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

mtr-miR2111m-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

miRBase

Precursor miRNA Sequence(5'-3')

UUAAUUGGUUAAGGAUAGGGUAAUCUGCAUCCUGAGGUUUAGAGCAACAUUUGUGUUGUAUCUAGUCCUCGGGAUACAGAUUACUUUUUUCUUAAUACCAAUGUGAA

miRBase

Precursor miRNA Structure(5'-3') 

--UUA      --      U           C         U     -      U 
     AUUGGU  UAAGGA AGGGUAAUCUG AUCCUGAGG UUAGA GCAACA U
     ||||||  |||||| ||||||||||| ||||||||| ||||| ||||||  
     UAACCA  AUUCUU UUUCAUUAGAC UAGGGCUCC GAUCU UGUUGU U
AAGUG      UA      U           A         U     A      G

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

aly-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
aly-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111k         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111j         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111o         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111n         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111m-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111i         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111h         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111g-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111e-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111d-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111c         UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111e         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111a         UAAUCUGCAUCCUGAGGUUUA-
csi-miR2111-5p       UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111b         UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111a         UAAUCUGCAUCCUGAGGUUUG-
atr-miR2111          UAAUCUGUAUCUUGAGGUUUGG
                     ******* *** ********