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

pvi-miR156r

Organism

Panicum virgatum

Species

Mature miRNA Sequence(5'-3')

AUGACAGAAGAGAGAGAGCAC

PmiREN

Precursor miRNA Sequence(5'-3')

TGGAGTGGACCTCGAGAGTGATGACAGAAGAGAGAGAGCACAACCCAGCACCAGCGAGGAAAAAGCCTCGCTTCTGCGAGGGCCGTGTGCTCTCTGCTCTCACTGTCATCGCCGTCCGGCCACCCAACGAC

PmiREN

Precursor miRNA Structure(5'-3') 

-----   A    A  UC  GA          -A    -          --A   -A   CC       AA 
     UGG GUGG CC  GA  GUGAUGACAG  AGAG AGAGAGCACA   CCC  GCA  AGCGAGG  A
     ||| |||| ||  ||  ||||||||||  |||| ||||||||||   |||  |||  |||||||   
     ACC CACC GG  CU  CGCUACUGUC  UCUC UCUCUCGUGU   GGG  CGU  UCGCUCC  G
CAGCA   -    -  -C  GC          AC    G          GCC   AG   CU       GA

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

rco-miR156e         ----UGACAGAAGAGAGAGAGCACA
tcc-miR156a         ----UGACAGAAGAGAGAGAGCACA
bdi-miR156a         ----UGACAGAAGAGAGAGAGCACA
zma-miR156j-5p      ----UGACAGAAGAGAGAGAGCACA
gma-miR156b         ----UGACAGAAGAGAGAGAGCACA
mtr-miR156a         ----UGACAGAAGAGAGAGAGCACA
sbi-miR156d         ----UGACAGAAGAGAGAGAGCACA
osa-miR156k         ----UGACAGAAGAGAGAGAGCACA
bdi-miR156j         ----UGACAGAAGAGAGAGAGCAC-
ath-miR156j         ----UGACAGAAGAGAGAGAGCAC-
sit-miR156e         ----UGACAGAAGAGAGAGAGCAC-
mdm-miR156t         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156u         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156v         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156w         ---UUGACAGAAGAGAGAGAGCAC-
mes-miR156k         ---UUGACAGAAGAGAGAGAGCAC-
gma-miR156f         ---UUGACAGAAGAGAGAGAGCACA
esa-miR156b         ----UGACAGAAGAGAGAGAGCAC-
esa-miR156c         ----UGACAGAAGAGAGAGAGCAC-
pvi-miR156p         ---AUGACAGAAGAGAGAGAGCAC-
pvi-miR156r         ---AUGACAGAAGAGAGAGAGCAC-
bra-miR156n         ----UGACAGAAGAGAGAGAGCAC-
bra-miR156p         ----UGACAGAAGAGAGAGAGCAC-
csi-miR3946         UUGUAGAGAAAGAGAAGAGAGCAC-
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