ABOUT THIS RECORDspecies: Schmidtea mediterranea
miRNA family: bantam
source: miRBase, original name: sme-bantam-c-2 (MI0010953)
Taxonomy by NCBI:
Schmidtea mediterranea Schmidtea Dugesiidae Paludicola Tricladida Seriata Turbellaria Platyhelminthes Acoelomata Bilateria Eumetazoa Metazoa Fungi/Metazoa group Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA TGAGATCATTATGAAAGCTTTT miRNA* AGGCTTTCATTATGATTTTAAA mismatches: 1 bulges: 0 |
pre-miRNA
AGTTTAAAGGCTTTCATTATGATTTTAAAATGTTATTTTGAGATCATTATGAAAGCTTTTTACTG
dot-bracket secondary structure
(((..((((((((((((.(((((((((((((...))))))))))))).)))))))))))).))).
SIMILARITIES
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miRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: cloned, Northern, 454, Solexa
references
[1] Palakodeti D, Smielewska M, Graveley BR, RNA. 12:1640-1649(2006)., "MicroRNAs from the Planarian Schmidtea mediterranea: a model system for stem cell biology"
[2] Friedlander MR, Adamidi C, Han T, Lebedeva S, Isenbarger TA, Hirst M, Marra M, Nusbaum C, Lee WL, Jenkin JC, Sanchez Alvarado A, Kim JK, Rajewsky N, Proc Natl Acad Sci U S A. 106:11546-11551(2009)., "High-resolution profiling and discovery of planarian small RNAs"
[3] Lu YC, Smielewska M, Palakodeti D, Lovci MT, Aigner S, Yeo GW, Graveley BR, RNA. 15:1483-1491(2009)., "Deep sequencing identifies new and regulated microRNAs in Schmidtea mediterranea"
AGTTTAAAGGCTTTCATTATGATTTTAAAATGTTATTTTGAGATCATTATGAAAGCTTTTTACTG
dot-bracket secondary structure
(((..((((((((((((.(((((((((((((...))))))))))))).)))))))))))).))).
SIMILARITIES| miRBase sme-bantam-c-1: 2e-31 PMRD no hits microPC no hits | UniProt no hits RFAM no hits |
Identical with: sme-bantam-c-1 from miRBase (MNEST039038) |
MOREmiRNEST target predictions: none
non-miRNEST targets: none
HuntMi prediction: true miRNA
additional data
download this record
evidence: cloned, Northern, 454, Solexa
references
[1] Palakodeti D, Smielewska M, Graveley BR, RNA. 12:1640-1649(2006)., "MicroRNAs from the Planarian Schmidtea mediterranea: a model system for stem cell biology"
[2] Friedlander MR, Adamidi C, Han T, Lebedeva S, Isenbarger TA, Hirst M, Marra M, Nusbaum C, Lee WL, Jenkin JC, Sanchez Alvarado A, Kim JK, Rajewsky N, Proc Natl Acad Sci U S A. 106:11546-11551(2009)., "High-resolution profiling and discovery of planarian small RNAs"
[3] Lu YC, Smielewska M, Palakodeti D, Lovci MT, Aigner S, Yeo GW, Graveley BR, RNA. 15:1483-1491(2009)., "Deep sequencing identifies new and regulated microRNAs in Schmidtea mediterranea"
