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

mes-miR159b

Organism

Manihot esculenta

Species

Mature miRNA Sequence(5'-3')

UUUGGAUUGAAGGGAGCUCUA

miRBase

Precursor miRNA Sequence(5'-3')

AGGGUUAAGAAGUGGAGCUCCUUAAAGUCCAAUAGAGGAUCUUGCAGGGUAGAUUGAGCUGCUGAGCUAUGGAUACCACAGCCCUAUCCCAUAAUAAAAGGGAGUUCUUUUUUUCAAGUCUUCUUGGAUAGGCUUGUGGCUUGCAUAUCUCUGGAGCUUCAUUACCUUAUUAUGUUAGAUCCUUGUUUGGAUUGAAGGGAGCUCUACAUCUAAAUCUU

miRBase

Precursor miRNA Structure(5'-3') 

A     A   A            AA       UA        U   -----      AUU     G U   C    G UA      C       CAUAAUAAA      UU   UU 
 GGGUU AGA GUGGAGCUCCUU  AGUCCAA  GAGGAUCU GCA     GGGUAG   GAGCU C GAG UAUG A  CCACAG CCUAUCC         AGGGAG  CUU  U
 ||||| ||| ||||||||||||  |||||||  |||||||| |||     ||||||   ||||| | ||| |||| |  |||||| |||||||         ||||||  |||   
 UCUAA UCU CAUCUCGAGGGA  UUAGGUU  UUCCUAGA UGU     UCCAUU   UUCGA G CUC AUAC U  GGUGUU GGAUAGG         UUCUUC  GAA  C
U     A   A            AG       UG        U   AUUAU      -AC     G U   U    G UC      C       ---------      -U   CU

