PmiREN: Plant microRNA Encyclopedia

Bra-MIR168b

Basic info.

miRNA locus ID
Bra-MIR168b

miRNA locus accession
PmiREN002442

Organism
Brassica rapa

Genomic location
Bra-A01 5436066 5436205 +

Comments
A member of family MIR168

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 AG      C  -     G      C          T     -       --   G   C     -CGT   T
   TCACCG CG GGCTC GATTCG TTGGTGCAGG CGGGA CTAATTC  GCT ACA AGCCA    GGA 
   |||||| || ||||| |||||| |||||||||| ||||| |||||||  ||| ||| |||||    ||| T
   AGTGGT GC CCGAG CTAAGT AACTACGTTC GCCCT GGTTAGG  CGA TGT TTGGT    CCT 
GAA      A  T     G      C          C     A       GA   G   -     TATT   T

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-171	Aly-MIR168a	Aly-scaffold_7: 10245612-10245757 -	Brassica rapa	Bra-MIR168b	Bra-A01: 5436066-5436205 +
SY-538	Ath-MIR168a	Ath-Chr4: 10578632-10578777 +	Brassica rapa	Bra-MIR168b	Bra-A01: 5436066-5436205 +
SY-814	Bol-MIR168b	Bol-C07: 41430765-41430906 +	Brassica rapa	Bra-MIR168b	Bra-A01: 5436066-5436205 +
SY-994	Bra-MIR168b	Bra-A01: 5436066-5436205 +	Brassica rapa	Bra-MIR168c	Bra-Scaffold87669: 166114-166244 +
SY-995	Bra-MIR168b	Bra-A01: 5436066-5436205 +	Brassica rapa	Bra-MIR168d	Bra-A08: 12072881-12073020 -
SY-996	Bra-MIR168b	Bra-A01: 5436066-5436205 +	Capsella rubella	Cru-MIR168a	Cru-scaffold_7: 8258806-8258945 -
SY-997	Bra-MIR168b	Bra-A01: 5436066-5436205 +	Eutrema salsugineum	Esa-MIR168b	Esa-scaffold_1: 8872731-8872872 -
SY-998	Bra-MIR168b	Bra-A01: 5436066-5436205 +	Eutrema salsugineum	Esa-MIR168c	Esa-scaffold_20: 1047212-1047352 -

Expression info.

Mature miRNA expression [+]

Reads per million (RPM)

star miRNA expression [+]

Reads per million (RPM)

Target gene info.[+]

No target gene.

Mature miRNA conservation

Link

Reference

>The elucidation of stress memory inheritance in Brassica rapa plants. Front Plant Sci, 2015

>Identification and characterization of microRNAs in oilseed rape (Brassica napus) responsive to infection with the pathogenic fungus Verticillium longisporum using Brassica AA (Brassica rapa) and CC (Brassica oleracea) as reference genomes. New Phytol, 2014