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

mtr-miR5281a

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

CUCUUGUAAAUAGGAUCGGAGGGA

miRBase

Precursor miRNA Sequence(5'-3')

UUGUGACAUACUCCCUUCGGUCCUAUUUACAAGAGAAAUUUGACUUUUUAGAUACAUUAAAUAAUGUAUGUAUCUAAUCAAGAAUCUAAACCAAAUACAUAAAUUAUUUAAUGUAUCUAAAAAGUAAAUUGUCUCUUGUAAAUAGGAUCGGAGGGAGUGUAUAUACUC

miRBase

Precursor miRNA Structure(5'-3') 

UU   -AC                             -      A                      G       CUAAUCAAG 
  GUG   AUACUCCCUUCGGUCCUAUUUACAAGAGA AAUUUG CUUUUUAGAUACAUUAAAUAAU UAUGUAU         A
  |||   ||||||||||||||||||||||||||||| |||||| |||||||||||||||||||||| |||||||         A
  CAU   UGUGAGGGAGGCUAGGAUAAAUGUUCUCU UUAAAU GAAAAAUCUAUGUAAUUUAUUA AUACAUA         U
CU   AUA                             G      -                      A       AACCAAAUC

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

mtr-miR5281e      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281f      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281d      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281c      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281b      -UCUUAUAAAUAGGACCGGAGGGAG
bdi-miR5281b      -UCUUAUAAAUAGGAACGGAGG---
bdi-miR5281a      -UCUUAUAAAUAGGAACGGAGG---
mtr-miR5281a      CUCUUGUAAAUAGGAUCGGAGGGA-
ptc-miR7815       -CUCUUCAAAUAA-AUCGUGGGA--
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