ABOUT THIS RECORDspecies: Oryza sativa
miRNA family: MIR1428
source: miRBase, original name: osa-MIR1428e (MI0008239)
Taxonomy by NCBI:
Oryza sativa Oryza Oryzeae Ehrhartoideae BEP clade Poaceae Poales commelinids Liliopsida Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA AATTCACAGGCCCTATCTTGTG miRNA* TAAGATAATGCCATGAATTTG mismatches: 3 bulges: 1 |
pre-miRNA
GCGCTTGGCGAATTCACAGGCCCTATCTTGTGGTATGAACTGGGTACGCGATGATTTGCACTGCGTATTGGGGGCTTACCATAAGATAATGCCATGAATT
TGTCAAGCGT
dot-bracket secondary structure
((((((((((((((((..(((..((((((((((((.(..((.((((((((.((.....)).)))))))).))..).))))))))))))..))).))))))
))))))))))
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
evidence: 454, Solexa
deep sequencing data evidence
references
[1] Lacombe S, Nagasaki H, Santi C, Duval D, Piegu B, Bangratz M, Breitler JC, Guiderdoni E, Brugidou C, Hirsch J, Cao X, Brice C, Panaud O, Karlowski WM, Sato Y, Echeverria M, BMC Plant Biol. 8:123(2008)., "Identification of precursor transcripts for 6 novel miRNAs expands the diversity on the genomic organisation and expression of miRNA genes in rice"
[2] Xue LJ, Zhang JJ, Xue HW, Nucleic Acids Res. 37:916-930(2009)., "Characterization and expression profiles of miRNAs in rice seeds"
[3] Zhu QH, Spriggs A, Matthew L, Fan L, Kennedy G, Gubler F, Helliwell C, Genome Res. 18:1456-1465(2008)., "A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains"
GCGCTTGGCGAATTCACAGGCCCTATCTTGTGGTATGAACTGGGTACGCGATGATTTGCACTGCGTATTGGGGGCTTACCATAAGATAATGCCATGAATT
TGTCAAGCGT
dot-bracket secondary structure
((((((((((((((((..(((..((((((((((((.(..((.((((((((.((.....)).)))))))).))..).))))))))))))..))).))))))
))))))))))
SIMILARITIES| miRBase osa-MIR1428e: 6e-58 PMRD osa-miR1428d: 5e-31 microPC miR1428: 1e-19 | UniProt no hits RFAM MIR1428: 1e-56 |
MOREmiRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
evidence: 454, Solexa
deep sequencing data evidence
references
[1] Lacombe S, Nagasaki H, Santi C, Duval D, Piegu B, Bangratz M, Breitler JC, Guiderdoni E, Brugidou C, Hirsch J, Cao X, Brice C, Panaud O, Karlowski WM, Sato Y, Echeverria M, BMC Plant Biol. 8:123(2008)., "Identification of precursor transcripts for 6 novel miRNAs expands the diversity on the genomic organisation and expression of miRNA genes in rice"
[2] Xue LJ, Zhang JJ, Xue HW, Nucleic Acids Res. 37:916-930(2009)., "Characterization and expression profiles of miRNAs in rice seeds"
[3] Zhu QH, Spriggs A, Matthew L, Fan L, Kennedy G, Gubler F, Helliwell C, Genome Res. 18:1456-1465(2008)., "A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains"
