PmiREN: Plant microRNA Encyclopedia

Bra-MIR319e

Basic info.

miRNA locus ID
Bra-MIR319e

miRNA locus accession
PmiREN002498

Organism
Brassica rapa

Genomic location
Bra-A07 15294081 15294290 -

Comments
A member of family MIR319

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TGATGG     ----         A                 CT       TAATAT    -         -GA    C  C    C   C  CA     A   AAA   TA
      GTTGG    TGGAGGAAG GAGCTTTCTTTGGTCCA  CATGGAG      GTGA GATTTAATT   CTCT GA TCAT CAT CA  TACCA ATG   GAA  
      |||||    ||||||||| |||||||||||||||||  |||||||      |||| |||||||||   |||| || |||| ||| ||  ||||| |||   |||   
      TAACC    GTTTCCTTT CTCGAGGGAAGTCAGGT  GTATCTC      CATT CTAAGTTAA   GAGA CT AGTA GTA GT  ATGGT TAC   CTT  
  TTTA     TTTT         C                 TC       ----TT    T         ACA    T  T    A   A  AA     A   --C   GT

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-272	Aly-MIR319b	Aly-scaffold_7: 21388808-21389017 +	Brassica rapa	Bra-MIR319e	Bra-A07: 15294081-15294290 -
SY-622	Ath-MIR319b	Ath-Chr5: 16660449-16660658 -	Brassica rapa	Bra-MIR319e	Bra-A07: 15294081-15294290 -
SY-1088	Bra-MIR319b	Bra-A04: 10646026-10646235 -	Brassica rapa	Bra-MIR319e	Bra-A07: 15294081-15294290 -
SY-1093	Bra-MIR319e	Bra-A07: 15294081-15294290 -	Capsella rubella	Cru-MIR319c	Cru-scaffold_7: 15441258-15441467 +
SY-1094	Bra-MIR319e	Bra-A07: 15294081-15294290 -	Eutrema salsugineum	Esa-MIR319b	Esa-scaffold_14: 2396373-2396581 +

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.A03407.1	1.5	NA	NA
Brara.C01651.1	1.5	NA	NA
Brara.C02447.1	1.5	NA	NA
Brara.E02934.1	1.5	NA	NA
Brara.G01291.1	1.5	1	NA
Brara.B00489.1	2.0	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

>MicroRNA319a-targeted Brassica rapa ssp. pekinensis TCP genes modulate head shape in chinese cabbage by differential cell division arrest in leaf regions. Plant Physiol, 2014