PmiREN: Plant microRNA Encyclopedia

Bra-MIR160a

Basic info.

miRNA locus ID
Bra-MIR160a

miRNA locus accession
PmiREN002410

Organism
Brassica rapa

Genomic location
Bra-A05 3644728 3644848 -

Comments
A member of family MIR160

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

       T      A  TGT      C       C          C T TA  C       C
   GTAG TGTATA GA   GTATGC TGGCTCC TGTATGCCAT C C  AG TCATCGA 
   |||| |||||| ||   |||||| ||||||| |||||||||| | |  || ||||||| C
   CATT ACATAT CT   TATACG ACCGAGG GTATGCGGTA G G  TC AGTAGTT 
ATA    T      A  -TT      T       A          A T CC  C       A

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-741	Bol-MIR160a	Bol-C04: 6676492-6676610 +	Brassica rapa	Bra-MIR160a	Bra-A05: 3644728-3644848 -

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.G02126.1	0.5	NA	NA
Brara.G03536.1	0.5	NA	NA
Brara.G01369.1	1.0	NA	NA
Brara.A00733.1	1.5	NA	NA
Brara.K00855.1	1.5	NA	NA

Mature miRNA conservation

Link

Reference

>Systematic identification of long non-coding RNAs during pollen development and fertilization in Brassica rapa. Plant J, 2018