PmiREN: Plant microRNA Encyclopedia

Bra-MIR394d

Basic info.

miRNA locus ID
Bra-MIR394d

miRNA locus accession
PmiREN002518

Organism
Brassica rapa

Genomic location
Bra-A07 12267015 12267140 -

Comments
A member of family MIR394

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

     T    T     CT   -      TTC  T            ------------A        AGT
 AGAG TTCT ACAGA  TCT TTGGCA   TG CCACCTCCTTCT             TGTATACA   
 |||| |||| |||||  ||| ||||||   || ||||||||||||             ||||||||    
 TCTT GGGA TGTCT  AGA AACTGT   AC GGTGGAGGGAGA             ATATATGT   
T    T    T     AT   C      CAT  T            AAGTTTGTGGTAC        ATT

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-654	Ath-MIR394a	Ath-Chr1: 7058187-7058318 +	Brassica rapa	Bra-MIR394d	Bra-A07: 12267015-12267140 -
SY-1143	Bra-MIR394d	Bra-A07: 12267015-12267140 -	Capsella rubella	Cru-MIR394a	Cru-scaffold_1: 7092612-7092742 +
SY-1144	Bra-MIR394d	Bra-A07: 12267015-12267140 -	Eutrema salsugineum	Esa-MIR394a	Esa-scaffold_5: 8491404-8491546 -

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.G00856.1	1.0	1	NA
Brara.I03023.1	1.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Bra-MIR394d

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