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

mdm-miR171l

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UUGAGCCGCGCCAAUAUCACU

miRBase

Precursor miRNA Sequence(5'-3')

GAGAAAGCGAUGUUGGUGAGGUUCAAUCCGAAGACAGAUUUACACAUCCCUGCUGGCGUAAAUUGAUCUCAGAUUGAGCCGCGCCAAUAUCACUUUCUU

miRBase

Precursor miRNA Structure(5'-3') 

       C          A         C  A  CA       ACAUC  U 
GAGAAAG GAUGUUGGUG GGUUCAAUC GA GA  GAUUUAC     CC G
||||||| |||||||||| ||||||||| || ||  |||||||     ||  
UUCUUUC CUAUAACCGC CCGAGUUAG CU CU  UUAAAUG     GG G
       A          G         A  -  AG       ----C  U

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

dca-miR171-b2.0r1-12261      ---UUGAGCCGCGCCAAUAUCACU-
spo-miR171d                  ---UUGAGCCGCGCCAAUAUCACU-
vvi-miR171f                  ---UUGAGCCGCGCCAAUAUCACU-
gma-miR171k-3p               ---UUGAGCCGCGCCAAUAUCACU-
ppe-miR171b                  ---UUGAGCCGCGCCAAUAUCACU-
mdm-miR171j                  ---UUGAGCCGCGCCAAUAUCACU-
mdm-miR171k                  ---UUGAGCCGCGCCAAUAUCACU-
mdm-miR171l                  ---UUGAGCCGCGCCAAUAUCACU-
mes-miR171e                  ---UUGAGCCGCGCCAAUAUCACU-
fve-miR171f-3p               ---UUGAGCCGCGCCAAUAUCACU-
sly-miR171d                  ---UUGAGCCGCGCCAAUAUCAC--
ppt-miR171b                  ---UUGAGCCGCGCCAAUAUCACA-
mes-miR171c                  ---UUGAGCCGUGCCAAUAUCACG-
stu-miR171d-3p               ---UUGAGCCGUGCCAAUAUCACG-
mes-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
mdm-miR171f-3p               ---UUGAGCCGUGCCAAUAUCACG-
lus-miR171i                  ---UUGAGCCGUGCCAAUAUCACG-
gma-miR171i-3p               ---UUGAGCCGUGCCAAUAUCACG-
aly-miR171c-3p               ---UUGAGCCGUGCCAAUAUCACG-
aly-miR171b-3p               ---UUGAGCCGUGCCAAUAUCACG-
rco-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
rco-miR171a                  ---UUGAGCCGUGCCAAUAUCACG-
sly-miR171b-3p               ---UUGAGCCGUGCCAAUAUCACG-
mtr-miR171f                  ---UUGAGCCGUGCCAAUAUCACG-
ptc-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
ptc-miR171a-3p               ---UUGAGCCGUGCCAAUAUCACG-
ath-miR171c-3p               ---UUGAGCCGUGCCAAUAUCACG-
ath-miR171b-3p               ---UUGAGCCGUGCCAAUAUCACG-
tae-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
pvi-miR171l                  ---UUGAGCCGUGCCAAUAUCACG-
esa-miR171e                  ---UUGAGCCGUGCCAAUAUCACG-
esa-miR171d                  ---UUGAGCCGUGCCAAUAUCACG-
cru-miR171c                  ---UUGAGCCGUGCCAAUAUCACG-
cru-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
bra-miR171d                  ---UUGAGCCGUGCCAAUAUCACG-
bra-miR171c                  ---UUGAGCCGUGCCAAUAUCACG-
bra-miR171b                  ---UUGAGCCGUGCCAAUAUCACG-
bra-miR171a                  ---UUGAGCCGUGCCAAUAUCACG-
csi-miR171a                  ---UUGAGCCGUGCCAAUAUCAC--
zma-miR171b-3p               ---UUGAGCCGUGCCAAUAUCAC--
smo-miR171a                  ---UUGAGCCGUGCCAAUAUCACU-
zma-miR171f-3p               ---UUGAGCCGUGCCAAUAUCACA-
gma-miR171c-3p               ---UUGAGCCGUGCCAAUAUCACA-
gma-miR171o-3p               ---UUGAGCCGUGCCAAUAUCACA-
gma-miR171q                  ---UUGAGCCGUGCCAAUAUCACA-
mdm-miR171m                  ---UUGAGCCGUGCCAAUAUCACA-
mdm-miR171n                  ---UUGAGCCGUGCCAAUAUCACA-
atr-miR171b                  ---UUGAGCCGUGCCAAUAUCACA-
ppt-miR171a                  ----UGAGCCGCGCCAAUAUCACAU
smo-miR171d                  ----UGAGCCGCGCCAAUAUCACAU
smo-miR171b                  ----UGAGCCGUGCCAAUAUCACAU
mac-miR170a                  ---UUGAGCCGCGUCAAUAUCUCU-
mac-miR170b                  ---UUGAGCCGCGUCAAUAUCUCU-
mac-miR170c                  ---UUGAGCCGCGUCAAUAUCUCU-
mac-miR170d                  ---UUGAGCCGCGUCAAUAUCUCU-
stu-miR171b-3p               ---UUGAGCCGCGUCAAUAUCUCU-
sly-miR171e                  ---UUGAGCCGCGUCAAUAUCUCU-
pha-miR171h                  ---UUGAGCCGCGUCAAUAUCUCC-
pvi-miR171n                  ---UUGAGCCGCGUCAAUAUCUCC-
pvi-miR171o                  ---UUGAGCCGCGUCAAUAUCUCC-
sit-miR170                   ---UUGAGCCGCGUCAAUAUCUCC-
gma-miR171m                  ---UUGAGCCGCGUCAAUAUCUCA-
pha-miR171i                  ---UUGAGCCGCGCCAAUAUCUCU-
bra-miR171g                  ---UUGAGCCGUGCCAAUAUCUCU-
smo-miR171c                  ---UUGAGUCGCGCCAAUAUCAUG-
bra-miR171e                  UGAUUGAGCCGCGCCAAUAUC----
bra-miR171f                  UGAUUGAGCCGCGCCAAUAUC----
cru-miR171a                  UGAUUGAGCCGCGCCAAUAUC----
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