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

aly-miR157a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCUCUCUAGCCUUCUGUCAUCA

miRBase

Precursor miRNA Sequence(5'-3')

GAGGCAUUGAGAGUGUUGACAGAAGAUAGAGAGCACAGAUGAUAAGAUACAAUUCGGAGCAGUUUCUUUGCAUCUUACUCCUUUGUGCUCUCUAGCCUUCUGUCAUCACCUUUUAUUUGCUUU

miRBase

Precursor miRNA Structure(5'-3') 

      -U      -  U         -A             U  -      A   UUC    C 
GAGGCA  UGAGAG UG UGACAGAAG  UAGAGAGCACAGA GA UAAGAU CAA   GGAG A
||||||  |||||| || |||||||||  ||||||||||||| || |||||| |||   ||||  
UUUCGU  AUUUUC AC ACUGUCUUC  AUCUCUCGUGUUU CU AUUCUA GUU   UCUU U
      UU      C  U         CG             C  C      C   ---    U

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

ath-miR157a-3p               GCUCUCUAGCCUUCUGUCAUC-
ath-miR157b-3p               GCUCUCUAGCCUUCUGUCAUC-
aly-miR157a-3p               GCUCUCUAGCCUUCUGUCAUCA
mtr-miR156g-3p               GCUCUCUAGACUUCUGUCAUC-
aly-miR157d-3p               GCUCUCUAUGCUUCUGUCAUC-
fve-miR156g-3p               GCUCUCUAUGCUUCUGUCAUC-
dca-miR156-b2.0r1-17334      GCUCUCUAUGCUUCUGUCAUC-
stu-miR156d-3p               GCUCUCUAUGCUUCUGUCAUCA
csi-miR156e-3p               GCUCUCUGUGCUUCUGUCAUCA
aly-miR157b-3p               GCUCUCUAAGCUUCUGUCAUCA
csi-miR156g-3p               GCUCUCUAUUCUUCUGUCAUC-
mtr-miR156h-3p               GCUCUUUAUUCUUCUGUCAUC-
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