PmiREN: Plant microRNA Encyclopedia

Esa-MIR172a

Basic info.

miRNA locus ID
Esa-MIR172a

miRNA locus accession
PmiREN005634

Organism
Eutrema salsugineum

Genomic location
Esa-scaffold_2 1159895 1160021 -

Comments
A member of family MIR172

Confidence level

Secondary strurture and sequence

mature sequence star sequence

5'

3'

  AAC     T  T    A         C           ------     -  -TC        TTA
     AGTCG TG TTGT GGTGCAGCA CATCAAGATTC      ACATA CA   TCCTAATT   
     ||||| || |||| ||||||||| |||||||||||      ||||| ||   ||||||||   T
     TCGGC GC AACA CTACGTCGT GTAGTTCTAAG      TGTAT GT   GGGATTAA   
AAACA     C  C    G         A           AGTATA     A  TTT        CTA

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-242	Aly-MIR172b	Aly-scaffold_6: 1397243-1397369 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-601	Ath-MIR172b	Ath-Chr5: 1188191-1188317 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-840	Bol-MIR172a	Bol-C02: 1546875-1547006 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-845	Bol-MIR172b	Bol-C09: 39300315-39300447 +	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-851	Bol-MIR172c	Bol-C03: 514956-515091 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-1060	Bra-MIR172a	Bra-A02: 681031-681163 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-1062	Bra-MIR172b	Bra-A10: 19091563-19091697 +	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-1069	Bra-MIR172e	Bra-A03: 690626-690761 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -
SY-1238	Cru-MIR172d	Cru-scaffold_6: 1174066-1174194 -	Eutrema salsugineum	Esa-MIR172a	Esa-scaffold_2: 1159895-1160021 -

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.
Thhalv10013367m	0.5	0	NA
Thhalv10016626m	0.5	NA	NA
Thhalv10025268m	0.5	0	NA
Thhalv10010513m	1.5	0	NA
Thhalv10010570m	2.0	2	NA

Mature miRNA conservation

Link

No link
No link

Reference

No reference

Esa-MIR172a

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