAACUAGGGGCUGAGAUUUGGUUUCCUUGUUUUCCUGAUGCCUCCCAUGCCUAUUGUUCUCAGAUGCUCCUUCCUCUUCCUUUUGGUUCGC

miRBase

Precursor miRNA Structure(5'-3') 

        ---           AAAA   G                       -A   GG        --CC     -CU    C       G 
GUGGAUCA   GGAAGAGGAAG    GAG GUCUGAGAGCGGUGGGCAUGGGA  CAU  AGGAAAGC    AAACU   UCUU GCCUCUA A
||||||||   |||||||||||    ||| |||||||||||||||||||||||  |||  ||||||||    |||||   |||| |||||||  
CGCUUGGU   CCUUCUCCUUC    CUC UAGACUCUUGUUAUCCGUACCCU  GUA  UCCUUUUG    UUUGG   AGAG CGGGGAU U
        UUU           ----   G                       CC   -G        UUCC     UUU    U       C

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
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