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

aly-miR2111b-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

miRBase

Precursor miRNA Sequence(5'-3')

GUACUUGGUGAUGAACGGGUAAUCUGCAUCCUGAGGUUUAAAACUUUAUAAGCAUUUACGUAUGUGACUAUAUAGUUUUUUUAAUCCUCGGGAUACAGAUUACCUCUUCCUUACUCGAAGUAC

miRBase

Precursor miRNA Structure(5'-3') 

      --     U   C          C         U     ---   U    AG   UUA 
GUACUU  GGUGA GAA GGGUAAUCUG AUCCUGAGG UUAAA   ACU UAUA  CAU   C
||||||  ||||| ||| |||||||||| ||||||||| |||||   ||| ||||  |||    
CAUGAA  UCAUU CUU UCCAUUAGAC UAGGGCUCC AAUUU   UGA AUAU  GUG   A
      GC     C   C          A         U     UUU   U    CA   UAU

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
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