PmiREN: Plant microRNA Encyclopedia

Bra-MIR157b

Basic info.

miRNA locus ID
Bra-MIR157b

miRNA locus accession
PmiREN002403

Organism
Brassica rapa

Genomic location
Bra-A01 25099108 25099295 +

Comments
A member of family MIR157

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TTTGGGA T  T C   -----------T            -           T     --T  C     A  ACATACATA   ATCATCACACCGCAAGTGGA
       G GA G AGG            TGTTGACAGAAG ATAGAGAGCAC AAGGA   GA ATGCA GT         TAT                    
       | || | |||            |||||||||||| ||||||||||| |||||   || ||||| ||         |||                    T
       C CT C TCC            ATAACTGTCTTC TATCTCTCGTG TTTCT   CT TACGT CG         GAG                    
        T  - -   TTATTTATTACC            A           T     CAT  C     C  AGAAAAAAG   AGAAAGAACTTAAAGGAATA

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-44	Aly-MIR157c	Aly-scaffold_3: 7799883-7800109 -	Brassica rapa	Bra-MIR157b	Bra-A01: 25099108-25099295 +
SY-52	Aly-MIR157d	Aly-scaffold_1: 24813797-24814014 -	Brassica rapa	Bra-MIR157b	Bra-A01: 25099108-25099295 +
SY-427	Ath-MIR157c	Ath-Chr3: 6244507-6244713 -	Brassica rapa	Bra-MIR157b	Bra-A01: 25099108-25099295 +
SY-720	Bol-MIR157	Bol-C01: 31679965-31680103 +	Brassica rapa	Bra-MIR157b	Bra-A01: 25099108-25099295 +
SY-913	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Brassica rapa	Bra-MIR157a	Bra-A03: 18966005-18966200 -
SY-914	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Capsella rubella	Cru-MIR157a	Cru-scaffold_1: 16709634-16709856 -
SY-915	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Capsella rubella	Cru-MIR157b	Cru-scaffold_3: 6365381-6365595 -
SY-916	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Eutrema salsugineum	Esa-MIR157a	Esa-scaffold_13: 3051829-3052046 +
SY-917	Bra-MIR157b	Bra-A01: 25099108-25099295 +	Eutrema salsugineum	Esa-MIR157b	Esa-scaffold_7: 4655624-4655775 +

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

No link
No 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