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

bdi-miR5281b

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UCUUAUAAAUAGGAACGGAGG

miRBase

Precursor miRNA Sequence(5'-3')

ACUACUCUCUUCCUUAGUUUUAUAAGAUGUUCUGGCUUUGUCAUAUACCAAGCUCUACAAACCUUGACCAAGAUAAUAGUAAAUCGACCGACAUCUACAACUUUAUACCAAGCUUUAUUAAAUCUAUUGCAAUAGAUAUCUUAUAUUUAUUUGAGAAGUUGCUGAUAUUAGUAUAAACUUUGAGAGGUUUGACUUAAUAUAAAACUCAAAACUAUAACAUCUUAUAAAUAGGAACGGAGGUAGUAG

miRBase

Precursor miRNA Structure(5'-3') 

--     U    --    UAGU             C   C    --UCA    CC   CUCUA        GA C   AUA   G   -    AC    A   A  ACUUUAUACCAAGCUUUAUUAAAUC 
  ACUAC CUCU  UCCU    UUUAUAAGAUGUU UGG UUUG     UAUA  AAG     CAAACCUU  C AAG   AUA UAA AUCG  CGAC UCU CA                         U
  ||||| ||||  ||||    ||||||||||||| ||| ||||     ||||  |||     ||||||||  | |||   ||| ||| ||||  |||| ||| ||                          
  UGAUG GAGG  AGGA    AAAUAUUCUACAA AUC AAAC     AUAU  UUC     GUUUGGAG  G UUC   UAU AUU UAGU  GUUG AGA GU                         U
GA     -    CA    ---U             U   A    UCAAA    AA   ----A        -A U   AAA   G   A    -C    A   -  UUAUUUAUAUUCUAUAGAUAACGUU

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

mtr-miR5281e      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281f      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281d      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281c      -UCUUAUAAAUAGGACCGGAGGGAG
mtr-miR5281b      -UCUUAUAAAUAGGACCGGAGGGAG
bdi-miR5281b      -UCUUAUAAAUAGGAACGGAGG---
bdi-miR5281a      -UCUUAUAAAUAGGAACGGAGG---
mtr-miR5281a      CUCUUGUAAAUAGGAUCGGAGGGA-
ptc-miR7815       -CUCUUCAAAUAA-AUCGUGGGA--
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