PmiREN: Plant microRNA Encyclopedia

Esa-MIR169a

Basic info.

miRNA locus ID
Esa-MIR169a

miRNA locus accession
PmiREN005625

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_13 5033375 5033601 +

Comments
A member of family MIR169

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

 TAT     -     T      C                      TAAATTT        ---ATTCTC    -AAAACATTTTC  A     A     CCTG      GAAGAAGGTAAGA
    GTGAC CAAAG AGTGTG AGCCAAGGATGACTTGCCGATT       ATATTTTT         TCTT            TG TTTTC AATGC    GTTCTT             
    ||||| ||||| |||||| ||||||||||||||||||||||       ||||||||         ||||            || ||||| |||||    ||||||              
    CGCTG GTTTC TTATAC TCGGTTCCTGTTGAACGGCTAG       TATAAAAA         AGAA            AC AAAAG TTATG    TTTATC             
TACG     T     T      A                      -------        GAAAAACAA    ACATTAAATAAA  -     A     ---C      TATAGATGAAACA

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-193	Aly-MIR169a	Aly-scaffold_3: 5439439-5439688 -	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +
SY-558	Ath-MIR169a	Ath-Chr3: 4358990-4359222 -	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +
SY-1019	Bra-MIR169h	Bra-A01: 27239224-27239432 +	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +
SY-1024	Bra-MIR169j	Bra-A03: 17544406-17544602 -	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +
SY-1027	Bra-MIR169l	Bra-A05: 24007347-24007484 +	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +
SY-1233	Cru-MIR169d	Cru-scaffold_3: 4431202-4431418 -	Eutrema salsugineum	Esa-MIR169a	Esa-scaffold_13: 5033375-5033601 +

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.
Thhalv10018869m	2.0	2	NA
Thhalv10021250m	2.0	1	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR169a

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