PmiREN: Plant microRNA Encyclopedia

Bra-MIR160d

Basic info.

miRNA locus ID
Bra-MIR160d

miRNA locus accession
PmiREN002413

Organism
Brassica rapa

Genomic location
Bra-A06 27597530 27597653 +

Comments
A member of family MIR160

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   ATA    CATA  TGTC      C       C          AA    ATA        GGT
      CATA    CT    TCATGC TGGCTCC TGTATGCCAC  GTAG   TTGATTTT   
      ||||    ||    |||||| ||||||| ||||||||||  ||||   ||||||||   T
      GTAT    GA    AGTACG ACTGAGG ACATGCGGTG  CGTC   GACTAAAA   
TCAATG    ACAA  -TCC      A       A          AC    ---        AAG

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-932	Bra-MIR160b	Bra-A01: 4672672-4672794 +	Brassica rapa	Bra-MIR160d	Bra-A06: 27597530-27597653 +

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

No link
No link

Reference

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