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

ptc-miR1446d

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UUCUGAACUCUCUCCCUCAA

miRBase

Precursor miRNA Sequence(5'-3')

CCAACUUCUUCUGAACUCUCUCCCUCAACUGCUACUCUAGAUCUUGCCAAUCCCUGUCAAGUGUUUCUGUGUAGCAGUCGAGGUGAGAGGUUCAGGAAAUGUUGG

miRBase

Precursor miRNA Structure(5'-3') 

     UUC        U     -    A        U -U    -    C  A 
CCAAC   UUCUGAAC CUCUC CCUC ACUGCUAC C  AGAU CUUG CA U
|||||   |||||||| ||||| |||| |||||||| |  |||| |||| || C
GGUUG   AGGACUUG GAGAG GGAG UGACGAUG G  UUUG GAAC GU U
     UAA        -     U    C        U UC    U    U  C

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

gma-miR1446       UUCUGAACUCUCUCCCUCAAU
ptc-miR1446a      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446b      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446c      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446d      UUCUGAACUCUCUCCCUCAA-
ptc-miR1446e      UUCUGAACUCUCUCCCUCAA-
mes-miR1446       UUCUGAACUCUCUCCCUCAU-
                  *******************