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

csi-miR156f-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

AUGACAGAAGAGAGAGAGUAC

miRBase

Precursor miRNA Sequence(5'-3')

GGUAACUUGCUUAACUAUGAACUUGGUUCGAUGACAGAAGAGAGAGAGUACAACCCGCCAUUAGCUAAAGAGUCUUUGCUUUUGUUGGGAGUGUGCUCUCUCUUCUCCUGUCAUUGAGUUAUUUUUAUUUGUCAUUUAAUUAUUUG

miRBase

Precursor miRNA Structure(5'-3') 

-GGUAACUUGCUUA  -U     CU              A   -           -A    C  UU   U      
              AC  AUGAA  UGGUUCGAUGACAG AGA GAGAGAGUACA  CCCG CA  AGC AAAGA 
              ||  |||||  |||||||||||||| ||| |||||||||||  |||| ||  ||| |||| G
              UG  UAUUU  AUUGAGUUACUGUC UCU CUCUCUCGUGU  GGGU GU  UCG UUUCU 
GUUUAUUAAUUUAC  UU     UU              C   U           GA    U  UU   -

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

zma-miR156j-3p      UGCUCUCUGCUCUCACUGUCAUC
zma-miR156e-3p      -GCUCACUGCUCUCUCUGUCAUC
bdi-miR156h-3p      -GCUCACUGCUCUUCCUGUCAUC
csi-miR156f-5p      --AUGACAGAAGAGAGAGAGUAC
                       *  * *        *    *