ABOUT THIS RECORDspecies: Solanum lycopersicum
miRNA family: MIR171_1
source: miRBase, original name: sly-MIR171d (MI0008368)
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 TTGAGCCGCGCCAATATCAC miRNA* GATGTTGGTGAGGTTCAATC mismatches: 2 bulges: 0 |
pre-miRNA
ATGGAAGAAGCGATGTTGGTGAGGTTCAATCCGAAGACGAATTTATGCTTATTTTCGTAAAGAACGATCTCAGATTGAGCCGCGCCAATATCACTTCTTA
TTTTCATTCCGT
dot-bracket secondary structure
((((((((((.((((((((((.(((((((((.((.((((..((((((........))))))...)).)))).))))))))).)))))))))).)))))..
.......)))))
SIMILARITIES
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miRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: 454
deep sequencing data evidence
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"
ATGGAAGAAGCGATGTTGGTGAGGTTCAATCCGAAGACGAATTTATGCTTATTTTCGTAAAGAACGATCTCAGATTGAGCCGCGCCAATATCACTTCTTA
TTTTCATTCCGT
dot-bracket secondary structure
((((((((((.((((((((((.(((((((((.((.((((..((((((........))))))...)).)))).))))))))).)))))))))).)))))..
.......)))))
SIMILARITIES| miRBase rco-MIR171g: 3e-23 PMRD sly-miR171d: 4e-59 microPC miR171: 2e-30 | UniProt no hits RFAM MIR171_1: 2e-52 |
Identical with: sly-miR171d from PMRD (MNEST054554) |
MOREmiRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: 454
deep sequencing data evidence
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"
