miRNA display CGI


Results 1 - 20 of 21 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
2819 5' -60.5 NC_001491.2 + 127478 0.66 0.740506
Target:  5'- uGCaGGUugacGCGuugaaAGCAGGgGuAGCGCGUGUa -3'
miRNA:   3'- -CGcCCG----CGC-----UCGUCCgC-UUGCGCACA- -5'
2819 5' -60.5 NC_001491.2 + 66267 0.66 0.740506
Target:  5'- -aGGGUGgGA-UAGGCGAACGCa--- -3'
miRNA:   3'- cgCCCGCgCUcGUCCGCUUGCGcaca -5'
2819 5' -60.5 NC_001491.2 + 121560 0.66 0.740506
Target:  5'- cGCGGGCaCGcGCAcGGCGucGAUGCGcUGg -3'
miRNA:   3'- -CGCCCGcGCuCGU-CCGC--UUGCGC-ACa -5'
2819 5' -60.5 NC_001491.2 + 67778 0.66 0.721471
Target:  5'- -gGGGgGCGAGCGGGgGAgAUGCu--- -3'
miRNA:   3'- cgCCCgCGCUCGUCCgCU-UGCGcaca -5'
2819 5' -60.5 NC_001491.2 + 57378 0.66 0.711841
Target:  5'- gGUGGGgGCuGAGCAGGgGcuggcuuGCGCGa-- -3'
miRNA:   3'- -CGCCCgCG-CUCGUCCgCu------UGCGCaca -5'
2819 5' -60.5 NC_001491.2 + 147280 0.66 0.702147
Target:  5'- gGUGGGC-CGGGgAGGCGGcCGCcUGa -3'
miRNA:   3'- -CGCCCGcGCUCgUCCGCUuGCGcACa -5'
2819 5' -60.5 NC_001491.2 + 123043 0.66 0.702147
Target:  5'- aCGGaGCGCG-GCA-GCGAGacCGCGUGc -3'
miRNA:   3'- cGCC-CGCGCuCGUcCGCUU--GCGCACa -5'
2819 5' -60.5 NC_001491.2 + 144704 0.66 0.702147
Target:  5'- uCGGGCGCG-GCGGGC---UGgGUGa -3'
miRNA:   3'- cGCCCGCGCuCGUCCGcuuGCgCACa -5'
2819 5' -60.5 NC_001491.2 + 69511 0.66 0.692398
Target:  5'- uGCGGGUGUu-GCGGGU-AACGCGUu- -3'
miRNA:   3'- -CGCCCGCGcuCGUCCGcUUGCGCAca -5'
2819 5' -60.5 NC_001491.2 + 125475 0.67 0.682602
Target:  5'- cGCGGGCGCccgccgcccgccGGGCGGGa-GACGUGa-- -3'
miRNA:   3'- -CGCCCGCG------------CUCGUCCgcUUGCGCaca -5'
2819 5' -60.5 NC_001491.2 + 135225 0.67 0.662901
Target:  5'- cCGGGUGCaGGCAGGCcAugGC-UGUc -3'
miRNA:   3'- cGCCCGCGcUCGUCCGcUugCGcACA- -5'
2819 5' -60.5 NC_001491.2 + 146231 0.67 0.653011
Target:  5'- gGCGGccGCGUGuGGCAGGgcccaGAGCGCGUu- -3'
miRNA:   3'- -CGCC--CGCGC-UCGUCCg----CUUGCGCAca -5'
2819 5' -60.5 NC_001491.2 + 120177 0.67 0.650041
Target:  5'- -gGGGCGCcguguuacgucgauGGGguGGgGccGGCGCGUGUg -3'
miRNA:   3'- cgCCCGCG--------------CUCguCCgC--UUGCGCACA- -5'
2819 5' -60.5 NC_001491.2 + 122433 0.68 0.623278
Target:  5'- gGUGGGUugGCGAGUGGGUuuuGGAgGUGUGg -3'
miRNA:   3'- -CGCCCG--CGCUCGUCCG---CUUgCGCACa -5'
2819 5' -60.5 NC_001491.2 + 137734 0.68 0.602488
Target:  5'- gGCGGGCGCccgcggguccccgGGGCgGGGCGGcguCGCGg-- -3'
miRNA:   3'- -CGCCCGCG-------------CUCG-UCCGCUu--GCGCaca -5'
2819 5' -60.5 NC_001491.2 + 145421 0.68 0.583754
Target:  5'- aGCGGGCGCcgaagcugGAGcCGGaGCGggUGCGc-- -3'
miRNA:   3'- -CGCCCGCG--------CUC-GUC-CGCuuGCGCaca -5'
2819 5' -60.5 NC_001491.2 + 72866 0.68 0.573938
Target:  5'- aGCGaGGCGUcuuuGUGGGCGGGCGCGccUGg -3'
miRNA:   3'- -CGC-CCGCGcu--CGUCCGCUUGCGC--ACa -5'
2819 5' -60.5 NC_001491.2 + 3040 0.7 0.497268
Target:  5'- -aGGGCgGCGAGCGacGGCGAGCGauUGc -3'
miRNA:   3'- cgCCCG-CGCUCGU--CCGCUUGCgcACa -5'
2819 5' -60.5 NC_001491.2 + 123515 0.74 0.302426
Target:  5'- cGCGGGCGCGcaGGUAcgccgcGGCGGcUGCGUGg -3'
miRNA:   3'- -CGCCCGCGC--UCGU------CCGCUuGCGCACa -5'
2819 5' -60.5 NC_001491.2 + 137677 0.75 0.270023
Target:  5'- aGCGGGCGCggGAGCGcGCGAGCGCc--- -3'
miRNA:   3'- -CGCCCGCG--CUCGUcCGCUUGCGcaca -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.