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

zma-miR390b-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CGCUAUCUAUCCUGAGCUCCA

miRBase

Precursor miRNA Sequence(5'-3')

GAAGCUCAGGAGGGAUAGCGCCUAGGAAAUCACACAUAGAUUGGAGCCACGAAGAGGAAGGGAGAAUGAGAGAGAGAGAGACAGAGCAGCUAUGCUGCUCUGUCUCUCUCUCUCACUUUCUCUUGGAUCCAUCUCAAGGUUCUGUCUAUAUAUGAUGAAUCGAUCCGAAGCGCUAUCUAUCCUGAGCUCCAC

miRBase

Precursor miRNA Structure(5'-3') 

-- A         G         CUA   ---AA   -  --C      U      AC  A  -   --A       U A                       
  G AGCUCAGGA GGAUAGCGC   GGA     UCA CA   AUAGAU GGAGCC  GA GA GGA   GGGAGAA G GAGAGAGAGAGACAGAGCAGCU 
  | ||||||||| |||||||||   |||     ||| ||   |||||| ||||||  || || |||   ||||||| | ||||||||||||||||||||| A
  C UCGAGUCCU UCUAUCGCG   CCU     AGU GU   UAUCUG UCUUGG  CU CU CCU   UUCUCUU C CUCUCUCUCUCUGUCUCGUCGC 
CA C         A         AAG   AGCUA   A  AUA      -      AA  -  A   AGG       U A

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

ptc-miR390d-3p      CGCUAUCCAUCCUGAGUUUUA
stu-miR390-3p       CGCUAUCCAUCUUGAGUUUUA
sly-miR390a-3p      CGCUAUCCAUCCUGAGUUUUA
ath-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
csi-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
sly-miR390b-3p      CGCUAUCCAUCCUGAGUUUCA
gma-miR390a-3p      CGCUAUCCAUCCUGAGUUUC-
gma-miR390c         CGCUAUCCAUCCUGAGUUUC-
mes-miR390          CGCUAUCCAUCCUGAGUUUC-
aly-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
ath-miR390b-3p      CGCUAUCCAUCCUGAGUUCC-
aly-miR390b-3p      CGCUAUCCAUCCUGAGUUCCA
zma-miR390a-3p      CGCUAUCUAUCCUGAGCUCCA
zma-miR390b-3p      CGCUAUCUAUCCUGAGCUCCA
bdi-miR390a-3p      CGCUAUCUAUCCUGAGCUCCA
osa-miR390-3p       CGCUAUCUAUCCUGAGCUCC-
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