PmiREN: Plant microRNA Encyclopedia

Bra-MIR162c

Basic info.

miRNA locus ID
Bra-MIR162c

miRNA locus accession
PmiREN002419

Organism
Brassica rapa

Genomic location
Bra-A02 1323891 1324037 -

Comments
A member of family MIR162

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  TTAAAAGAGTGAAAGT       G    C    C        C   C   -GGATT        G TTGGTTG
                  CGCTGGA GCAG GGTT ATCGATCT TTC TGT      TTTTTTTT G       
                  ||||||| |||| |||| |||||||| ||| |||      |||||||| |        
                  GCGACCT CGTC CCAA TAGCTAGA AAG ACG      AGAGAAAG T       
TAATTATCTTCTCCGTTG       A    T    A        C   T   AAAATT        G TGTTGTT

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-466	Ath-MIR162a	Ath-Chr5: 2634916-2635038 -	Brassica rapa	Bra-MIR162c	Bra-A02: 1323891-1324037 -
SY-943	Bra-MIR162c	Bra-A02: 1323891-1324037 -	Brassica rapa	Bra-MIR162b	Bra-A10: 17713697-17713823 +
SY-944	Bra-MIR162c	Bra-A02: 1323891-1324037 -	Eutrema salsugineum	Esa-MIR162a	Esa-scaffold_2: 2641937-2642077 -

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.B00273.1	0.0	0	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Bra-MIR162c

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