PmiREN: Plant microRNA Encyclopedia

Bra-MIR156h

Basic info.

miRNA locus ID
Bra-MIR156h

miRNA locus accession
PmiREN002389

Organism
Brassica rapa

Genomic location
Bra-A07 1383762 1383887 -

Comments
A member of family MIR156

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

      ATACAATAA      C    -      A        A  T    CCCTTTT    A    GC
  TATA         GGAAGG GACA GAAGAG GTGAGCAC CA GGCT       TTCT GCAT  
  ||||         |||||| |||| |||||| |||||||| || ||||       |||| ||||   
  ATAT         TCTTCC CTGT CTTCTC CACTCGTG GT TCGA       AAGA CGTA  
AT    ACATTTCTC      T    T      C        C  C    -------    A    CT

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-31	Aly-MIR156g	Aly-scaffold_3: 21084424-21084549 +	Brassica rapa	Bra-MIR156h	Bra-A07: 1383762-1383887 -
SY-418	Ath-MIR156g	Ath-Chr2: 8412504-8412628 -	Brassica rapa	Bra-MIR156h	Bra-A07: 1383762-1383887 -

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.G02852.1	1.0	0	NA
Brara.B01839.1	1.5	0	NA
Brara.D00262.1	1.5	0	NA
Brara.D02564.1	1.5	0	NA
Brara.E00270.1	1.5	0	NA
Brara.F03810.1	1.5	NA	NA
Brara.G00852.1	1.5	1	NA
Brara.G00853.1	1.5	1	NA
Brara.G01764.1	1.5	0	NA
Brara.H02059.1	1.5	NA	NA
Brara.I01777.1	1.5	NA	NA
Brara.I03020.1	1.5	1	NA
Brara.C01719.1	2.0	1	NA
Brara.D02060.1	2.0	1	NA
Brara.E01026.1	2.0	1	NA
Brara.I03021.1	2.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Genome-wide analysis of the SBP-box gene family in Chinese cabbage (Brassica rapa subsp. pekinensis). Genome, 2015

>BrpSPL9 (Brassica rapa ssp. pekinensis SPL9) controls the earliness of heading time in Chinese cabbage. Plant Biotechnol J, 2014