miRNA display CGI


Results 1 - 20 of 36 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
21303 3' -57.9 NC_004778.3 + 121717 0.66 0.7675
Target:  5'- uGCaggGCGCcaaaacGGCcgGCGuGGGCGUGUUGc -3'
miRNA:   3'- uCGa--CGCG------UCGuaCGU-CCUGCACGAC- -5'
21303 3' -57.9 NC_004778.3 + 103138 0.66 0.7675
Target:  5'- uGCucgUGUGCGGCG-GCGGGugGgUGCa- -3'
miRNA:   3'- uCG---ACGCGUCGUaCGUCCugC-ACGac -5'
21303 3' -57.9 NC_004778.3 + 65750 0.66 0.7675
Target:  5'- cGGCguuugGCGCAGCGaGCcGGGCGgugacgGCg- -3'
miRNA:   3'- -UCGa----CGCGUCGUaCGuCCUGCa-----CGac -5'
21303 3' -57.9 NC_004778.3 + 127640 0.66 0.757825
Target:  5'- aAGUUGUcaaCGGCAgguucgGCAaaauGGACGUGCUGc -3'
miRNA:   3'- -UCGACGc--GUCGUa-----CGU----CCUGCACGAC- -5'
21303 3' -57.9 NC_004778.3 + 104470 0.66 0.738138
Target:  5'- cAGCUGCGCuGCGUGCAacaccucGACGcGUa- -3'
miRNA:   3'- -UCGACGCGuCGUACGUc------CUGCaCGac -5'
21303 3' -57.9 NC_004778.3 + 44000 0.66 0.738138
Target:  5'- ---cGCGCGGCcgGCGGGuauuuaACG-GCUGa -3'
miRNA:   3'- ucgaCGCGUCGuaCGUCC------UGCaCGAC- -5'
21303 3' -57.9 NC_004778.3 + 33757 0.66 0.738138
Target:  5'- uGCUgGCGCGGCAcugGCAucGaGugGUGCUc -3'
miRNA:   3'- uCGA-CGCGUCGUa--CGU--C-CugCACGAc -5'
21303 3' -57.9 NC_004778.3 + 77654 0.66 0.738138
Target:  5'- cGCUGUuaaCAGUcUGCGGGACGcgaaccgGCUGa -3'
miRNA:   3'- uCGACGc--GUCGuACGUCCUGCa------CGAC- -5'
21303 3' -57.9 NC_004778.3 + 48137 0.66 0.728147
Target:  5'- uGUUGCGC-GCGUGCGcgcguacuGGcGCGUGCUu -3'
miRNA:   3'- uCGACGCGuCGUACGU--------CC-UGCACGAc -5'
21303 3' -57.9 NC_004778.3 + 43379 0.66 0.728147
Target:  5'- uGUUGcCGCAGCAcgcguacguuuUGCGGcaGGCGUGCg- -3'
miRNA:   3'- uCGAC-GCGUCGU-----------ACGUC--CUGCACGac -5'
21303 3' -57.9 NC_004778.3 + 53257 0.67 0.718068
Target:  5'- uGCUGUgGCGGCGguugcUGCGGcGGCGguUGCUGc -3'
miRNA:   3'- uCGACG-CGUCGU-----ACGUC-CUGC--ACGAC- -5'
21303 3' -57.9 NC_004778.3 + 107898 0.67 0.718068
Target:  5'- gGGCUGCGCcGU-UGC-GGAaacgGUGCUGg -3'
miRNA:   3'- -UCGACGCGuCGuACGuCCUg---CACGAC- -5'
21303 3' -57.9 NC_004778.3 + 45681 0.67 0.711984
Target:  5'- uGGCgcgGCGCGGCAuuuuuuccuccUcauacagggugucggGCAGGugGUGCa- -3'
miRNA:   3'- -UCGa--CGCGUCGU-----------A---------------CGUCCugCACGac -5'
21303 3' -57.9 NC_004778.3 + 34421 0.67 0.707914
Target:  5'- cGGCaGCGCGGCGUGCccGuAC-UGCUGu -3'
miRNA:   3'- -UCGaCGCGUCGUACGucC-UGcACGAC- -5'
21303 3' -57.9 NC_004778.3 + 74967 0.67 0.707914
Target:  5'- gGGCgcaagGCGguGUAcuUGCcGGGCGUGCc- -3'
miRNA:   3'- -UCGa----CGCguCGU--ACGuCCUGCACGac -5'
21303 3' -57.9 NC_004778.3 + 101468 0.67 0.707914
Target:  5'- cAGCaUGCGCgucaaGGUGUGCgaugAGGACG-GCUGc -3'
miRNA:   3'- -UCG-ACGCG-----UCGUACG----UCCUGCaCGAC- -5'
21303 3' -57.9 NC_004778.3 + 53152 0.67 0.707914
Target:  5'- uGCUGUgGCGGCGguugcgGCGGGGCcUGCg- -3'
miRNA:   3'- uCGACG-CGUCGUa-----CGUCCUGcACGac -5'
21303 3' -57.9 NC_004778.3 + 77880 0.67 0.687415
Target:  5'- cGCU-CGguGCGcGCGGG-UGUGCUGa -3'
miRNA:   3'- uCGAcGCguCGUaCGUCCuGCACGAC- -5'
21303 3' -57.9 NC_004778.3 + 60586 0.67 0.67709
Target:  5'- aAGCUGCGCAGCA-GCAcGAuCG-GcCUGa -3'
miRNA:   3'- -UCGACGCGUCGUaCGUcCU-GCaC-GAC- -5'
21303 3' -57.9 NC_004778.3 + 38292 0.67 0.673984
Target:  5'- gAGCgGCGCAGCGggccugcgcuucacUGCGGacgcggacGGCGUGCg- -3'
miRNA:   3'- -UCGaCGCGUCGU--------------ACGUC--------CUGCACGac -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.