PmiREN: Plant microRNA Encyclopedia

Ath-MIR396b

Basic info.

miRNA locus ID
Ath-MIR396b

miRNA locus accession
PmiREN000723

Organism
Arabidopsis thaliana

Genomic location
Ath-Chr5 13611788 13611944 +

Comments
A member of family MIR396

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

TG         ----     AC                   A    -------   TT  ATTTCCATTG           AACA
  AAGATCCTG    GTCAT  TTTTCCACAGCTTTCTTGA CTTT       CTT  TC          TTTTTTTCTTA    
  |||||||||    |||||  ||||||||||||||||||| ||||       |||  ||          |||||||||||     
  TTTTGGGAC    CAGTA  AAAGGGTGTCGAAAGAACT GAAG       GAA  AG          AAAAGAAGAAT    
           TTAA     CA                   C    GTTTTAC   TT  AATTTCAAAA           GAAA

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-330	Aly-MIR396b	Aly-scaffold_7: 18203546-18203709 +	Arabidopsis thaliana	Ath-MIR396b	Ath-Chr5: 13611788-13611944 +
SY-680	Ath-MIR396b	Ath-Chr5: 13611788-13611944 +	Brassica rapa	Bra-MIR396a	Bra-A08: 8513338-8513490 +
SY-681	Ath-MIR396b	Ath-Chr5: 13611788-13611944 +	Capsella rubella	Cru-MIR396b	Cru-scaffold_7: 13784082-13784252 +
SY-682	Ath-MIR396b	Ath-Chr5: 13611788-13611944 +	Eutrema salsugineum	Esa-MIR396b	Esa-scaffold_18: 2696056-2696216 +

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.
AT1G53910.1	3.0	2	0 (3)
AT2G36400.1	3.0	1	0 (4)
AT2G45480.1	3.0	1	0 (4)
AT3G14110.3	3.0	2	0 (3)
AT3G52910.1	3.0	1	0 (3)
AT4G24150.1	3.0	1	0 (4)
AT5G53660.1	3.0	1	0 (2)
AT1G10120.1	3.5	NA	0 (3)
AT2G36145.1	4.0	NA	0 (3)
AT5G01370.1	1.5	0	2 (1)
AT5G43060.1	2.0	1	2 (3)
AT1G48380.2	3.0	NA	2 (3)
AT3G19400.1	3.0	2	2 (4)
AT3G52490.1	3.5	NA	2 (1)
AT5G05180.1	4.0	NA	2 (3)
AT5G61440.1	4.0	2	2 (4)
AT2G23940.1	4.5	2	2 (3)
AT3G05590.1	5.0	NA	2 (3)
AT1G07440.1	NA	NA	2 (3)
AT1G11330.2	NA	NA	2 (3)
AT1G19370.1	NA	NA	2 (3)
AT1G25440.1	NA	NA	2 (3)
AT1G35460.1	NA	NA	2 (3)
AT1G47530.1	NA	NA	2 (2)
AT1G50670.1	NA	NA	2 (3)
AT1G54370.1	NA	2	2 (2)
AT1G62960.1	NA	NA	2 (2)
AT1G72430.1	NA	NA	2 (4)
AT1G74050.1	NA	NA	2 (3)
AT2G22360.1	NA	NA	2 (3)
AT2G23740.2	NA	NA	2 (2)
AT2G24200.1	NA	2	2 (3)
AT2G24580.1	NA	NA	2 (3)
AT2G30110.1	NA	NA	2 (3)
AT2G31670.1	NA	NA	2 (3)
AT2G32700.7	NA	NA	2 (3)
AT2G36800.1	NA	NA	2 (1)
AT2G37410.1	NA	2	2 (3)
AT2G39140.1	NA	NA	2 (3)
AT3G01370.1	NA	NA	2 (1)
AT3G01610.1	NA	NA	2 (2)
AT3G03330.1	NA	NA	2 (3)
AT3G05220.1	NA	NA	2 (3)
AT3G07780.1	NA	NA	2 (4)
AT3G19680.1	NA	NA	2 (3)
AT3G24080.1	NA	NA	2 (3)
AT3G28900.1	NA	NA	2 (3)
AT3G53030.1	NA	NA	2 (2)
AT4G14605.1	NA	NA	2 (1)
AT4G27120.1	NA	NA	2 (1)
AT4G32590.3	NA	2	2 (2)
AT4G39280.1	NA	NA	2 (3)
AT5G03160.1	NA	NA	2 (2)
AT5G03660.1	NA	NA	2 (2)
AT5G08100.1	NA	NA	2 (3)
AT5G13980.1	NA	NA	2 (3)
AT5G26210.1	NA	NA	2 (3)
AT5G40610.1	NA	NA	2 (2)
AT5G46840.1	NA	2	2 (3)
AT5G53800.1	NA	NA	2 (2)
AT5G56680.1	NA	NA	2 (3)
AT5G58490.1	NA	NA	2 (3)
AT5G64300.1	NA	NA	2 (3)
AT2G34530.1	2.0	2	4 (1)
AT2G15630.1	2.0	NA	NA