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

tcc-miR827

Organism

Theobroma cacao

Species

Mature miRNA Sequence(5'-3')

UUAGAUGACCAUCAACAAACA

miRBase

Precursor miRNA Sequence(5'-3')

AAAUUAUGCAUUAUUGAAUAUGUUUGUUGAUGGUCAUCUUGUCAUUUUUUCACCUCUUCUUGGCCUUGUACCAGUUGCCAGUACCAAGUUCGUGUGCAGAAUGAUGCUUAGAUGACCAUCAACAAACACUUUCAUCGUUUUGCAUUCU

miRBase

Precursor miRNA Structure(5'-3') 

AAAUU     UU  --    UA                   ---         UU   CUCUU     -C  U   C 
     AUGCA  AU  UGAA  UGUUUGUUGAUGGUCAUCU   UGUCAUUUU  CAC     CUUGG  CU GUA C
     |||||  ||  ||||  |||||||||||||||||||   |||||||||  |||     |||||  || ||| A
     UACGU  UG  ACUU  ACAAACAACUACCAGUAGA   GUAGUAAGA  GUG     GAACC  GA CGU U
--UCU     UU  CU    UC                   UUC         -C   UGCUU     AU  C   U

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

cru-miR827                   UUAGAUGACCAUCAACAAACG
esa-miR827                   UUAGAUGACCAUCAACAAACG
aly-miR827-3p                UUAGAUGACCAUCAACAAACG
ath-miR827                   UUAGAUGACCAUCAACAAACU
tcc-miR827                   UUAGAUGACCAUCAACAAACA
fve-miR827                   UUAGAUGACCAUCAACAAACA
csi-miR827                   UUAGAUGACCAUCAACAAACA
bra-miR827                   UUAGAUGACCAUCAACAAAUA
ppe-miR827                   UUAGAUGACCAUCAACAAACA
mes-miR827                   UUAGAUGACCAUCAACAAACA
stu-miR827-3p                UUAGAUGAACAUCAACAAACA
sly-miR827                   UUAGAUGAACAUCAACAAACA
mac-miR827                   UUAGAUGACCAUCAGCAAACA
pvi-miR827                   UUAGAUGACCAUCAGCAAACA
osa-miR827                   UUAGAUGACCAUCAGCAAACA
zma-miR827-3p                UUAGAUGACCAUCAGCAAACA
bdi-miR827-3p                UUAGAUGACCAUCAGCAAACA
dca-miR827-b2.0r1-20623      UUAGAUGAUCAUCAGCAAACA
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