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-miR477b-3p

Organism

Vitis vinifera

Species

Mature miRNA Sequence(5'-3')

CGAAGUCUUUGGGGAGAGUGG

miRBase

Precursor miRNA Sequence(5'-3')

GCCAACACGAGGCAUUUCUAUUGCUCACUCUUUCUCAAGGGCUUCUAGCAUUGCCAGUAACAAAAUGGCAAGCUCGAAGUCUUUGGGGAGAGUGGACAAACGUUGUCUCGAAUAUGC

miRBase

Precursor miRNA Structure(5'-3') 

GCCAACA       UUUCUA   C          U          U   A      GUA 
       CGAGGCA      UUG UCACUCUUUC CAAGGGCUUC AGC UUGCCA   A
       |||||||      ||| |||||||||| |||||||||| ||| ||||||   C
       GCUCUGU      AAC GGUGAGAGGG GUUUCUGAAG UCG AACGGU   A
CGUAUAA       --UGCA   A          -          C   -      AAA

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

ptc-miR477e-3p      UGAGGCCUUUGGGGGAGAGUGG
csi-miR477d-3p      UGAGGCCGUUGGGG-AGAGUGG
atr-miR477          AGAGGCCUUAGGGG-AGAGUGG
vvi-miR477b-3p      CGAAGUCUUUGGGG-AGAGUGG
ptc-miR477a-3p      GGAUGCCUUUGGGGGAGAUUG-
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