PmiREN: Plant microRNA Encyclopedia

Bra-MIR166f

Basic info.

miRNA locus ID
Bra-MIR166f

miRNA locus accession
PmiREN002435

Organism
Brassica rapa

Genomic location
Bra-A09 37793849 37794001 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

    -   TT  TCTT   A     C  TT      C        T  --T       C       -  TT   TAAAA
 GAG GGA  TA    TTG GGGGA TG  GTCTGG TCGAGGAC CT   ATTCTAA TCAATCA CG  TTA     
 ||| |||  ||    ||| ||||| ||  |||||| |||||||| ||   ||||||| ||||||| ||  |||     T
 CTC CCT  AT    AAC CCCCT AC  CGGACC GGCTTCTG GA   TGGGATT AGTTAGT GT  AGT     
A   T   TC  TATT   C     T  TT      A        T  TTT       -       A  CT   TCATC

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-122	Aly-MIR166b	Aly-scaffold_5: 20552771-20552919 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-495	Ath-MIR166a	Ath-Chr2: 19176108-19176281 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-501	Ath-MIR166b	Ath-Chr3: 22922192-22922341 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-785	Bol-MIR166c	Bol-C08: 32995401-32995551 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-791	Bol-MIR166d	Bol-C04: 40715614-40715778 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-966	Bra-MIR166b	Bra-A04: 21244922-21245087 +	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-970	Bra-MIR166c	Bra-A05: 682813-682983 -	Brassica rapa	Bra-MIR166f	Bra-A09: 37793849-37794001 +
SY-977	Bra-MIR166f	Bra-A09: 37793849-37794001 +	Capsella rubella	Cru-MIR166b	Cru-scaffold_5: 13180987-13181156 +
SY-978	Bra-MIR166f	Bra-A09: 37793849-37794001 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-979	Bra-MIR166f	Bra-A09: 37793849-37794001 +	Eutrema salsugineum	Esa-MIR166d	Esa-scaffold_19: 528598-528750 -

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.F00211.1	0.5	NA	NA
Brara.H00179.1	0.5	NA	NA
Brara.B01017.1	1.0	NA	NA
Brara.D02105.1	1.0	NA	NA
Brara.I02808.1	1.0	NA	NA
Brara.J01422.1	1.0	NA	NA
Brara.K00217.1	1.0	NA	NA
Brara.E00955.1	1.5	NA	NA
Brara.F01856.1	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Identification of cold stress responsive microRNAs in two winter turnip rape (Brassica rapa L.) by high throughput sequencing. BMC Plant Biol, 2018

>Association of microRNAs with Types of Leaf Curvature in Brassica rapa. Front Plant Sci, 2018