PmiREN: Plant microRNA Encyclopedia

Cru-MIR171b

Basic info.

miRNA locus ID
Cru-MIR171b

miRNA locus accession
PmiREN002775

Organism
Capsella rubella

Genomic location
Cru-scaffold_1 4060735 4060859 -

Comments
A member of family MIR171

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  TATATGGAAGGTATAAC   A      A             A     -T   T     TAGC
                   GCG GATATT GTGCGGCTCAATC AATAG  CTG CCTCT    
                   ||| |||||| ||||||||||||| |||||  ||| |||||     
                   CGC CTATAA CGTGCCGAGTTAG TTGTT  GGC GGAGG    
TATTGGTAAGACCGATTGG   A      C             C     GT   T     TATG

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-229	Aly-MIR171b	Aly-scaffold_1: 4720130-4720253 -	Capsella rubella	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -
SY-589	Ath-MIR171b	Ath-Chr1: 3961347-3961470 -	Capsella rubella	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -
SY-1043	Bra-MIR171b	Bra-A09: 42454843-42454966 +	Capsella rubella	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -
SY-1046	Bra-MIR171c	Bra-A08: 21440253-21440376 +	Capsella rubella	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -
SY-1050	Bra-MIR171d	Bra-A06: 4390389-4390512 -	Capsella rubella	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -
SY-1236	Cru-MIR171b	Cru-scaffold_1: 4060735-4060859 -	Eutrema salsugineum	Esa-MIR171d	Esa-scaffold_5: 11619062-11619185 +

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.
Carub.0003s3274.1	1.5	NA	NA
Carub.0004s2777.1	1.5	NA	NA
Carub.0005s2736.1	1.5	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR171b

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