PmiREN: Plant microRNA Encyclopedia

Cru-MIR171a

Basic info.

miRNA locus ID
Cru-MIR171a

miRNA locus accession
PmiREN002774

Organism
Capsella rubella

Genomic location
Cru-scaffold_5 9180071 9180215 +

Comments
A member of family MIR171

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

   GC          CC  TT         C       C      CT  CT CT  CCACTATACTCGTACATAT
     ACGAGAGAGT  CT  GATATTGGC TGGTTCA TCAGAT  TC  G  GA                   
     ||||||||||  ||  ||||||||| ||||||| ||||||  ||  |  ||                    
     TGCTCTCTCG  GA  CTATAACCG GCCGAGT AGTCTA  AG  C  CT                   
CTGCA          -T  CC         C       T      TT  AT -T  TACAAAAAAAAAAAAACCA

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-228	Aly-MIR171a	Aly-scaffold_5: 15611102-15611233 +	Capsella rubella	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +
SY-584	Ath-MIR171a	Ath-Chr3: 19073432-19073561 +	Capsella rubella	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +
SY-1041	Bra-MIR170	Bra-A09: 32760603-32760723 +	Capsella rubella	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +
SY-1053	Bra-MIR171e	Bra-A03: 22995436-22995560 +	Capsella rubella	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +
SY-1235	Cru-MIR171a	Cru-scaffold_5: 9180071-9180215 +	Eutrema salsugineum	Esa-MIR171b	Esa-scaffold_16: 1985605-1985730 -

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.0004s2777.1	0.0	0	NA
Carub.0005s2736.1	0.0	NA	NA
Carub.0004s0491.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Cru-MIR171a

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