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.



bol-miR319b
Brassica oleracea

Species
TAGGAAATATAGATAGGTAGGGAGCTTCCTTTAGTCCATTCACAGATCATGATATGATCCAATTAGCTTCCGACTCATCCATCCAAATACCGAGTCACGAAAATTTCAACTTAGACTCGTTAAATGAATGAATGATGCGGTAGACAAATTGGATCATTGATTCTCTCTGATTGGACTGAAGGGAGCTCCCTCCTTTCATTGTTCTAAAATT

PmiREN
----UA    AU  A  U   U                    U   C   UC  G U           A -  U   AC    C   C  AA  C      ACGAAAA 
      GGAA  AU GA AGG AGGGAGCUUCCUUUAGUCCA UCA AGA  AU A AUGAUCCAAUU G CU CCG  UCAU CAU CA  UA CGAGUC       U
      ||||  || || ||| |||||||||||||||||||| ||| |||  || | ||||||||||| | || |||  |||| ||| ||  || ||||||       U
      UCUU  UA CU UCC UCCCUCGAGGGAAGUCAGGU AGU UCU  UA U UACUAGGUUAA C GA GGC  AGUA GUA GU  AU GCUCAG       A
UUAAAA    GU  -  U   -                    U   C   CU  G -           A A  U   GU    A   A  AA  U      AUUCAAC 

