PmiREN: Plant microRNA Encyclopedia

Bra-MIR319g

Basic info.

miRNA locus ID
Bra-MIR319g

miRNA locus accession
PmiREN002500

Organism
Brassica rapa

Genomic location
Bra-A04 19600737 19600957 +

Comments
A member of family MIR319

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  C       GA     AT        A              T        GAACAAG       -TA         G   AC    C   C  AA    TC     A    AAAA
   TGAAATA  TAGAT  AGAAGGAG TTCTTTCAGTCCAG CATGGATA       AAGAGGG   GAAACATCT CCG  TCAT CAT CA  CACT  TGGTA AAAG    
   |||||||  |||||  |||||||| |||||||||||||| ||||||||       |||||||   ||||||||| |||  |||| ||| ||  ||||  ||||| ||||     
   ACTTTGT  ATTTA  TCTTCCTC AGGGAAGTCAGGTT GTGTCTAT       TTCTCTC   TTTTGTAGA GGC  AGTA GTG GT  GTGA  ACCAT TTTT    
TAA       AC     AT        G              T        -------       TAC         G   GT    A   T  CG    -C     A    AGAG

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-626	Ath-MIR319c	Ath-Chr2: 17029693-17029909 +	Brassica rapa	Bra-MIR319g	Bra-A04: 19600737-19600957 +
SY-1095	Bra-MIR319f	Bra-A03: 10438625-10438847 +	Brassica rapa	Bra-MIR319g	Bra-A04: 19600737-19600957 +
SY-1099	Bra-MIR319g	Bra-A04: 19600737-19600957 +	Brassica rapa	Bra-MIR319h	Bra-A05: 1061830-1062044 +
SY-1100	Bra-MIR319g	Bra-A04: 19600737-19600957 +	Capsella rubella	Cru-MIR319a	Cru-scaffold_4: 12176944-12177161 +
SY-1101	Bra-MIR319g	Bra-A04: 19600737-19600957 +	Eutrema salsugineum	Esa-MIR319a	Esa-scaffold_10: 10950425-10950647 +

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.A03407.1	1.5	NA	NA
Brara.C01651.1	1.5	NA	NA
Brara.C02447.1	1.5	NA	NA
Brara.E02934.1	1.5	NA	NA
Brara.G01291.1	1.5	NA	NA
Brara.B00489.1	2.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

>Identification of cold stress responsive microRNAs in two winter turnip rape (Brassica rapa L.) by high throughput sequencing. BMC Plant Biol, 2018

>MicroRNA319a-targeted Brassica rapa ssp. pekinensis TCP genes modulate head shape in chinese cabbage by differential cell division arrest in leaf regions. Plant Physiol, 2014