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

dca-miR156-b2.0r1-17334

Organism

Daucus carota

Species

Mature miRNA Sequence(5'-3')

GCUCUCUAUGCUUCUGUCAUC

Plant sRNA Gene (Penn State Uni)

Precursor miRNA Sequence(5'-3')

AGAGAGGGAGGCACAGGUGAUGUUGUUGACAGAAGAUAGAGAGCACAGAUGAUGAAGUGCAGCAAGAGCCUGCAUCUCACUCCUUUGUGCUCUCUAUGCUUCUGUCAUCAUCCUUAAUUCAGCCCCCUCAAA

Precursor miRNA Structure(5'-3') 

AGA     A   ACAGG   U U  U         -              U  -   A      - A 
   GAGGG GGC     UGA G UG UGACAGAAG AUAGAGAGCACAGA GA UGA GUGCAG C A
   ||||| |||     ||| | || ||||||||| |||||||||||||| || ||| |||||| |  
   CUCCC CCG     AUU C AC ACUGUCUUC UAUCUCUCGUGUUU CU ACU UACGUC G G
AAA     -   ACUUA   C U  U         G              C  C   C      C A

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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