PmiREN: Plant microRNA Encyclopedia

Bra-MIR166g

Basic info.

miRNA locus ID
Bra-MIR166g

miRNA locus accession
PmiREN002436

Organism
Brassica rapa

Genomic location
Bra-A10 17564454 17564568 -

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 GGT     -TT G     A A   C  TT      C      -    GA  AATGAAA
    GCGGT   A GGCTG G GGA TG  GTCTGG TCGAGG TCAT  AG       
    |||||   | ||||| | ||| ||  |||||| |||||| ||||  ||        
    CGCTA   T CCGAC C CCT AC  CGGACC GGCTCT AGTA  TC       
ATAC     TTT G     C C   T  TT      A      T    AA  CAAATCC

Get mature sequence
Get star sequence
Get miRNA stem-loop seqence
Get miRNA stem-loop ± 20bp
Get dot-bracket miRNA secondary structure
Get miRNA stem-loop ± 500bp
Get miRNA Promoter

miRNA cluster info.

Cluster ID:
Chromosome:
Cluster start:
Cluster end:

No miRNA locus in ± 10k bp interval.

miRNA syntenic block

Syntenic block ID	miRNA locus 1	miRNA locus 1 position	Organism	miRNA locus 2	miRNA locus 2 position
SY-129	Aly-MIR166c	Aly-scaffold_6: 3626977-3627123 +	Brassica rapa	Bra-MIR166g	Bra-A10: 17564454-17564568 -
SY-506	Ath-MIR166c	Ath-Chr5: 2838632-2838777 +	Brassica rapa	Bra-MIR166g	Bra-A10: 17564454-17564568 -
SY-794	Bol-MIR166e	Bol-C09: 37643395-37643509 -	Brassica rapa	Bra-MIR166g	Bra-A10: 17564454-17564568 -
SY-980	Bra-MIR166g	Bra-A10: 17564454-17564568 -	Capsella rubella	Cru-MIR166c	Cru-scaffold_6: 2828675-2828826 +
SY-981	Bra-MIR166g	Bra-A10: 17564454-17564568 -	Eutrema salsugineum	Esa-MIR166f	Esa-scaffold_2: 2892571-2892703 +

Expression info.

Mature miRNA expression [+]

Reads per million (RPM)

star miRNA expression [+]

Reads per million (RPM)

Target gene info.[+]

Target gene ID	psRNAtarget	RNAhybrid	PARE-Seq? The first number (from 0-2) indicates the category of CleaveLand4 analysis result while the number in brackets displays the number of degradome libraries which verify the miRNA-target interaction. Click the number to download the selected figure of PARE-Seq reads distribution.
Brara.F00211.1	0.5	NA	NA
Brara.H00179.1	0.5	NA	NA
Brara.B01017.1	1.0	NA	NA
Brara.D02105.1	1.0	NA	NA
Brara.I02808.1	1.0	NA	NA
Brara.J01422.1	1.0	NA	NA
Brara.K00217.1	1.0	NA	NA
Brara.E00955.1	1.5	NA	NA
Brara.F01856.1	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Identification of cold stress responsive microRNAs in two winter turnip rape (Brassica rapa L.) by high throughput sequencing. BMC Plant Biol, 2018

>Association of microRNAs with Types of Leaf Curvature in Brassica rapa. Front Plant Sci, 2018