PmiREN: Plant microRNA Encyclopedia

Esa-MIR393b

Basic info.

miRNA locus ID
Esa-MIR393b

miRNA locus accession
PmiREN005643

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_16 74485 74658 -

Comments
A member of family MIR393

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  CAC   A       AAA                   T     TCAT    CTAACTTATTTCCCAATGATGATAATTTTAATATTCTC
     AGC ACTAGAG   GGATCCAAAGGGATCGCAT GATCC    TAAG                                      
     ||| |||||||   ||||||||||||||||||| |||||    ||||                                      A
     TCG TGGTTTC   CTTAGGTTTCTCTAGCGTA CTAGG    CCTT                                      
CACCT   A       CTA                   -     ----    TTGCTTCGTTTTAAAACCCTAAAAAAGGTAGAAAGCTA

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-296	Aly-MIR393a	Aly-scaffold_4: 19396116-19396270 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-301	Aly-MIR393b	Aly-scaffold_5: 17660783-17660959 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-646	Ath-MIR393a	Ath-Chr2: 16652091-16652245 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-653	Ath-MIR393b	Ath-Chr3: 20691637-20691818 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-875	Bol-MIR393	Bol-C04: 22919381-22919540 -	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1126	Bra-MIR393a	Bra-A04: 19205419-19205573 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1129	Bra-MIR393b	Bra-A05: 3291935-3292095 -	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1132	Bra-MIR393c	Bra-A09: 35133997-35134164 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1136	Bra-MIR393d	Bra-A04: 2672059-2672220 -	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1139	Bra-MIR393e	Bra-A07: 16290941-16291110 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1247	Cru-MIR393a	Cru-scaffold_4: 11771167-11771330 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -
SY-1248	Cru-MIR393b	Cru-scaffold_5: 10912783-10912975 +	Eutrema salsugineum	Esa-MIR393b	Esa-scaffold_16: 74485-74658 -

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-MIR393b

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