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

sbi-miR821b

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAGUUAUGAACAUAAAAGUUG

miRBase

Precursor miRNA Sequence(5'-3')

UAAAUGAUUUCAGAUGAAAAAGUUAUGAACAUAAAAGUUGUAGAACUGAUUAAGAUCUACACCUUUUAUUUUGGUCAUUUGUUCAUCCAAUGAAAUGAUAGUAACAUUGUUCACAAAAUUUAUAUAUCUCACUCUUAUAGUUUAUAAAACCAUAUGAGAGAGAUGUAAAAUUUAUGAACAAUGUUAGUAUCACUCUAUCGGAUGAAAAAAUGACCAAAAUAAUAGUUAUAGAUCUUGAUGACUUCUAUAACUUUGUUGUUGAUAACUUUUUCA

miRBase

Precursor miRNA Structure(5'-3') 

UAAAUGAUUUCAGA            G    UA            C G           CAC  U               G       A   AAA     G            CA      A        A   U   A      
              UGAAAAAGUUAU AACA  AAAGUUGUAGAA U AUUAAGAUCUA   CU UUAUUUUGGUCAUUU UUCAUCC AUG   UGAUA UAACAUUGUUCA  AAAUUU UAUAUCUC CUC UAU GUUUA 
              |||||||||||| ||||  |||||||||||| | |||||||||||   || ||||||||||||||| ||||||| |||   ||||| ||||||||||||  |||||| |||||||| ||| ||| |||| U
              ACUUUUUCAAUA UUGU  UUUCAAUAUCUU A UAGUUCUAGAU   GA AAUAAAACCAGUAAA AAGUAGG UAU   ACUAU AUUGUAACAAGU  UUUAAA AUGUAGAG GAG AUA CAAAA 
--------------            G    UG            C G           AUU  U               A       C   CUC     G            -A      -        A   U   C

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

sbi-miR821a      AAGUCAUCAACAUAAAAGUUG---
sbi-miR821e      AAGUCAUCAAAAUAAAAGUUG---
sbi-miR821b      AAGUUAUGAACAUAAAAGUUG---
osa-miR821a      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821d      AAGUCAUCAACAACAAAGUUG---
osa-miR821b      AAGUCAUCAACAAAAAAGUUGAAU
osa-miR821c      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821c      AAGUCAUCAACAUAAAAGUUG---
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