miRNA display CGI


Results 1 - 20 of 29 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
17153 3' -60.9 NC_004333.2 + 37752 0.66 0.42816
Target:  5'- aCGCgCCGG-GCC--GGCCGACgaGCGggUCg -3'
miRNA:   3'- -GCG-GGCCaCGGcaCCGGCUG--UGCa-AG- -5'
17153 3' -60.9 NC_004333.2 + 38626 0.66 0.418966
Target:  5'- uGCCCguGGUGcCCGUucugaucggcccGGgCGGCACGggCa -3'
miRNA:   3'- gCGGG--CCAC-GGCA------------CCgGCUGUGCaaG- -5'
17153 3' -60.9 NC_004333.2 + 5533 0.66 0.409893
Target:  5'- gGUCa--UGCCGUGGCCGGCgACGg-- -3'
miRNA:   3'- gCGGgccACGGCACCGGCUG-UGCaag -5'
17153 3' -60.9 NC_004333.2 + 2749 0.66 0.408993
Target:  5'- aGCCgagaucgCGGccGCCGU-GCCGGuCGCGUUCg -3'
miRNA:   3'- gCGG-------GCCa-CGGCAcCGGCU-GUGCAAG- -5'
17153 3' -60.9 NC_004333.2 + 32839 0.66 0.408993
Target:  5'- uGCaaGGUGCCGcgcuuaUGGCCGGCggcagcgaccugcGCGUg- -3'
miRNA:   3'- gCGggCCACGGC------ACCGGCUG-------------UGCAag -5'
17153 3' -60.9 NC_004333.2 + 2291 0.66 0.400944
Target:  5'- gGCaaguCGuGUaCCGUGGCCGGCACGc-- -3'
miRNA:   3'- gCGg---GC-CAcGGCACCGGCUGUGCaag -5'
17153 3' -60.9 NC_004333.2 + 18537 0.66 0.383423
Target:  5'- aCGCcuCCGGUGCCG-GGuuG-CGCGa-- -3'
miRNA:   3'- -GCG--GGCCACGGCaCCggCuGUGCaag -5'
17153 3' -60.9 NC_004333.2 + 25413 0.66 0.374855
Target:  5'- gCGCCUGcagcGUGCCGgcggcGGCCGuCACGc-- -3'
miRNA:   3'- -GCGGGC----CACGGCa----CCGGCuGUGCaag -5'
17153 3' -60.9 NC_004333.2 + 47609 0.66 0.374855
Target:  5'- aGCUgCGcGUcGCCGagaUGGgCGGCACGUUCg -3'
miRNA:   3'- gCGG-GC-CA-CGGC---ACCgGCUGUGCAAG- -5'
17153 3' -60.9 NC_004333.2 + 30050 0.67 0.363912
Target:  5'- gCGCUCGGcGCCgGUGGCagcgcggccgcgcuCGGCACGcgCu -3'
miRNA:   3'- -GCGGGCCaCGG-CACCG--------------GCUGUGCaaG- -5'
17153 3' -60.9 NC_004333.2 + 13955 0.67 0.354827
Target:  5'- aGCCC-GUGCCGgccgacuucgcgcGGCgCGGCGCGcUCa -3'
miRNA:   3'- gCGGGcCACGGCa------------CCG-GCUGUGCaAG- -5'
17153 3' -60.9 NC_004333.2 + 46904 0.67 0.34994
Target:  5'- aGCuuG-UGCCGUucgauGCCGAgCACGUUCg -3'
miRNA:   3'- gCGggCcACGGCAc----CGGCU-GUGCAAG- -5'
17153 3' -60.9 NC_004333.2 + 35796 0.67 0.34994
Target:  5'- aCGCcgCCGGaUGCCGUuauugugccuGaGCCGACacucGCGUUCg -3'
miRNA:   3'- -GCG--GGCC-ACGGCA----------C-CGGCUG----UGCAAG- -5'
17153 3' -60.9 NC_004333.2 + 37536 0.67 0.34994
Target:  5'- uCGuUCCGGUGCgcugcuCGUGcgucagcucGCCGACGCGUUg -3'
miRNA:   3'- -GC-GGGCCACG------GCAC---------CGGCUGUGCAAg -5'
17153 3' -60.9 NC_004333.2 + 16919 0.67 0.341901
Target:  5'- gCGCCCGcGUGUuaauCGUGGUCGACuACa--- -3'
miRNA:   3'- -GCGGGC-CACG----GCACCGGCUG-UGcaag -5'
17153 3' -60.9 NC_004333.2 + 45994 0.67 0.333996
Target:  5'- uGCCacuCGGcGCCGagGGCUGGCACGg-- -3'
miRNA:   3'- gCGG---GCCaCGGCa-CCGGCUGUGCaag -5'
17153 3' -60.9 NC_004333.2 + 2011 0.67 0.326225
Target:  5'- gGCCCGcGUcGCCGgugcgGGCCagcuggugcaGACGCGUg- -3'
miRNA:   3'- gCGGGC-CA-CGGCa----CCGG----------CUGUGCAag -5'
17153 3' -60.9 NC_004333.2 + 2647 0.68 0.31109
Target:  5'- cCGCCUGGacgGCCGUGauuGCCGAU-CGUcUCg -3'
miRNA:   3'- -GCGGGCCa--CGGCAC---CGGCUGuGCA-AG- -5'
17153 3' -60.9 NC_004333.2 + 38007 0.68 0.303725
Target:  5'- uCGCUCGGcuuCCaGUGcGCCGACcCGUUCg -3'
miRNA:   3'- -GCGGGCCac-GG-CAC-CGGCUGuGCAAG- -5'
17153 3' -60.9 NC_004333.2 + 17151 0.68 0.282436
Target:  5'- gGCCCGGUucGCCGaUGuuCCGGCGCGg-- -3'
miRNA:   3'- gCGGGCCA--CGGC-ACc-GGCUGUGCaag -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.