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

csi-miR156e-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GCUCUCUGUGCUUCUGUCAUCA

miRBase

Precursor miRNA Sequence(5'-3')

AGUGUCAGAGGAGGGAAAUGGGUGAUGCUGGUGACAGAAGAUAGAGAGCGCAGAUGAUGAUAUGCUCUAAUGGAGUUUGUAUAUCACUCCUUUGUGCUCUCUGUGCUUCUGUCAUCAGGCCAAUUCAGUCCCUCCCCUCACUUUCUU

miRBase

Precursor miRNA Structure(5'-3') 

-----    UC  A       AA     GAUG             -              U  -        UCUAA 
     AGUG  AG GGAGGGA  UGGGU    CUGGUGACAGAAG AUAGAGAGCGCAGA GA UGAUAUGC     U
     ||||  || |||||||  |||||    ||||||||||||| |||||||||||||| || ||||||||     G
     UCAC  UC CCUCCCU  ACUUA    GACUACUGUCUUC UGUCUCUCGUGUUU CU ACUAUAUG     G
UUCUU    --  C       -G     ACCG             G              C  C        UUUGA

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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