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

bdi-miR845

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGCUCUGAUACCAAUUGUUGG

miRBase

Precursor miRNA Sequence(5'-3')

UGAUUUUCUUGCUCUGAUACCAAUUGUUGGUAUCAGUAACCUCUGAUACCUAGAUCGUCUGCACCAACAAUUCGUAUCAGAGCGAGAGAAUCAAU

miRBase

Precursor miRNA Structure(5'-3') 

--                    C          AU   UAACC    A 
  UGAUUUUCUUGCUCUGAUAC AAUUGUUGGU  CAG     UCUG U
  |||||||||||||||||||| ||||||||||  |||     |||| A
  ACUAAGAGAGCGAGACUAUG UUAACAACCA  GUC     AGAU U
UA                    C          -C   -UGCU    C

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

vvi-miR845a          UAGCUCUGAUACCAAUU-GAUA----
vvi-miR845b          UAGCUCUGAUACCAAUU-GAUA----
bra-miR845           CGGCUCUGAUACCAAUU-GAUG----
esa-miR845           CGGCUCUGAUACCAAUU-GAUG----
ath-miR845a          CGGCUCUGAUACCAAUU-GAUG----
vvi-miR845c          AGGCUCUGAUACCAAUU-GAUG----
vvi-miR845d          UGGCUCUGAUACCAAUU-GAUG----
vvi-miR845e          UGGCUCUGAUACCAAUU-GAUG----
aly-miR845b-3p       UCGCUCUGAUACCAAAU-GAUG----
ath-miR845b          UCGCUCUGAUACCAAAUUGAUG----
ath-miR829-3p.1      -AGCUCUGAUACCAAAU-GAUGGAAU
bdi-miR845           -UGCUCUGAUACCAAUU-GUUGG---
                       ************* * * *