ABOUT THIS RECORDspecies: Brachypodium distachyon
miRNA family: MIR396
source: miRBase, original name: bdi-MIR396a (MI0018111)
Taxonomy by NCBI:
Brachypodium distachyon Brachypodium Brachypodieae Pooideae BEP clade Poaceae Poales commelinids Liliopsida Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA TCCACAGGCTTTCTTGAACTG miRNA* GTTCAAGAAAGTCCTTGGAAA mismatches: 2 bulges: 0 |
pre-miRNA
GCGCGGCTCAATTACAGGTTGCGGCCATGCTCTCCACAGGCTTTCTTGAACTGTGAACTCGTGCGCCTAGCCTGCTAGCTGCTCAATTCGATCTGTCATC
CTCGGTTCGATTCGATCTGAATTGCTTGTATATGATATGATGTGCCTTGTTGATGGTTCAAGAAAGTCCTTGGAAAACATGGCCGCCGCCTCTTTCCCCT
GCTGGCTTA
dot-bracket secondary structure
((.((((........((((.(((((((((...((((..((((((((((((((((.(((....(((.((((....)))).))).((((((((((.(((..(
....)...)))..)))).))))))...((((((......))))))...))).))))))))))))))))..))))...))))))))).)))).........
))))))...
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Solexa
deep sequencing data evidence
references
[1] Baev V, Milev I, Naydenov M, Apostolova E, Minkov G, Minkov I, Yahubyan G, Genomics. [Epub prior to print](2011)., "Implementation of a de novo genome-wide computational approach for updating Brachypodium miRNAs"
[2] Zhang J, Xu Y, Huan Q, Chong K, BMC Genomics. 10:449(2009)., "Deep sequencing of Brachypodium small RNAs at the global genome level identifies microRNAs involved in cold stress response"
GCGCGGCTCAATTACAGGTTGCGGCCATGCTCTCCACAGGCTTTCTTGAACTGTGAACTCGTGCGCCTAGCCTGCTAGCTGCTCAATTCGATCTGTCATC
CTCGGTTCGATTCGATCTGAATTGCTTGTATATGATATGATGTGCCTTGTTGATGGTTCAAGAAAGTCCTTGGAAAACATGGCCGCCGCCTCTTTCCCCT
GCTGGCTTA
dot-bracket secondary structure
((.((((........((((.(((((((((...((((..((((((((((((((((.(((....(((.((((....)))).))).((((((((((.(((..(
....)...)))..)))).))))))...((((((......))))))...))).))))))))))))))))..))))...))))))))).)))).........
))))))...
SIMILARITIES| miRBase far-MIR396: 5e-17 PMRD far-miR396: 5e-17 microPC miR396: 0.00000000005 | UniProt no hits RFAM MIR396: 0.000000000000004 |
MOREmiRNEST target predictions
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: Solexa
deep sequencing data evidence
references
[1] Baev V, Milev I, Naydenov M, Apostolova E, Minkov G, Minkov I, Yahubyan G, Genomics. [Epub prior to print](2011)., "Implementation of a de novo genome-wide computational approach for updating Brachypodium miRNAs"
[2] Zhang J, Xu Y, Huan Q, Chong K, BMC Genomics. 10:449(2009)., "Deep sequencing of Brachypodium small RNAs at the global genome level identifies microRNAs involved in cold stress response"
