miRNA display CGI


Results 1 - 20 of 104 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
11437 3' -60.1 NC_003085.1 + 33978 1.12 0.000182
Target:  5'- gUCACUCACACGGCACCCCUGCGCCGCg -3'
miRNA:   3'- -AGUGAGUGUGCCGUGGGGACGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 20651 0.79 0.060539
Target:  5'- cUACUCcuugaGCcaGCGGCACUCCUcGCGCCGCa -3'
miRNA:   3'- aGUGAG-----UG--UGCCGUGGGGA-CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 6016 0.78 0.062275
Target:  5'- aUCGCUCagcaGCGCGGCACCCCUcacgacgacGCGaCGCu -3'
miRNA:   3'- -AGUGAG----UGUGCCGUGGGGA---------CGCgGCG- -5'
11437 3' -60.1 NC_003085.1 + 48369 0.75 0.102198
Target:  5'- -gACUCACGC-GCGCUCCUgagcgcggcgagcaGCGCCGCa -3'
miRNA:   3'- agUGAGUGUGcCGUGGGGA--------------CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 47873 0.75 0.111935
Target:  5'- cUCAUgCACACGGCACgCgUacgccGCGCCGCa -3'
miRNA:   3'- -AGUGaGUGUGCCGUGgGgA-----CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 7345 0.75 0.111935
Target:  5'- aCGCgggcUACAC-GCGCCCCUggGCGCCGCu -3'
miRNA:   3'- aGUGa---GUGUGcCGUGGGGA--CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 33102 0.74 0.128002
Target:  5'- cUCACUC-CugGGUggcgcugucgaacGCuCCCUaGCGCCGCa -3'
miRNA:   3'- -AGUGAGuGugCCG-------------UG-GGGA-CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 38008 0.73 0.143059
Target:  5'- aCGCUCACACcGCgucgGCCCCaacgGCGaCCGCu -3'
miRNA:   3'- aGUGAGUGUGcCG----UGGGGa---CGC-GGCG- -5'
11437 3' -60.1 NC_003085.1 + 17224 0.73 0.158444
Target:  5'- cCGCUggugagCACGCGGCGCCCCgugcucugggcgGUGuuGCg -3'
miRNA:   3'- aGUGA------GUGUGCCGUGGGGa-----------CGCggCG- -5'
11437 3' -60.1 NC_003085.1 + 4120 0.72 0.177172
Target:  5'- gCGC-CGCGCuGGgACUCCaGCGCCGCu -3'
miRNA:   3'- aGUGaGUGUG-CCgUGGGGaCGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 3564 0.72 0.181912
Target:  5'- -gGCgCACACGGCGacaCCUGCGCCuGUg -3'
miRNA:   3'- agUGaGUGUGCCGUgg-GGACGCGG-CG- -5'
11437 3' -60.1 NC_003085.1 + 30248 0.72 0.181912
Target:  5'- --cCUUGCGCGGCGCCCagccccCGCCGCc -3'
miRNA:   3'- aguGAGUGUGCCGUGGGgac---GCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 40781 0.72 0.186764
Target:  5'- -gACguuggCGgACGGCACCCCgGCGCC-Ca -3'
miRNA:   3'- agUGa----GUgUGCCGUGGGGaCGCGGcG- -5'
11437 3' -60.1 NC_003085.1 + 43963 0.72 0.19173
Target:  5'- -uGCUCccuCACGGCccgGCCCCa-CGCCGCg -3'
miRNA:   3'- agUGAGu--GUGCCG---UGGGGacGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 38960 0.71 0.207327
Target:  5'- gCGCUUcCGCGGauuCUCCagUGCGCCGCg -3'
miRNA:   3'- aGUGAGuGUGCCgu-GGGG--ACGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 2493 0.71 0.207866
Target:  5'- aCGCUCAaggcguggcugacggACGGUgugcccgcgucgGCCCCUGCGCgCGCc -3'
miRNA:   3'- aGUGAGUg--------------UGCCG------------UGGGGACGCG-GCG- -5'
11437 3' -60.1 NC_003085.1 + 48882 0.71 0.218325
Target:  5'- gUCGCcgCACACGGagcaUugCCCgccagccGCGCCGCc -3'
miRNA:   3'- -AGUGa-GUGUGCC----GugGGGa------CGCGGCG- -5'
11437 3' -60.1 NC_003085.1 + 2294 0.7 0.229231
Target:  5'- -gGCUCcggcaGCACGGCGCUggCCUGCcucgccaccggccGCCGCu -3'
miRNA:   3'- agUGAG-----UGUGCCGUGG--GGACG-------------CGGCG- -5'
11437 3' -60.1 NC_003085.1 + 12604 0.7 0.229818
Target:  5'- -gACUgACGCgcguGGCGCCCCggGCGCUGg -3'
miRNA:   3'- agUGAgUGUG----CCGUGGGGa-CGCGGCg -5'
11437 3' -60.1 NC_003085.1 + 48807 0.7 0.229818
Target:  5'- -gGCUCACgGCaGCACCUCUuucGCGCCGa -3'
miRNA:   3'- agUGAGUG-UGcCGUGGGGA---CGCGGCg -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.