PmiREN: Plant microRNA Encyclopedia

Bra-MIR166a

Basic info.

miRNA locus ID
Bra-MIR166a

miRNA locus accession
PmiREN002430

Organism
Brassica rapa

Genomic location
Bra-A04 11059701 11059852 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   T     TTTTTCTTA        T  TT      CA   G C C     T  GATCT  -     G        AT
    GAAGC         TGAGGGGA TG  GTCTGG  CGA G C TTAAC CA     AC GATCG TTATATAA  
    |||||         |||||||| ||  ||||||  ||| | | ||||| ||     || ||||| ||||||||  A
    CTTCG         ACTCCCCT AC  CGGACC  GCT C G AGTTG GT     TG CTAGC AGTATATT  
CTAG     -CTACATTG        T  TT      AG   G A T     -  -GAAT  A     A        AT

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-135	Aly-MIR166e	Aly-scaffold_7: 21195594-21195766 +	Brassica rapa	Bra-MIR166a	Bra-A04: 11059701-11059852 +
SY-511	Ath-MIR166e	Ath-Chr5: 16775504-16775676 -	Brassica rapa	Bra-MIR166a	Bra-A04: 11059701-11059852 +
SY-962	Bra-MIR166a	Bra-A04: 11059701-11059852 +	Brassica rapa	Bra-MIR166e	Bra-A07: 15385796-15385945 -
SY-963	Bra-MIR166a	Bra-A04: 11059701-11059852 +	Capsella rubella	Cru-MIR166e	Cru-scaffold_7: 15274115-15274322 +
SY-964	Bra-MIR166a	Bra-A04: 11059701-11059852 +	Eutrema salsugineum	Esa-MIR166c	Esa-scaffold_14: 2294318-2294494 +

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