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-miR168b-3p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

CCCGCCUUGCAUCAACUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

GGUCUCUAAUUCGCUUGGUGCAGGUCGGGAACUGAUUCGGCGAUUUGAUUGCCAGAUGGCUAAACACGAUUGGCUGUGAGGCAAAUUAUAAAAAGAAAGAGAAUUGGAUCCCGCCUUGCAUCAACUGAAUCGGAGA

miRBase

Precursor miRNA Structure(5'-3') 

GG     A     C          U     A       ---GG --GAUU     -   AG        AC 
  UCUCU AUUCG UUGGUGCAGG CGGGA CUGAUUC     C      UGAUU GCC  AUGGCUAA  A
  ||||| ||||| |||||||||| ||||| |||||||     |      ||||| |||  ||||||||   
  AGAGG UAAGU AACUACGUUC GCCCU GGUUAAG     G      AUUAA CGG  UGUCGGUU  A
--     C     C          C     A       AGAAA AAAAAU     A   AG        AG

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

zma-miR168a-3p      ---CCCGCCUUGCACCAAGUGAA-
bdi-miR168-3p       ---CCCGCCUUGCACCAAGUGAAU
hvu-miR168-3p       GAUCCCGCCUUGCACCAAGUGAAU
osa-miR168a-3p      GAUCCCGCCUUGCACCAAGUGAAU
zma-miR168b-3p      ---CCCGCCUUGCAUCAAGUGAA-
csi-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168a-3p      ---CCUGCCUUGCAUCAACUGAAU
fve-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
mtr-miR168c-3p      ---CCCGCCUUGCAUCAACUGAAU
aly-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ath-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
esa-miRN1029        --UCCCGACU-GCAUCAACUGAAU
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