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

sit-miR5179

Organism

Setaria italica

Species

Mature miRNA Sequence(5'-3')

UUUUGCUCAAGACCGCGCAAC

PmiREN

Precursor miRNA Sequence(5'-3')

ATCTGCATCAGGAGAGGGTGTTTTGCTCAAGACCGCGCAACCAATCCATATGACACCGCATCGCTGTCCTTGCCTATCATTATCTCGTCCAAATCCCAAGGTAGAAGGAGAAGAAGATGCATGTGGTTATGGATAGGTCTCGACGGCGATGCGCTGGTTATGGTCAGGCTGTGTGGTCTTGCGCAATAACGCCCGGCTCGCATTTCCCTCC

PmiREN

Precursor miRNA Structure(5'-3') 

---------------AUCUGCAUCAGGAGAGGGUGUUUUGCUCAAGACCGCGCAACCAAUCCAUAUGACACCGCAUCGCUGUCCUUGCCUAUC   A   CG   -AAAU    
                                                                                             AUU UCU  UCC     CCC 
                                                                                             ||| |||  |||     || A
                                                                                             UAG AGA  AGG     GGG 
CCUCCCUUUACGCUCGGCCCGCAAUAACGCGUUCUGGUGUGUCGGACUGGUAUUGGUCGCGUAGCGGCAGCUCUGGAUAGGUAUUGGUGUACG   A   AG   AAGAU

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

mac-miR5179a      UUUUGCUCAAGACCGCGCAAC
mac-miR5179b      UUUUGCUCAAGACCGCGCAAC
sit-miR5179       UUUUGCUCAAGACCGCGCAAC
osa-miR5179       UUUUGCUCAAGACCGCGCAAC
bdi-miR5179       UUUUGCUCAAGACCGCGCAAC
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