miRNA display CGI


Results 1 - 20 of 35 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
1565 5' -55.5 NC_001347.2 + 80667 0.66 0.964422
Target:  5'- cGCgCUCCCGUa-ACAGCGcCG-GCAGCc -3'
miRNA:   3'- -CG-GAGGGCGagUGUUGC-GCaCGUUGu -5'
1565 5' -55.5 NC_001347.2 + 192745 0.66 0.964422
Target:  5'- uGCCUUuuGCcgCGCGAguCGCGUGuUGACGg -3'
miRNA:   3'- -CGGAGggCGa-GUGUU--GCGCAC-GUUGU- -5'
1565 5' -55.5 NC_001347.2 + 198538 0.66 0.964422
Target:  5'- gGCgUCCUGCUgacgCACGACGCGUaaaaaGUcaAACAa -3'
miRNA:   3'- -CGgAGGGCGA----GUGUUGCGCA-----CG--UUGU- -5'
1565 5' -55.5 NC_001347.2 + 78582 0.66 0.964422
Target:  5'- cGCgaCCUGCUCACGcgcuACGCcucGCGGCGc -3'
miRNA:   3'- -CGgaGGGCGAGUGU----UGCGca-CGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 40225 0.66 0.964422
Target:  5'- cGCCggcacaCCCGC-CAC-ACGCccGCGACAc -3'
miRNA:   3'- -CGGa-----GGGCGaGUGuUGCGcaCGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 36733 0.66 0.961088
Target:  5'- uGCacgCUGCUCACGACGUgugGUGUAACu -3'
miRNA:   3'- -CGgagGGCGAGUGUUGCG---CACGUUGu -5'
1565 5' -55.5 NC_001347.2 + 102203 0.66 0.961088
Target:  5'- aGCUUaacgacaCCGUUCGCAACGCGUuGCc--- -3'
miRNA:   3'- -CGGAg------GGCGAGUGUUGCGCA-CGuugu -5'
1565 5' -55.5 NC_001347.2 + 169120 0.66 0.961088
Target:  5'- gGCCUCggCCGCgCGCGcCGCGcUGCAGu- -3'
miRNA:   3'- -CGGAG--GGCGaGUGUuGCGC-ACGUUgu -5'
1565 5' -55.5 NC_001347.2 + 229185 0.66 0.961088
Target:  5'- aCCUCCC-CUaCGCGGCGCGaaCAGCc -3'
miRNA:   3'- cGGAGGGcGA-GUGUUGCGCacGUUGu -5'
1565 5' -55.5 NC_001347.2 + 38406 0.66 0.961088
Target:  5'- cGUCUCcgugCCGCUCGCcGCugGCG-GCGACGu -3'
miRNA:   3'- -CGGAG----GGCGAGUGuUG--CGCaCGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 225412 0.66 0.957543
Target:  5'- uCUUUCCGCUUACccAACGCGU-CAGCc -3'
miRNA:   3'- cGGAGGGCGAGUG--UUGCGCAcGUUGu -5'
1565 5' -55.5 NC_001347.2 + 115014 0.66 0.957543
Target:  5'- cGCCg-CCGCUCAUAAugccgucaccguCGCGUccgacGCGACGg -3'
miRNA:   3'- -CGGagGGCGAGUGUU------------GCGCA-----CGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 193216 0.66 0.957177
Target:  5'- gGUCUUuuGCacgCGCGACuuggccgaccuguGCGUGCGACGc -3'
miRNA:   3'- -CGGAGggCGa--GUGUUG-------------CGCACGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 23553 0.66 0.953783
Target:  5'- aGCCcuggCCUGCUCACcauuuauaGCGUGCucACGa -3'
miRNA:   3'- -CGGa---GGGCGAGUGuug-----CGCACGu-UGU- -5'
1565 5' -55.5 NC_001347.2 + 114058 0.66 0.953395
Target:  5'- cGCUaCCCGCUCACcgagcgaacgaugAugGCccGCGACGa -3'
miRNA:   3'- -CGGaGGGCGAGUG-------------UugCGcaCGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 196266 0.67 0.949805
Target:  5'- gGCCUUuuGCgagUGCGGCGaCGggcGCGACAa -3'
miRNA:   3'- -CGGAGggCGa--GUGUUGC-GCa--CGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 198577 0.67 0.949805
Target:  5'- cGCCggCgUGCUCGCGuagaGCGCGUGUcgUAg -3'
miRNA:   3'- -CGGa-GgGCGAGUGU----UGCGCACGuuGU- -5'
1565 5' -55.5 NC_001347.2 + 83879 0.67 0.931654
Target:  5'- cGCCgUCCGCuacuuUCGCgGACGCGguaGCGGCAg -3'
miRNA:   3'- -CGGaGGGCG-----AGUG-UUGCGCa--CGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 38060 0.67 0.931654
Target:  5'- cGCCcagcacgCCCGCgCGCAGaaaGUGCGACAg -3'
miRNA:   3'- -CGGa------GGGCGaGUGUUgcgCACGUUGU- -5'
1565 5' -55.5 NC_001347.2 + 198106 0.68 0.913934
Target:  5'- --gUCCCGCUCGuCGcguugaggauagucGCGCGgugGCAGCGg -3'
miRNA:   3'- cggAGGGCGAGU-GU--------------UGCGCa--CGUUGU- -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.