miRNA display CGI


Results 1 - 20 of 216 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
18970 3' -55.5 NC_004683.1 + 330 0.72 0.399718
Target:  5'- cCAGCCCCG-CCgcgggcaGCAGCGgCGGCAUCg -3'
miRNA:   3'- uGUUGGGGCuGGg------CGUUGC-GUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 499 0.75 0.263241
Target:  5'- cCAGCCaCCGccugcgccaucaccGCCCGCAGCucuuucgacaGCGACGCCa -3'
miRNA:   3'- uGUUGG-GGC--------------UGGGCGUUG----------CGUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 863 0.71 0.446754
Target:  5'- gACGGCCCCaccaauggcguGuuCCGUGGCGCgGGCACCg -3'
miRNA:   3'- -UGUUGGGG-----------CugGGCGUUGCG-UUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 966 0.7 0.47641
Target:  5'- gAUGGCCUCGguGCCCGCGccACGgAACACg -3'
miRNA:   3'- -UGUUGGGGC--UGGGCGU--UGCgUUGUGg -5'
18970 3' -55.5 NC_004683.1 + 1071 0.66 0.697495
Target:  5'- -gGugCCUGACCCGCAguuGCugauuggcucgucgGCAugccACGCCg -3'
miRNA:   3'- ugUugGGGCUGGGCGU---UG--------------CGU----UGUGG- -5'
18970 3' -55.5 NC_004683.1 + 1106 0.69 0.538417
Target:  5'- -gAACCCaUGugCgCGUGGCGCAGCGCg -3'
miRNA:   3'- ugUUGGG-GCugG-GCGUUGCGUUGUGg -5'
18970 3' -55.5 NC_004683.1 + 1574 0.71 0.446754
Target:  5'- uCGuCCCggCGGCCCGCGGCGgCAACgucGCCa -3'
miRNA:   3'- uGUuGGG--GCUGGGCGUUGC-GUUG---UGG- -5'
18970 3' -55.5 NC_004683.1 + 1677 0.71 0.418154
Target:  5'- -gGGCCUCGACgaUCGCAGCGCGGCcggcgcgcugcuGCCu -3'
miRNA:   3'- ugUUGGGGCUG--GGCGUUGCGUUG------------UGG- -5'
18970 3' -55.5 NC_004683.1 + 1759 0.67 0.679174
Target:  5'- aACGGCgCgGGCaucaaCAACGCAACGCCg -3'
miRNA:   3'- -UGUUGgGgCUGggc--GUUGCGUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 1856 0.67 0.646566
Target:  5'- gGCAACgUCGGCCgGCGuUGCGuuguugaugcccGCGCCg -3'
miRNA:   3'- -UGUUGgGGCUGGgCGUuGCGU------------UGUGG- -5'
18970 3' -55.5 NC_004683.1 + 2230 0.7 0.466414
Target:  5'- gACcACCCCaGGCCCGCcAGCacgGCcACGCCc -3'
miRNA:   3'- -UGuUGGGG-CUGGGCG-UUG---CGuUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 2392 0.66 0.70071
Target:  5'- aGCAgacACUggCCGGCCCGuCGACGgAauugGCGCCu -3'
miRNA:   3'- -UGU---UGG--GGCUGGGC-GUUGCgU----UGUGG- -5'
18970 3' -55.5 NC_004683.1 + 2435 0.71 0.437099
Target:  5'- cGCcACCaCCGaACCCGUAGC-CGAUGCCg -3'
miRNA:   3'- -UGuUGG-GGC-UGGGCGUUGcGUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 2625 0.68 0.624745
Target:  5'- aACGugUCCGAcggcuuCCCGUcGCGCAaGCGCUg -3'
miRNA:   3'- -UGUugGGGCU------GGGCGuUGCGU-UGUGG- -5'
18970 3' -55.5 NC_004683.1 + 2883 0.71 0.416288
Target:  5'- cCGAuCCCUGACCCGCuggccaguuauCGCGGCAUg -3'
miRNA:   3'- uGUU-GGGGCUGGGCGuu---------GCGUUGUGg -5'
18970 3' -55.5 NC_004683.1 + 3688 0.71 0.408871
Target:  5'- gGCAgGCCCCGuuCaCGUuGCGCGAUGCCg -3'
miRNA:   3'- -UGU-UGGGGCugG-GCGuUGCGUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 3906 0.72 0.390697
Target:  5'- uCGAUCCCGAUCgccaGCcuGCGCAGCAUCg -3'
miRNA:   3'- uGUUGGGGCUGGg---CGu-UGCGUUGUGG- -5'
18970 3' -55.5 NC_004683.1 + 3946 0.72 0.390697
Target:  5'- uCGACCCCGugCuCGCAcccgaGgGCGGCGCg -3'
miRNA:   3'- uGUUGGGGCugG-GCGU-----UgCGUUGUGg -5'
18970 3' -55.5 NC_004683.1 + 4009 0.68 0.602949
Target:  5'- gAUGGCCCCGGuuCGaGACGCcauCGCCg -3'
miRNA:   3'- -UGUUGGGGCUggGCgUUGCGuu-GUGG- -5'
18970 3' -55.5 NC_004683.1 + 4095 0.66 0.721984
Target:  5'- ---cCCCCGACggcaagaucauCCGCGACgaGCAGCAgCu -3'
miRNA:   3'- uguuGGGGCUG-----------GGCGUUG--CGUUGUgG- -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.