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

gra-miR8748

Organism

Gossypium raimondii

Species

Mature miRNA Sequence(5'-3')

UCGGUGGAGAUGGAUAAAAUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

AUAAUCAAGUAAUUCGUUUUGUCCAUUUCAAUCGAAGGCAGUGACCCUAUUACUAAAACAUGUUAUACUCCAAUUCUGUCACAGGUUAUAGUAAUGGGCUCAUCGUUUUCGGUGGAGAUGGAUAAAAUGAAUGACUUGAUUA

miRBase

Precursor miRNA Structure(5'-3') 

A         A                  A         A    C          A   A   U   CUC 
 UAAUCAAGU AUUCGUUUUGUCCAUUUC AUCGAAGGC GUGA CCUAUUACUA AAC UGU AUA   C
 ||||||||| |||||||||||||||||| ||||||||| |||| |||||||||| ||| ||| |||   A
 AUUAGUUCA UAAGUAAAAUAGGUAGAG UGGCUUUUG UACU GGGUAAUGAU UUG ACA UGU   U
-         G                  G         C    C          A   G   C   CUU

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

ptc-miR6476b      UCAGUGGAGAUGAA--ACAUGA--
ptc-miR6476c      UCAGUGGAGAUGAA--ACAUGA--
ptc-miR6476a      UCAGUGGAGAUGAA--ACAUGA--
gra-miR8748       UCGGUGGAGAUGGAUAAAAUGAAU
                  ** ********* *  * ****