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

osa-miR159f           CUUGGAUUGAAGGGAGCUCUA-
bdi-miR159a-3p        CUUGGAUUGAAGGGAGCUCU--
cru-miR159a           UUUGGAUUGAAGGGAGCUCUU-
ath-miR159b-3p        UUUGGAUUGAAGGGAGCUCUU-
aly-miR159b-3p        UUUGGAUUGAAGGGAGCUCUU-
lus-miR159c           UUUGGAUUGAAGGGAGCUCUU-
bol-miR159a           UUUGGAUUGAAGGGAGCUCU--
pha-miR159c           UUUGGAUUGAAGGGAGCUCUG-
bdi-miR159c           UUUGGUUUGAAGGGGGCUCUG-
pvi-miR159b           UUUGGAUUGAAGGGAGCUCUG-
pvi-miR159d           UUUGGAUUGAAGGGAGCUCUG-
pvi-miR159e           UUUGGAUUGAAGGGAGCUCUG-
pvi-miR159f           UUUGGAUUGAAGGGAGCUCUG-
tae-miR159a           UUUGGAUUGAAGGGAGCUCUG-
tae-miR159b           UUUGGAUUGAAGGGAGCUCUG-
hvu-miR159a           UUUGGAUUGAAGGGAGCUCUG-
hvu-miR159b           UUUGGAUUGAAGGGAGCUCUG-
osa-miR159a.1         UUUGGAUUGAAGGGAGCUCUG-
osa-miR159b           UUUGGAUUGAAGGGAGCUCUG-
sbi-miR159a           UUUGGAUUGAAGGGAGCUCUG-
zma-miR159a-3p        UUUGGAUUGAAGGGAGCUCUG-
zma-miR159b-3p        UUUGGAUUGAAGGGAGCUCUG-
zma-miR159f-3p        UUUGGAUUGAAGGGAGCUCUG-
zma-miR159j-3p        UUUGGAUUGAAGGGAGCUCUG-
zma-miR159k-3p        UUUGGAUUGAAGGGAGCUCUG-
bdi-miR159b-3p.1      UUUGGAUUGAAGGGAGCUCUG-
bol-miR159b           UUUGGAUUGAAGGGAGCUCU--
mdm-miR159f           UUUGGAUUGAAGGGAGCUCUA-
fve-miR159a-3p        UUUGGAUUGAAGGGAGCUCUA-
mdm-miR159e           UUUGGAUUGAAGGGAGCUCUA-
mdm-miR159d           UUUGGAUUGAAGGGAGCUCUA-
atr-miR159            UUUGGAUUGAAGGGAGCUCUA-
cpa-miR159a           UUUGGAUUGAAGGGAGCUCUA-
ppe-miR159            UUUGGAUUGAAGGGAGCUCUA-
mes-miR159b           UUUGGAUUGAAGGGAGCUCUA-
mes-miR159a-3p        UUUGGAUUGAAGGGAGCUCUA-
gma-miR159e-3p        UUUGGAUUGAAGGGAGCUCUA-
csi-miR159a-3p        UUUGGAUUGAAGGGAGCUCUA-
aly-miR159a-3p        UUUGGAUUGAAGGGAGCUCUA-
rco-miR159            UUUGGAUUGAAGGGAGCUCUA-
pvu-miR159a.1         UUUGGAUUGAAGGGAGCUCUA-
mtr-miR159a           UUUGGAUUGAAGGGAGCUCUA-
sly-miR159            UUUGGAUUGAAGGGAGCUCUA-
vvi-miR159c           UUUGGAUUGAAGGGAGCUCUA-
ptc-miR159b           UUUGGAUUGAAGGGAGCUCUA-
ptc-miR159a           UUUGGAUUGAAGGGAGCUCUA-
gma-miR159a-3p        UUUGGAUUGAAGGGAGCUCUA-
ath-miR159a           UUUGGAUUGAAGGGAGCUCUA-
zos-miR159            UUUGGAUUGAAGGGAGCUCUA-
mac-miR159e           UUUGGAUUGAAGGGAGCUCUA-
mac-miR159d           UUUGGAUUGAAGGGAGCUCUA-
mac-miR159b           UUUGGAUUGAAGGGAGCUCUA-
mac-miR159a           UUUGGAUUGAAGGGAGCUCUA-
esa-miR159b           UUUGGAUUGAAGGGAGCUCUA-
cru-miR159b           UUUGGAUUGAAGGGAGCUCUA-
bra-miR159d           UUUGGAUUGAAGGGAGCUCUA-
bra-miR159b           UUUGGAUUGAAGGGAGCUCUA-
bra-miR159a           UUUGGAUUGAAGGGAGCUCUA-
bol-miR159c           UUUGGAUUGAAGGGAGCUCU--
osa-miR159c           AUUGGAUUGAAGGGAGCUCCA-
zma-miR159e-3p        AUUGGUUUGAAGGGAGCUCCA-
bra-miR159c           UUUGGAUUGAAGGGAGCUCC--
esa-miR159a           UUUGGAUUGAAGGGAGCUCC--
lus-miR159b           UUUGGAUUGAAGGGAGCUCUC-
fve-miR159b           AUUGGAUUGAAGGGAGCUCUC-
sly-miR159b           -UUGGAAAGAAGGGAGCUCUAC
zma-miR159h-3p        UUUGGAGUGAAGGGAGCUCUG-
zma-miR159g-3p        UUUGGAGUGAAGGGAGUUCUG-
zma-miR159i-3p        UUUGGAGUGAAGGGAGCUCUG-
ptc-miR159c           AUUGGAGUGAAGGGAGCUCGA-
lus-miR159a           AUUGGAGUGAAGGGAGCUCGA-
mes-miR159c           AUUGGAGUGAAGGGAGCUCUG-
mes-miR159d           AUUGGAGUGAAGGGAGCUCUG-
vvi-miR159a           CUUGGAGUGAAGGGAGCUCUC-
vvi-miR159b           CUUGGAGUGAAGGGAGCUCUC-
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