PmiREN: Plant microRNA Encyclopedia

Bra-MIR170

Basic info.

miRNA locus ID
Bra-MIR170

miRNA locus accession
PmiREN002470

Organism
Brassica rapa

Genomic location
Bra-A09 32760603 32760723 +

Comments
A member of family MIR170

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

    C  T       CCT  TT         C       C      CTTCTCGAA  ACACCACGGAC
     AC AGAGAGT   CT  GATATTGGC TGGTTCA TCAGAT         CC           
     || |||||||   ||  ||||||||| ||||||| ||||||         ||            
     TG TCTCTCG   GA  CTATAACTG GCCGAGT AGTCTA         TT           
CTCTC  C       --T  CT         C       T      ---------  GATTCTCTCGA

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-225	Aly-MIR171a	Aly-scaffold_5: 15611102-15611233 +	Brassica rapa	Bra-MIR170	Bra-A09: 32760603-32760723 +
SY-582	Ath-MIR171a	Ath-Chr3: 19073432-19073561 +	Brassica rapa	Bra-MIR170	Bra-A09: 32760603-32760723 +
SY-1041	Bra-MIR170	Bra-A09: 32760603-32760723 +	Capsella rubella	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +
SY-1052	Bra-MIR171e	Bra-A03: 22995436-22995560 +	Brassica rapa	Bra-MIR170	Bra-A09: 32760603-32760723 +

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.C04364.1	0.0	0	NA
Brara.I04867.1	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Bra-MIR170

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