ABOUT THIS RECORDspecies: Solanum lycopersicum
miRNA family: MIR397
source: PMRD, original name: sly-miR397
Taxonomy by NCBI:
Solanum lycopersicum Lycopersicon Solanum Solaneae Solanoideae Solanaceae Solanales lamiids asterids core eudicotyledons eudicotyledons Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA TTGAGTGCAGCGTTGATGAC miRNA* CATCAACGCTAAACTCGATC mismatches: 3 bulges: 0 |
pre-miRNA
CAGAGTACTTAGAAACATGATTGAGTGCAGCGTTGATGACATATTTGAGAAGTCCTGCATTTGGGCCTTCCTCATTTTTCATCAACGCTAAACTCGATCA
TGTTTTTAATTCTCTG
dot-bracket secondary structure
(((((...((((((((((((((((((..(((((((((((...(..(((((((.(((......))).))).))))..).)))))))))))..)))))))))
)))))))))..)))))
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
degradome data
download this record
references
[1] Moxon S, Jing R, Szittya G, Schwach F, Rusholme Pilcher RL, Moulton V, Dalmay T, Genome Res. 18:1602-1609(2008)., "Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening"
CAGAGTACTTAGAAACATGATTGAGTGCAGCGTTGATGACATATTTGAGAAGTCCTGCATTTGGGCCTTCCTCATTTTTCATCAACGCTAAACTCGATCA
TGTTTTTAATTCTCTG
dot-bracket secondary structure
(((((...((((((((((((((((((..(((((((((((...(..(((((((.(((......))).))).))))..).)))))))))))..)))))))))
)))))))))..)))))
SIMILARITIES| miRBase sly-MIR397: 2e-61 PMRD vvi-miR397b: 0.000006 microPC miR397: 0.0003 | UniProt no hits RFAM MIR397: 0.000006 |
Identical with: sly-MIR397 from miRBase (MNEST041547) |
MOREmiRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
degradome data
download this record
references
[1] Moxon S, Jing R, Szittya G, Schwach F, Rusholme Pilcher RL, Moulton V, Dalmay T, Genome Res. 18:1602-1609(2008)., "Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening"
