miRNA display CGI


Results 1 - 20 of 33 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
13109 3' -61.7 NC_003401.1 + 22344 1.1 0.000612
Target:  5'- aCGCAGACGCGGCCGUGCCAAGGGCUCa -3'
miRNA:   3'- -GCGUCUGCGCCGGCACGGUUCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 17497 0.77 0.131007
Target:  5'- aCGCGGACGCGGCgCGcgugGCCcccGGGUUCg -3'
miRNA:   3'- -GCGUCUGCGCCG-GCa---CGGuu-CCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 132538 0.73 0.253603
Target:  5'- aGCGGcccggcGCGCGGCgCGgggcgGCCGGGGGCg- -3'
miRNA:   3'- gCGUC------UGCGCCG-GCa----CGGUUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 121947 0.72 0.304788
Target:  5'- gGCuGGCGCGGCCGUGCCAc--GCc- -3'
miRNA:   3'- gCGuCUGCGCCGGCACGGUuccCGag -5'
13109 3' -61.7 NC_003401.1 + 18824 0.71 0.318763
Target:  5'- gCGCGGAuCGCGaGCUgGUGCUgcGGGUUCa -3'
miRNA:   3'- -GCGUCU-GCGC-CGG-CACGGuuCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 119705 0.71 0.340619
Target:  5'- gGCAGACGacagagaGGCCGUGCUGu-GGCUUu -3'
miRNA:   3'- gCGUCUGCg------CCGGCACGGUucCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 20272 0.71 0.348141
Target:  5'- cCGgGGACGCGgacGCCGcgGCCAuuGGCUCc -3'
miRNA:   3'- -GCgUCUGCGC---CGGCa-CGGUucCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 18450 0.7 0.363539
Target:  5'- gGCAgGGCGCGGCgGcgGCCAcaAGGGUg- -3'
miRNA:   3'- gCGU-CUGCGCCGgCa-CGGU--UCCCGag -5'
13109 3' -61.7 NC_003401.1 + 11751 0.7 0.363539
Target:  5'- uCGCGGugGUGGUCGcGCCcuuGGGGGUg- -3'
miRNA:   3'- -GCGUCugCGCCGGCaCGG---UUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 120406 0.7 0.379402
Target:  5'- aCGUGGAUGCGGuCUGuUGCC-AGGGCcCa -3'
miRNA:   3'- -GCGUCUGCGCC-GGC-ACGGuUCCCGaG- -5'
13109 3' -61.7 NC_003401.1 + 18973 0.7 0.387506
Target:  5'- uGaCAGACGCGuGCa--GCCAggAGGGCUCc -3'
miRNA:   3'- gC-GUCUGCGC-CGgcaCGGU--UCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 105490 0.69 0.421035
Target:  5'- gGCcagGGugGCGGCCGUcaCCuGGGcGCUCa -3'
miRNA:   3'- gCG---UCugCGCCGGCAc-GGuUCC-CGAG- -5'
13109 3' -61.7 NC_003401.1 + 22292 0.69 0.429688
Target:  5'- aCGUAGACGCaGCUGgGCgAAuGGCUCg -3'
miRNA:   3'- -GCGUCUGCGcCGGCaCGgUUcCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 124501 0.69 0.438444
Target:  5'- gGguGACGCagGGCCGU-CCuauAGaGGCUCg -3'
miRNA:   3'- gCguCUGCG--CCGGCAcGGu--UC-CCGAG- -5'
13109 3' -61.7 NC_003401.1 + 118439 0.69 0.447301
Target:  5'- gGCAGAgGcCGGCCG-GCCAaAGGuGCg- -3'
miRNA:   3'- gCGUCUgC-GCCGGCaCGGU-UCC-CGag -5'
13109 3' -61.7 NC_003401.1 + 122426 0.69 0.456256
Target:  5'- gCGCAGcGCGCGGCCGcUGCCGAaaccaacgccGCUUg -3'
miRNA:   3'- -GCGUC-UGCGCCGGC-ACGGUUcc--------CGAG- -5'
13109 3' -61.7 NC_003401.1 + 14625 0.68 0.464398
Target:  5'- aGCAGGCccucaagaacacaGcCGGCCGUGCCGcguGcGGCUUc -3'
miRNA:   3'- gCGUCUG-------------C-GCCGGCACGGUu--C-CCGAG- -5'
13109 3' -61.7 NC_003401.1 + 132556 0.68 0.465307
Target:  5'- cCGCGGcGCGCGGCuccCGaUGCCGGGcGGC-Cg -3'
miRNA:   3'- -GCGUC-UGCGCCG---GC-ACGGUUC-CCGaG- -5'
13109 3' -61.7 NC_003401.1 + 24751 0.68 0.493002
Target:  5'- cCGCAG-CGCgGGgCGUGUUAAgcGGGCUUg -3'
miRNA:   3'- -GCGUCuGCG-CCgGCACGGUU--CCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 132498 0.68 0.493002
Target:  5'- cCGCGGGCcCgGGCCGgcgggGCgGAGGGC-Cg -3'
miRNA:   3'- -GCGUCUGcG-CCGGCa----CGgUUCCCGaG- -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.