miRNA display CGI


Results 1 - 20 of 24 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
29211 5' -59.7 NC_006150.1 + 125459 0.66 0.868847
Target:  5'- uGCGCgaCGCCggCCUGAcGGUCGCGCcgaccuuucGGGu -3'
miRNA:   3'- gUGUG--GCGGa-GGGCU-CCAGCGUG---------UCC- -5'
29211 5' -59.7 NC_006150.1 + 3297 0.66 0.861761
Target:  5'- -cCGCUGCCUCCaaggaaGAGGagagCGCACGc- -3'
miRNA:   3'- guGUGGCGGAGGg-----CUCCa---GCGUGUcc -5'
29211 5' -59.7 NC_006150.1 + 54215 0.66 0.861761
Target:  5'- uGCACCGagaacauuuaCCUCgCUGAGGUgGUGgAGGg -3'
miRNA:   3'- gUGUGGC----------GGAG-GGCUCCAgCGUgUCC- -5'
29211 5' -59.7 NC_006150.1 + 92841 0.66 0.861761
Target:  5'- uGCACaGUUUCCUGcGGGUUGCGguGGg -3'
miRNA:   3'- gUGUGgCGGAGGGC-UCCAGCGUguCC- -5'
29211 5' -59.7 NC_006150.1 + 103508 0.66 0.861042
Target:  5'- -cCGCUGCCgUCaCCGGccuguccaucauuGcGUCGCGCAGGa -3'
miRNA:   3'- guGUGGCGG-AG-GGCU-------------C-CAGCGUGUCC- -5'
29211 5' -59.7 NC_006150.1 + 89073 0.66 0.854491
Target:  5'- --aGCCGCgaCCCGcauccAGGUCGCcucCAGGc -3'
miRNA:   3'- gugUGGCGgaGGGC-----UCCAGCGu--GUCC- -5'
29211 5' -59.7 NC_006150.1 + 114020 0.66 0.854491
Target:  5'- gCGCAUagcaaGCCUUgcucuUCGGGGUCGCgguGCGGGc -3'
miRNA:   3'- -GUGUGg----CGGAG-----GGCUCCAGCG---UGUCC- -5'
29211 5' -59.7 NC_006150.1 + 174698 0.66 0.854491
Target:  5'- aGCAUUGggUUCCGGGGUCGgUGCAGGa -3'
miRNA:   3'- gUGUGGCggAGGGCUCCAGC-GUGUCC- -5'
29211 5' -59.7 NC_006150.1 + 167932 0.66 0.853754
Target:  5'- aCGCACCauGCCUCCUGcgccgacgaccauGGGgccUGCACAGu -3'
miRNA:   3'- -GUGUGG--CGGAGGGC-------------UCCa--GCGUGUCc -5'
29211 5' -59.7 NC_006150.1 + 50872 0.66 0.847042
Target:  5'- gGCACCGgaaucuugcCCUCCCGAacGGUCuuucgGCguccaGCAGGg -3'
miRNA:   3'- gUGUGGC---------GGAGGGCU--CCAG-----CG-----UGUCC- -5'
29211 5' -59.7 NC_006150.1 + 31573 0.67 0.831629
Target:  5'- gCACuCCGCCUUCCGAauuguauGUCGgACAGu -3'
miRNA:   3'- -GUGuGGCGGAGGGCUc------CAGCgUGUCc -5'
29211 5' -59.7 NC_006150.1 + 160688 0.67 0.823677
Target:  5'- aGCACCGCC-CCUuaugGGGGUUGgGCuauAGGa -3'
miRNA:   3'- gUGUGGCGGaGGG----CUCCAGCgUG---UCC- -5'
29211 5' -59.7 NC_006150.1 + 92443 0.67 0.823677
Target:  5'- gCACGCCGCCUCguaCCu-GGaUCGCuugauCGGGg -3'
miRNA:   3'- -GUGUGGCGGAG---GGcuCC-AGCGu----GUCC- -5'
29211 5' -59.7 NC_006150.1 + 82675 0.67 0.798919
Target:  5'- gGCuACCGCCUCCCcgacagcaGGGGcCGUaaacagcgcagACAGGu -3'
miRNA:   3'- gUG-UGGCGGAGGG--------CUCCaGCG-----------UGUCC- -5'
29211 5' -59.7 NC_006150.1 + 88622 0.67 0.790388
Target:  5'- gCAUACCcgGCCaaCCCGGGGacCGCACAGc -3'
miRNA:   3'- -GUGUGG--CGGa-GGGCUCCa-GCGUGUCc -5'
29211 5' -59.7 NC_006150.1 + 125635 0.67 0.790388
Target:  5'- gCGCGCCGCCaucUCCCuacgggguccGGGUCGCuGCGGu -3'
miRNA:   3'- -GUGUGGCGG---AGGGc---------UCCAGCG-UGUCc -5'
29211 5' -59.7 NC_006150.1 + 87382 0.68 0.736804
Target:  5'- gCACACCGUUUUCUGAaGUCGUgugagGCGGGu -3'
miRNA:   3'- -GUGUGGCGGAGGGCUcCAGCG-----UGUCC- -5'
29211 5' -59.7 NC_006150.1 + 3860 0.69 0.727545
Target:  5'- aCACGuuGUUUCCCGgaaaacGGGUgacauUGCACAGGa -3'
miRNA:   3'- -GUGUggCGGAGGGC------UCCA-----GCGUGUCC- -5'
29211 5' -59.7 NC_006150.1 + 294 0.69 0.689852
Target:  5'- -uCGCCGUCgUgCCGAGGcCGCGgAGGa -3'
miRNA:   3'- guGUGGCGG-AgGGCUCCaGCGUgUCC- -5'
29211 5' -59.7 NC_006150.1 + 180712 0.7 0.622521
Target:  5'- cCGCGCCGCaUUCCCccGcGUCGCACGGc -3'
miRNA:   3'- -GUGUGGCG-GAGGGcuC-CAGCGUGUCc -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.