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-miR2118a

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCUCGAUGCCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GGGAAGAGGAAGAAAGAGAGGCUCCAAGAGUAGUAGGACUGGGAACAUAUGAGAAAGCAUGAGCUCUAUCCAUCUAUCCAUCCCCUCCCAUUCGCUAGAAUGUUGCAGGUGGAGAUUUCGCUCUUAUGUUUUCUCGAUGCCUCCCAUUCCUAUCGUUCUUGGAACUUCCUUCCUCUUCC

miRBase

Precursor miRNA Structure(5'-3') 

G           AAAGA    C        UA      C     -A   A           --    UCU   CAUCUA      CCCUCC     G 
 GGAAGAGGAAG     GAGG UCCAAGAG  GUAGGA UGGGA  CAU UGAGAAAGCAU  GAGC   AUC      UCCAUC      CAUUC C
 |||||||||||     |||| ||||||||  |||||| |||||  ||| |||||||||||  ||||   |||      ||||||      |||||  
 CCUUCUCCUUC     CUUC AGGUUCUU  UAUCCU ACCCU  GUA GCUCUUUUGUA  CUCG   UAG      AGGUGG      GUAAG G
-           -----    A        GC      U     CC   -           UU    CUU   ------      -ACGUU     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
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