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

vvi-miR828a

Organism

Vitis vinifera

Species

Mature miRNA Sequence(5'-3')

UCUUGCUCAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

UAUAAAGUUUCUUGCUCAAAUGAGUAUUCCAAACAACAGCUUGUGAAGCAAUGAUUACUGUCAUAGUCUCUGCAUGUGGAUUGUUGUUGAGAUGCUCAUUUGAGGAAGCAACCUUAAAAAUG

miRBase

Precursor miRNA Structure(5'-3') 

----UA   A   U   G              C   A      -  ---   -  A  A     U 
      UAA GUU CUU CUCAAAUGAGUAUU CAA CAACAG CU   UGU GA GC AUGAU A
      ||| ||| ||| |||||||||||||| ||| |||||| ||   ||| || || |||||  
      AUU CAA GAA GAGUUUACUCGUAG GUU GUUGUU GG   ACG CU UG UACUG G
GUAAAA   C   C   G              A   -      A  UGU   U  C  A     U

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

ath-miR828          UCUUGCUUAAAUGAGUAUUCCA
aly-miR828-5p       UCUUGCUUAAAUGAGUAUUCCA
lus-miR828a         UCUUGCUCAAAUGAGUGUUCCA
mes-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mes-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828b-5p      UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ppe-miR828-5p       UCUUGCUCAAAUGAGUAUUCCA
gma-miR828b         UCUUGCUCAAAUGAGUAUUCCA
gma-miR828a         UCUUGCUCAAAUGAGUAUUCCA
vvi-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mac-miR828          UCUUGCUCAAGUGAGUAUUCCA
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