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

ath-miR159c                  -UUUGGAUUGAAGGG-AGCUCCU--
aly-miR159c-3p               -UUUGGAUUGAAGGG-AGCUCCU--
osa-miR159e                  -AUUGGAUUGAAGGG-AGCUCCU--
osa-miR159d                  -AUUGGAUUGAAGGG-AGCUCCG--
fve-miR159c                  -AUUGGAUUGAAGGG-AGCUCCC--
zma-miR159c-3p               -CUUGGAUUGAAGGG-AGCUCCU--
zma-miR159d-3p               -CUUGGAUUGAAGGG-AGCUCCU--
sbi-miR159b                  -CUUGGAUUGAAGGG-AGCUCCU--
ptc-miR159d                  -CUUGGAUUGAAGGG-AGCUCCU--
mac-miR159c                  -CUUGGAUUGAAGGG-AGCUCC---
mac-miR159f                  -CUUGGAUUGAAGGG-AGCUCC---
mdm-miR159a                  -CUUGGAUUGAAGGG-AGCUCC---
mdm-miR159b                  -CUUGGAUUGAAGGG-AGCUCC---
cpa-miR159b                  -CUUGGAUUGAAGGG-AGCUCC---
smo-miR159                   -CUUGGAUUGAAGGG-AGCUCCC--
gma-miR319d                  ---UGGACUGAAGGGGAGCUCCUUC
gma-miR319o                  ---UGGACUGAAGGGGAGCUCCUUC
gma-miR319q                  ---UGGACUGAAGGG-AGCUCCUUC
gma-miR319i                  --UUGGACUGAAGGGGAGCUCCUUC
bra-miR319f                  --UUGGACUGAAGGG-AGCUCCUUC
bra-miR319g                  --UUGGACUGAAGGG-AGCUCCUUC
bra-miR319h                  --UUGGACUGAAGGG-AGCUCCUUC
gma-miR319g                  --UUGGACUGAAGGG-AGCUCCUUC
gma-miR319l                  --UUGGACUGAAGGG-AGCUCCUUC
bra-miR319e                  --UUGGACUGAAGGG-AGCUCCUU-
esa-miR319a                  --UUGGACUGAAGGG-AGCUCCUU-
ath-miR319c                  --UUGGACUGAAGGG-AGCUCCUU-
pvu-miR319c                  --UUGGACUGAAGGG-AGCUCCUU-
rco-miR319d                  --UUGGACUGAAGGG-AGCUCCUU-
aly-miR319c-3p               --UUGGACUGAAGGG-AGCUCCUU-
aly-miR319d-3p               --UUGGACUGAAGGG-AGCUCCUU-
mes-miR319g                  --UUGGACUGAAGGG-AGCUCCUU-
sly-miR319c-3p               --UUGGACUGAAGGG-AGCUCCUU-
ptc-miR319g                  --UUGGACUGAAGGG-AGCUCCU--
cru-miR319a                  -UUUGGACUGAAGGG-AGCUCCU--
gma-miR319n                  -UUUGGACCGAAGGG-AGCCCCU--
vvi-miR319e                  -UUUGGACUGAAGGG-AGCUCCU--
csi-miR159d                  -UUUGGACUGAAGGG-AGCUCCU--
tcc-miR319                   -UUUGGACUGAAGGG-AGCUCCU--
atr-miR319b                  -UUUGGACUGAAGGG-AGCUCCU--
atr-miR319d                  -UUUGGACUGAAGGG-AGCUCCU--
atr-miR319e                  -UUUGGACUGAAGGG-AGCUCCU--
fve-miR319                   -UUUGGACUGAAGGG-AGCUCCU--
gma-miR319c                  --UUGGACUGAAGGG-AGCUCCU--
ptc-miR319e                  --UUGGACUGAAGGG-AGCUCCU--
ptc-miR319f                  --UUGGACUGAAGGG-AGCUCCU--
ptc-miR319h                  --UUGGACUGAAGGG-AGCUCCU--
stu-miR319b                  --UUGGACUGAAGGG-AGCUCCU--
bol-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
bra-miR319c                  --UUGGACUGAAGGG-AACUCCCU-
bol-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
bra-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
bra-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
mac-miR319e                  --UUGGACUGAAGGG-AGCUCCCU-
rco-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
lus-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
mes-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
mes-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
mes-miR319e                  --UUGGACUGAAGGG-AGCUCCCU-
stu-miR319a-3p               --UUGGACUGAAGGG-AGCUCCCU-
sly-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
mtr-miR319d-3p               --UUGGACUGAAGGG-AGCUCCCU-
mes-miR319d                  --UUGGACUGAAGGG-AGCUCCCU-
mes-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
mdm-miR319b-3p               --UUGGACUGAAGGG-AGCUCCCU-
mdm-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
gma-miR319m                  --UUGGACUGAAGGG-AGCUCCCU-
gma-miR319k                  --UUGGACUGAAGGG-AGCUCCCU-
gma-miR319j                  --UUGGACUGAAGGG-AGCUCCCU-
gma-miR319h                  --UUGGACUGAAGGG-AGCUCCCU-
aly-miR319b-3p               --UUGGACUGAAGGG-AGCUCCCU-
aly-miR319a-3p               --UUGGACUGAAGGG-AGCUCCCU-
