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-miR2118b

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCCGAUGCCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

AUGAGCGAGGAAGAGGAAGAAAGAGGUAGUCUAAGAGCAGUGGGAAUGGGAACAUAGAGGAAAAAUGAGCUCUCAGUGUUCACUUCUGGAAGUGGAGGUGGAUAUUUGUCUCAGUAUUUUUCCCGAUGCCUCCCAUUCCUAUCGUUCUUAGGUGCUCCUUCCUCUUCCUUUCAGCUCAU

miRBase

Precursor miRNA Structure(5'-3') 

      ---             AAA   G  G         A            -A   A A       ---    CU UC              G 
AUGAGC   GAGGAAGAGGAAG   GAG UA UCUAAGAGC GUGGGAAUGGGA  CAU G GGAAAAA   UGAG  C  AGUGUUCACUUCUG A
||||||   |||||||||||||   ||| || ||||||||| ||||||||||||  ||| | |||||||   ||||  |  ||||||||||||||  
UACUCG   UUCCUUCUCCUUC   CUC GU GGAUUCUUG UAUCCUUACCCU  GUA C CCUUUUU   ACUC  G  UUAUAGGUGGAGGU U
      ACU             ---   -  -         C            CC   G -       AUG    -U -U              G

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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