PmiREN: Plant microRNA Encyclopedia

Esa-MIR393a

Basic info.

miRNA locus ID
Esa-MIR393a

miRNA locus accession
PmiREN005642

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_10 10483751 10483910 +

Comments
A member of family MIR393

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  TAT   AAG       T              C    T     ---    T     GAATTCTCCTCATTCTTTTCTTAATC
     AGC   TAGAGGA GGATCCAAAGGGAT GCAT GATCC   TAAG AAGAT                          
     |||   ||||||| |||||||||||||| |||| |||||   |||| |||||                           
     TCG   GTTTCCT CTTAGGTTTCCCTA CGTA CTAGG   TGGT CGTTT                          
CTCCT   ACG       T              T    -     TTT    T     AAAAACCCTGAAAAAAAAAACGCTTA

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-295	Aly-MIR393a	Aly-scaffold_4: 19396116-19396270 +	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +
SY-645	Ath-MIR393a	Ath-Chr2: 16652091-16652245 +	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +
SY-1125	Bra-MIR393a	Bra-A04: 19205419-19205573 +	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +
SY-1128	Bra-MIR393b	Bra-A05: 3291935-3292095 -	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +
SY-1131	Bra-MIR393c	Bra-A09: 35133997-35134164 +	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +
SY-1246	Cru-MIR393a	Cru-scaffold_4: 11771167-11771330 +	Eutrema salsugineum	Esa-MIR393a	Esa-scaffold_10: 10483751-10483910 +

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.
Thhalv10003903m	1.0	NA	NA
Thhalv10005852m	1.0	NA	NA
Thhalv10007195m	1.0	1	NA
Thhalv10028532m	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR393a

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