miRNA display CGI


Results 1 - 20 of 63 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
17020 3' -54.9 NC_004333.2 + 224 0.69 0.526891
Target:  5'- -cGCCGACGACCaGCGCGccGAGc-- -3'
miRNA:   3'- gcCGGCUGUUGGgCGCGUuuCUCaug -5'
17020 3' -54.9 NC_004333.2 + 382 0.73 0.288416
Target:  5'- aGGCCGACAgaguuGCCgaGCGCGuAGAGcGCg -3'
miRNA:   3'- gCCGGCUGU-----UGGg-CGCGUuUCUCaUG- -5'
17020 3' -54.9 NC_004333.2 + 637 0.74 0.267052
Target:  5'- aCGGCCGuuuCGACuuGUGCGuuggcGAGUGCa -3'
miRNA:   3'- -GCCGGCu--GUUGggCGCGUuu---CUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 2030 0.72 0.357868
Target:  5'- aCGGCCG-CAucgaucacgucgacGCCCGCGCGAuAGAGc-- -3'
miRNA:   3'- -GCCGGCuGU--------------UGGGCGCGUU-UCUCaug -5'
17020 3' -54.9 NC_004333.2 + 2176 0.67 0.648198
Target:  5'- aGGCCGugcCAGCCCucgGCGCc--GAGUGg -3'
miRNA:   3'- gCCGGCu--GUUGGG---CGCGuuuCUCAUg -5'
17020 3' -54.9 NC_004333.2 + 2307 0.71 0.387111
Target:  5'- uGGCCGGCAcGCCCGCGUugaacuggcGGAaUGCg -3'
miRNA:   3'- gCCGGCUGU-UGGGCGCGuu-------UCUcAUG- -5'
17020 3' -54.9 NC_004333.2 + 2702 0.68 0.548516
Target:  5'- gCGGCCGACAGgCCGaucucgucgGCGAAGuuguucGUGCc -3'
miRNA:   3'- -GCCGGCUGUUgGGCg--------CGUUUCu-----CAUG- -5'
17020 3' -54.9 NC_004333.2 + 3042 0.68 0.552875
Target:  5'- uCGGgCGACGACagguaggcgcgaucgCCGCGCAGAcaggcgucGAGUAUc -3'
miRNA:   3'- -GCCgGCUGUUG---------------GGCGCGUUU--------CUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 3218 0.66 0.703493
Target:  5'- uCGGCCGcCGACgUGCGCGcgcAGGAuaGCu -3'
miRNA:   3'- -GCCGGCuGUUGgGCGCGU---UUCUcaUG- -5'
17020 3' -54.9 NC_004333.2 + 5189 0.67 0.622552
Target:  5'- uCGGUCGAgAGCgCCGCccgcucguccgccgGCGAGG-GUGCg -3'
miRNA:   3'- -GCCGGCUgUUG-GGCG--------------CGUUUCuCAUG- -5'
17020 3' -54.9 NC_004333.2 + 5543 0.69 0.495083
Target:  5'- uGGCCGGCGACggcuUgGCGC---GAGUGCa -3'
miRNA:   3'- gCCGGCUGUUG----GgCGCGuuuCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 6534 0.74 0.253531
Target:  5'- aCGGCCG-CAGCCCGCGCccGAcaaucugccgccAGAGcACg -3'
miRNA:   3'- -GCCGGCuGUUGGGCGCG--UU------------UCUCaUG- -5'
17020 3' -54.9 NC_004333.2 + 6734 0.76 0.188995
Target:  5'- aCGGCCGACucGCCCGCGUcGAGcAGcGCc -3'
miRNA:   3'- -GCCGGCUGu-UGGGCGCGuUUC-UCaUG- -5'
17020 3' -54.9 NC_004333.2 + 7883 0.66 0.670439
Target:  5'- gGGCguacauCGACAAaCCGCGCAugcGGUACg -3'
miRNA:   3'- gCCG------GCUGUUgGGCGCGUuucUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 7955 0.68 0.592512
Target:  5'- uGGCCGGCcGCgUCGCGCAcuucGUACa -3'
miRNA:   3'- gCCGGCUGuUG-GGCGCGUuucuCAUG- -5'
17020 3' -54.9 NC_004333.2 + 8224 0.71 0.420755
Target:  5'- gCGGCaggauGACGccgGCCCGCGCGAGGuucugaauacguuGUGCg -3'
miRNA:   3'- -GCCGg----CUGU---UGGGCGCGUUUCu------------CAUG- -5'
17020 3' -54.9 NC_004333.2 + 8970 0.68 0.592512
Target:  5'- uCGGCCGACGggagcgcgGgCCGUGCugccGGUGCa -3'
miRNA:   3'- -GCCGGCUGU--------UgGGCGCGuuucUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 9276 0.68 0.580335
Target:  5'- uGGCCGugcCGAUCaGCGCGAAGcggcgcgGGUGCg -3'
miRNA:   3'- gCCGGCu--GUUGGgCGCGUUUC-------UCAUG- -5'
17020 3' -54.9 NC_004333.2 + 11226 0.7 0.47437
Target:  5'- gGGCgCGGCuccuuGCCgGCGCuc-GAGUGCu -3'
miRNA:   3'- gCCG-GCUGu----UGGgCGCGuuuCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 12220 0.74 0.262935
Target:  5'- cCGGCCGGCAACCCccaaucaccugcaggGCGCuucaucAGcAGUACu -3'
miRNA:   3'- -GCCGGCUGUUGGG---------------CGCGuu----UC-UCAUG- -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.