PmiREN: Plant microRNA Encyclopedia

Bra-MIR398c

Basic info.

miRNA locus ID
Bra-MIR398c

miRNA locus accession
PmiREN002534

Organism
Brassica rapa

Genomic location
Bra-A02 26353634 26353758 +

Comments
A member of family MIR398

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

        AACA  T     C       A   T A            TC   ---TT     TTTAAGA
      AC    GG GAGAT TCAAAGG GTG C TGAGAACACGGA  CTC     GTTTC       
      ||    || ||||| ||||||| ||| | ||||||||||||  |||     |||||       T
      TG    CC CTCTA AGTTTCC CAC G ACTCTTGTGTTT  GAG     CAAAG       
TTACCT  --CC  -     -       C   T G            -T   TTAAC     TCACCTT

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-876	Bol-MIR398	Bol-C02: 36449126-36449247 +	Brassica rapa	Bra-MIR398c	Bra-A02: 26353634-26353758 +
SY-1168	Bra-MIR398c	Bra-A02: 26353634-26353758 +	Capsella rubella	Cru-MIR398a	Cru-scaffold_5: 996451-996567 +

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.J02011.1	0.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Bra-MIR398c

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