PmiREN: Plant microRNA Encyclopedia

Bra-MIR160g

Basic info.

miRNA locus ID
Bra-MIR160g

miRNA locus accession
PmiREN002416

Organism
Brassica rapa

Genomic location
Bra-A08 11071954 11072076 -

Comments
A member of family MIR160

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  AACGTATGGAATAATA       C     - C           A   AAACAC    C   T
                  GTCGTGC TGGCT C CTGTATACCAC AGC      CGAT TCA 
                  ||||||| ||||| | ||||||||||| |||      |||| ||| T
                  CAGTACG ACTGA G GATATGTGGTG TCG      GCTA AGT 
TATAGTTCTTTTCGAAAC       A     T A           A   ---CTA    A   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-457	Ath-MIR160b	Ath-Chr4: 9888966-9889088 +	Brassica rapa	Bra-MIR160g	Bra-A08: 11071954-11072076 -
SY-748	Bol-MIR160c	Bol-C07: 39151232-39151354 +	Brassica rapa	Bra-MIR160g	Bra-A08: 11071954-11072076 -
SY-940	Bra-MIR160g	Bra-A08: 11071954-11072076 -	Brassica rapa	Bra-MIR160f	Bra-Scaffold18850: 482412-482534 -
SY-941	Bra-MIR160g	Bra-A08: 11071954-11072076 -	Capsella rubella	Cru-MIR160b	Cru-scaffold_7: 8935803-8935927 -

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