ABOUT THIS RECORDspecies: Solanum lycopersicum
miRNA family: MIR171
source: PMRD, original name: sly-miR171a
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 TGATTGAGCCGTGCCAATATC miRNA* TATTGGCCTGGTTCACTCAGA mismatches: 2 bulges: 0 |
pre-miRNA
TGAAACAGTAACTTTGATATTGGCCTGGTTCACTCAGACAACAAAATGTAAACTATATTTGAATGGTTGAGTTTTCGTTTTTCGTTTGATTGAGCCGTGC
CAATATCTCAGTTTCTCTTTCA
dot-bracket secondary structure
.((((.((.((((..(((((((((.(((((((.((((((((((((((...((((((......))))))..))))).)))....)))))).))))))).))
)))))))..)))).)).)))).
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
degradome data
download this record
deep sequencing data evidence
references
[1] Zhang J, Zeng R, Chen J, Liu X, Liao Q, Gene. 423:1-7(2008)., "Identification of conserved microRNAs and their targets from Solanum lycopersicum Mill"
[2] 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"
TGAAACAGTAACTTTGATATTGGCCTGGTTCACTCAGACAACAAAATGTAAACTATATTTGAATGGTTGAGTTTTCGTTTTTCGTTTGATTGAGCCGTGC
CAATATCTCAGTTTCTCTTTCA
dot-bracket secondary structure
.((((.((.((((..(((((((((.(((((((.((((((((((((((...((((((......))))))..))))).)))....)))))).))))))).))
)))))))..)))).)).)))).
SIMILARITIES| miRBase sly-MIR171a: 5e-65 PMRD ptc-miR171i: 0.000000006 microPC miR171: 0.0000004 | UniProt no hits RFAM MIR171_1: 5e-59 |
Identical with: sly-MIR171a from miRBase (MNEST041538) |
MOREmiRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
degradome data
download this record
deep sequencing data evidence
references
[1] Zhang J, Zeng R, Chen J, Liu X, Liao Q, Gene. 423:1-7(2008)., "Identification of conserved microRNAs and their targets from Solanum lycopersicum Mill"
[2] 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"
