PmiREN: Plant microRNA Encyclopedia

Bra-MIR157a

Basic info.

miRNA locus ID
Bra-MIR157a

miRNA locus accession
PmiREN002402

Organism
Brassica rapa

Genomic location
Bra-A03 18966005 18966200 -

Comments
A member of family MIR157

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  TTTGAGAGTGATGC    T  T        -           T     --T        A  -ACATATGTA  TATCATCACACCGCCTGTGGATGAT
                TGGT GT GACAGAAG ATAGAGAGCAC AAGGA   GACATGCA GT          TG                         
                |||| || |||||||| ||||||||||| |||||   |||||||| ||          ||                         T
                ACCA CA CTGTCTTC TATCTCTCGTG TTTCT   CTGTACGT CG          AG                         
TTTCTTCTTCTTTATT    C  -        A           C     CAT        C  AGAGAGAGAG  AGAAAACTTAACCAAAATAAAAACA

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-43	Aly-MIR157c	Aly-scaffold_3: 7799883-7800109 -	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -
SY-426	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -
SY-719	Bol-MIR157	Bol-C01: 31679965-31680103 +	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -
SY-911	Bra-MIR157a	Bra-A03: 18966005-18966200 -	Capsella rubella	Cru-MIR157b	Cru-scaffold_3: 6365381-6365595 -
SY-912	Bra-MIR157a	Bra-A03: 18966005-18966200 -	Eutrema salsugineum	Esa-MIR157a	Esa-scaffold_13: 3051829-3052046 +
SY-913	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -

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.D00262.1	1.5	1	NA
Brara.D02564.1	1.5	1	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	1	NA
Brara.H02059.1	1.5	NA	NA
Brara.I01777.1	1.5	NA	NA
Brara.I03020.1	1.5	1	NA
Brara.B01839.1	2.0	1	NA
Brara.I03021.1	2.0	1	NA

Mature miRNA conservation

Link

Reference

>Exploring miRNAs involved in blue/UV-A light response in Brassica rapa reveals special regulatory mode during seedling development. BMC Plant Biol, 2016