ABOUT THIS RECORDspecies: Solanum lycopersicum
miRNA family: MIR171_1
source: miRBase, original name: sly-MIR171c (MI0008367)
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 TATTGGTGCGGTTCAATGAGA miRNA* TGATTGAGCCGCGCCAATATC mismatches: 1 bulges: 0 |
pre-miRNA
CAAATGGATGAATACACGAGATATTGGTGCGGTTCAATGAGAAAGCAGTACTTAAGAACATTTTTGAGTCTACTTTTTGATTGAGCCGCGCCAATATCAC
GTGTAGCTAAATCTTTAGTTG
dot-bracket secondary structure
(((..((((...((((((.(((((((((((((((((((.((((((.((.((((((((....)))))))))).)))))).))))))))))))))))))).)
))))).....))))....)))
SIMILARITIES
MORE
miRNEST target predictions: none
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"
CAAATGGATGAATACACGAGATATTGGTGCGGTTCAATGAGAAAGCAGTACTTAAGAACATTTTTGAGTCTACTTTTTGATTGAGCCGCGCCAATATCAC
GTGTAGCTAAATCTTTAGTTG
dot-bracket secondary structure
(((..((((...((((((.(((((((((((((((((((.((((((.((.((((((((....)))))))))).)))))).))))))))))))))))))).)
))))).....))))....)))
SIMILARITIES| miRBase csi-MIR171a: 0.0000000001 PMRD sly-miR171c: 2e-64 microPC miR171: 0.0000004 | UniProt no hits RFAM MIR171_1: 3e-51 |
Identical with: sly-miR171c from PMRD (MNEST054553) |
MOREmiRNEST target predictions: none
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"
