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-miR1446e

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UUCUGAACUCUCUCCCUCAA

miRBase

Precursor miRNA Sequence(5'-3')

CCAACUUUUUCUGAACUCUCUCCCUCAACUGCUAUUCUAGAGCUUGUUAAUCCUUGUCAAGUGUUUCCCUGUAGCAGUCGAGGCGAGGGGGUUUCGGAAAAUGUUGG

miRBase

Precursor miRNA Structure(5'-3') 

     U         -       -    A        --UCUAGA     UUAA 
CCAAC UUUUCUGAA CUCUCUC CCUC ACUGCUAU        GCUUG    U
||||| ||||||||| ||||||| |||| ||||||||        |||||    C
GGUUG AAAAGGCUU GGGGGAG GGAG UGACGAUG        UGAAC    U
     U         U       C    C        UCCCUUUG     UGUU

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-
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