miRNA display CGI


Results 1 - 20 of 121 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
28732 3' -59.3 NC_006146.1 + 58967 0.66 0.823282
Target:  5'- -uGCgGCCGGUAUaauGAUGGcCACCa -3'
miRNA:   3'- gcCGaCGGCCGUGgcuCUACCaGUGG- -5'
28732 3' -59.3 NC_006146.1 + 144719 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 141642 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 72367 0.66 0.797063
Target:  5'- cCGGCUGgCGGCGacgaaacCCGAGucggGUGGg-GCCc -3'
miRNA:   3'- -GCCGACgGCCGU-------GGCUC----UACCagUGG- -5'
28732 3' -59.3 NC_006146.1 + 115421 0.66 0.795324
Target:  5'- gCGGCcggGCCucguucucgcccgcGGcCAUCGAGcgGGUgGCCa -3'
miRNA:   3'- -GCCGa--CGG--------------CC-GUGGCUCuaCCAgUGG- -5'
28732 3' -59.3 NC_006146.1 + 53029 0.66 0.791828
Target:  5'- gCGGCUggccgcgGCCGcCGCCGAGAgguaaggggggcgggUGGggaaCACCg -3'
miRNA:   3'- -GCCGA-------CGGCcGUGGCUCU---------------ACCa---GUGG- -5'
28732 3' -59.3 NC_006146.1 + 42327 0.66 0.797931
Target:  5'- aGGUUGCUgacuGGC-CCGGGA-GGUCAgUg -3'
miRNA:   3'- gCCGACGG----CCGuGGCUCUaCCAGUgG- -5'
28732 3' -59.3 NC_006146.1 + 85606 0.66 0.797931
Target:  5'- uCGGaaGCUGGCACCGGGGcaaaGG--GCCa -3'
miRNA:   3'- -GCCgaCGGCCGUGGCUCUa---CCagUGG- -5'
28732 3' -59.3 NC_006146.1 + 126799 0.66 0.797931
Target:  5'- gGGCaGCCGGgGCCuGGA-GGUUuCCg -3'
miRNA:   3'- gCCGaCGGCCgUGGcUCUaCCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 147797 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 150875 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 153953 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -5'
28732 3' -59.3 NC_006146.1 + 114285 0.66 0.823282
Target:  5'- uGGCUGCCacuauGGaCGCCGGcGA-GGagACCg -3'
miRNA:   3'- gCCGACGG-----CC-GUGGCU-CUaCCagUGG- -5'
28732 3' -59.3 NC_006146.1 + 43628 0.66 0.823282
Target:  5'- aGGgaGUgGGCGgCGGGGcgUGGcCGCCu -3'
miRNA:   3'- gCCgaCGgCCGUgGCUCU--ACCaGUGG- -5'
28732 3' -59.3 NC_006146.1 + 126588 0.66 0.814145
Target:  5'- cCGGCUGCCacGGCcccagcccccacuACCGGuuuggcGGUGGUCGgUg -3'
miRNA:   3'- -GCCGACGG--CCG-------------UGGCU------CUACCAGUgG- -5'
28732 3' -59.3 NC_006146.1 + 137690 0.66 0.806531
Target:  5'- cCGGCUGCCccggaGCACCaGGAgcacccGGagGCCa -3'
miRNA:   3'- -GCCGACGGc----CGUGGcUCUa-----CCagUGG- -5'
28732 3' -59.3 NC_006146.1 + 59691 0.66 0.806531
Target:  5'- gCGGCaaUGCCGGUGCCGgAGGcggagguguuguUGGUguagGCCg -3'
miRNA:   3'- -GCCG--ACGGCCGUGGC-UCU------------ACCAg---UGG- -5'
28732 3' -59.3 NC_006146.1 + 10533 0.66 0.806531
Target:  5'- gCGGcCUGCCaagGGCGCUGAGA----CGCCa -3'
miRNA:   3'- -GCC-GACGG---CCGUGGCUCUaccaGUGG- -5'
28732 3' -59.3 NC_006146.1 + 33019 0.66 0.805677
Target:  5'- aCGGggaccccCUGCCGGC-CCGGGgcGGg-GCCc -3'
miRNA:   3'- -GCC-------GACGGCCGuGGCUCuaCCagUGG- -5'
28732 3' -59.3 NC_006146.1 + 157031 0.66 0.797931
Target:  5'- gCGGCUGCgGGggacgcuggcaCACCGGGccgccggGGUC-CCu -3'
miRNA:   3'- -GCCGACGgCC-----------GUGGCUCua-----CCAGuGG- -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.