rco-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
rco-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
vvi-miR319f                  --UUGGACUGAAGGG-AGCUCCCU-
vvi-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
vvi-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
ath-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
ath-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
tae-miR319                   --UUGGACUGAAGGG-AGCUCCCU-
mac-miR319d                  --UUGGACUGAAGGG-AGCUCCCU-
mac-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
mac-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
mac-miR319a                  --UUGGACUGAAGGG-AGCUCCCU-
esa-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
esa-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
cru-miR319c                  --UUGGACUGAAGGG-AGCUCCCU-
cru-miR319b                  --UUGGACUGAAGGG-AGCUCCCU-
bra-miR319d                  --UUGGACUGAAGGG-AGCUCCCU-
pha-miR319                   --UUGGACUGAAGGG-UGCUCCCU-
stu-miR319-3p                --UUGGACUGAAGGG-UUCCCUUC-
pvi-miR319a                  --UUGGACUGAAGGG-UGCUCCCU-
pvi-miR319b                  --UUGGACUGAAGGG-UGCUCCCU-
bdi-miR319b-3p               --UUGGACUGAAGGG-UGCUCCCU-
zos-miR319                   --UUGGACUGAAGGG-UGCUCCC--
osa-miR319a-3p.2-3p          --UUGGACUGAAGGG-UGCUCCC--
osa-miR319b                  --UUGGACUGAAGGG-UGCUCCC--
sbi-miR319a                  --UUGGACUGAAGGG-UGCUCCC--
zma-miR319a-3p               --UUGGACUGAAGGG-UGCUCCC--
zma-miR319c-3p               --UUGGACUGAAGGG-UGCUCCC--
zma-miR319b-3p               --UUGGACUGAAGGG-UGCUCCC--
zma-miR319d-3p               --UUGGACUGAAGGG-UGCUCCC--
sbi-miR319b                  --UUGGACUGAAGGG-UGCUCCC--
atr-miR319c                  --UUGGACUGAAGGG-AGCUCCC--
atr-miR319a                  --UUGGACUGAAGGG-AGCUCCC--
ppe-miR319a                  --UUGGACUGAAGGG-AGCUCCC--
lus-miR319b                  --UUGGACUGAAGGG-AGCUCCC--
gma-miR319e                  --UUGGACUGAAGGG-AGCUCCC--
mtr-miR319b-3p               --UUGGACUGAAGGG-AGCUCCC--
ptc-miR319d                  --UUGGACUGAAGGG-AGCUCCC--
ptc-miR319c                  --UUGGACUGAAGGG-AGCUCCC--
ptc-miR319b                  --UUGGACUGAAGGG-AGCUCCC--
ptc-miR319a                  --UUGGACUGAAGGG-AGCUCCC--
gma-miR319b                  --UUGGACUGAAGGG-AGCUCCC--
gma-miR319a                  --UUGGACUGAAGGG-AGCUCCC--
ptc-miR319i                  --UUGGGCUGAAGGG-AGCUCCC--
vvi-miR319g                  --UUGGACUGAAGGG-AGCUCCCA-
mtr-miR319c-3p               --UUGGACUGAAGGG-AGCUCCCA-
mac-miR319g                  --UUGGACUGAAGGG-AGCUCCC--
mes-miR319h                  -CUUGGACUGAAGGG-AGCUCCU--
ppt-miR319a                  -CUUGGACUGAAGGG-AGCUCC---
ppt-miR319b                  -CUUGGACUGAAGGG-AGCUCC---
sly-miR319a                  -CUUGGACUGAAGGG-AGCUCC---
mpo-miR319-b3.0r1-16464      -CUUGGACUGAAGGG-AGCUCCC--
mac-miR319f                  -CUUGGACUGAAGGG-AGCUCCC--
mac-miR319h                  -CUUGGACUGAAGGG-AGCUCCC--
mac-miR319i                  -CUUGGACUGAAGGG-AGCUCCC--
mac-miR319j                  -CUUGGACUGAAGGG-AGCUCCC--
mac-miR319k                  -CUUGGACUGAAGGG-AGCUCCC--
ppt-miR319c                  -CUUGGACUGAAGGG-AGCUCCC--
ppt-miR319d-3p               -CUUGGACUGAAGGG-AGCUCCC--
ppt-miR319e                  -CUUGGACUGAAGGG-AGCUCCC--
csi-miR159c-3p               -CUUGGACUGAAGGG-AGCUCCC--
mtr-miR319a-3p               --UUGGACUGAAGGG-AGCUCCC--
mes-miR319f                  -AUUGGACUGAAGGG-AGCUCC---
cpa-miR319                   -AUUGGACUGAAGGG-AGCUCC---
gma-miR319p                  UUUUGGACUGAAGGG-AGCUCC---
ptc-miR159e                  -CUUGGGGUGAAGGG-AGCUCCU--
gma-miR159b-3p               -AUUGGAGUGAAGGG-AGCUCCA--
mtr-miR159b                  -AUUGGAGUGAAGGG-AGCUCCA--
gma-miR159f-3p               -AUUGGAGUGAAGGG-AGCUCCA--
gma-miR156aa                 -AUUGGAGUGAAGGG-AGCU-----
gma-miR159c                  -AUUGGAGUGAAGGG-AGCUCCG--
gma-miR156z                  -AUUGGAGUGAAGGG-AGCU-----
zma-miR482-5p                --UGGGAGAUGAAGG-AGCCUU---
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