PmiREN: Plant microRNA Encyclopedia

Bra-MIR172h

Basic info.

miRNA locus ID
Bra-MIR172h

miRNA locus accession
PmiREN002485

Organism
Brassica rapa

Genomic location
Bra-A02 5458096 5458238 -

Comments
A member of family MIR172

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 AAC     -   GT   A                     A  AG   A T  TT     G       CCTCT
    AGCCG GTA  TGC GATGCAGCATCATCAAGATTC CA  TGA G GG  TCCTT GTTTTCG     
    ||||| |||  ||| ||||||||||||||||||||| ||  ||| | ||  ||||| |||||||      
    TCGGT CAT  ACG CTACGTCGTAGTAGTTCTAAG GT  GCT C TC  GGGAA CAAAAGC     
CTCA     A   AT   A                     G  AA   - T  TT     A       CTACC

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-251	Aly-MIR172e	Aly-scaffold_8: 19150529-19150670 +	Brassica rapa	Bra-MIR172h	Bra-A02: 5458096-5458238 -
SY-607	Ath-MIR172e	Ath-Chr5: 23988464-23988606 +	Brassica rapa	Bra-MIR172h	Bra-A02: 5458096-5458238 -
SY-1072	Bra-MIR172h	Bra-A02: 5458096-5458238 -	Brassica rapa	Bra-MIR172d	Bra-A03: 5107913-5108027 -
SY-1073	Bra-MIR172h	Bra-A02: 5458096-5458238 -	Brassica rapa	Bra-MIR172j	Bra-A10: 11990338-11990457 +
SY-1074	Bra-MIR172h	Bra-A02: 5458096-5458238 -	Capsella rubella	Cru-MIR172e	Cru-scaffold_8: 10226143-10226285 +
SY-1075	Bra-MIR172h	Bra-A02: 5458096-5458238 -	Eutrema salsugineum	Esa-MIR172b	Esa-scaffold_2: 8433222-8433365 +

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.I03764.1	0.5	NA	NA
Brara.A00160.1	1.0	0	NA
Brara.B01045.1	1.0	NA	NA
Brara.B01095.1	1.0	0	NA
Brara.C02403.1	1.0	0	NA
Brara.G01386.1	1.0	NA	NA
Brara.J01371.1	1.0	0	NA
Brara.K01270.1	1.0	0	NA
Brara.G01191.1	1.5	1	NA
Brara.E00605.1	2.0	NA	NA
Brara.G01342.1	2.0	NA	NA
Brara.H01614.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Bra-MIR172h

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