PmiREN: Plant microRNA Encyclopedia

Esa-MIR166a

Basic info.

miRNA locus ID
Esa-MIR166a

miRNA locus accession
PmiREN005609

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_22 1329544 1329726 +

Comments
A member of family MIR166

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

        -  TTTCTCTT   A        TT      C    G   T    CTTT    A    T     ATCTTCTTCGATCTAATTGAATCGA
    AGGG GC        TTG GGGGAATG  GTCTGG TCGA GAC CTGG    CTCT TTCA GTTGG                         
    |||| ||        ||| ||||||||  |||||| |||| ||| ||||    |||| |||| |||||                         A
    TCCC CG        AAC CCCCTTAC  CGGACC GGCT CTG GATT    GGGA TTAG TCTAG                         
TTAG    T  ---TTATT   C        TT      A    G   C    --TT    -    -     AGTTTGGACTAGAGTTTGGACCTCC

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-114	Aly-MIR166a	Aly-scaffold_4: 22684208-22684381 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-123	Aly-MIR166b	Aly-scaffold_5: 20552771-20552919 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-503	Ath-MIR166b	Ath-Chr3: 22922192-22922341 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-779	Bol-MIR166a	Bol-C04: 3332597-3332767 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-793	Bol-MIR166d	Bol-C04: 40715614-40715778 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-968	Bra-MIR166b	Bra-A04: 21244922-21245087 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-972	Bra-MIR166c	Bra-A05: 682813-682983 -	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-978	Bra-MIR166f	Bra-A09: 37793849-37794001 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-1217	Cru-MIR166a	Cru-scaffold_4: 14490144-14490324 +	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +
SY-1267	Esa-MIR166d	Esa-scaffold_19: 528598-528750 -	Eutrema salsugineum	Esa-MIR166a	Esa-scaffold_22: 1329544-1329726 +

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.
Thhalv10011238m	0.5	NA	NA
Thhalv10006792m	1.0	NA	NA
Thhalv10012678m	1.0	NA	NA
Thhalv10016241m	1.0	NA	NA
Thhalv10024403m	1.0	NA	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR166a

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