miRNA display CGI


Results 1 - 20 of 126 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
29025 3' -59 NC_006146.1 + 114729 0.66 0.829227
Target:  5'- -cGGCCGAGUaucGGCgcauccucaAGGAcgGCCGcGGGg -3'
miRNA:   3'- caCCGGCUCA---CCG---------UCCUagUGGU-CCC- -5'
29025 3' -59 NC_006146.1 + 102798 0.66 0.829227
Target:  5'- -cGGaCCGGcUGGCcgcccaccuGGAUCGCgCGGGGg -3'
miRNA:   3'- caCC-GGCUcACCGu--------CCUAGUG-GUCCC- -5'
29025 3' -59 NC_006146.1 + 96153 0.66 0.829227
Target:  5'- uUGGCCccccgGAGgcUGGCucacuGGGUCccuCCAGGGc -3'
miRNA:   3'- cACCGG-----CUC--ACCGu----CCUAGu--GGUCCC- -5'
29025 3' -59 NC_006146.1 + 117249 0.66 0.829227
Target:  5'- -cGGCCGGGgccaGgGGGGUCGgCAGGu -3'
miRNA:   3'- caCCGGCUCac--CgUCCUAGUgGUCCc -5'
29025 3' -59 NC_006146.1 + 87748 0.66 0.829227
Target:  5'- -aGGCCcucuGUGGCuGGAUUAucucCCAGGa -3'
miRNA:   3'- caCCGGcu--CACCGuCCUAGU----GGUCCc -5'
29025 3' -59 NC_006146.1 + 148049 0.66 0.829227
Target:  5'- -gGGCCcaugaugaugagGAGgaugaugaUGaGCAGGAgCACCAGGGc -3'
miRNA:   3'- caCCGG------------CUC--------AC-CGUCCUaGUGGUCCC- -5'
29025 3' -59 NC_006146.1 + 72566 0.66 0.829227
Target:  5'- -gGcGCCGGcGUGGUgcuGGGGcUUGCCGGGGu -3'
miRNA:   3'- caC-CGGCU-CACCG---UCCU-AGUGGUCCC- -5'
29025 3' -59 NC_006146.1 + 85572 0.66 0.826767
Target:  5'- -gGGCacgugGGGUGGCAGGAggcagccgcccgccUCggaagcuggcACCGGGGc -3'
miRNA:   3'- caCCGg----CUCACCGUCCU--------------AG----------UGGUCCC- -5'
29025 3' -59 NC_006146.1 + 109190 0.66 0.820971
Target:  5'- uGUGGCCGGG-GGCauguAGGG-CAUCAGa- -3'
miRNA:   3'- -CACCGGCUCaCCG----UCCUaGUGGUCcc -5'
29025 3' -59 NC_006146.1 + 137887 0.66 0.812552
Target:  5'- -gGGCCGGcaggggguccccGUGGaCAGG---GCCGGGGg -3'
miRNA:   3'- caCCGGCU------------CACC-GUCCuagUGGUCCC- -5'
29025 3' -59 NC_006146.1 + 131542 0.66 0.812552
Target:  5'- aGUGGgaCGuuuGGUGGUGGGA-CGCCGGGu -3'
miRNA:   3'- -CACCg-GC---UCACCGUCCUaGUGGUCCc -5'
29025 3' -59 NC_006146.1 + 39155 0.66 0.812552
Target:  5'- gGUGGCCGGGUccucccaGCAGGuccguGUCucuCCAGGu -3'
miRNA:   3'- -CACCGGCUCAc------CGUCC-----UAGu--GGUCCc -5'
29025 3' -59 NC_006146.1 + 15947 0.66 0.803979
Target:  5'- -aGGCUGGGUGGCuGGGcaggccggucUCGgguCUGGGGg -3'
miRNA:   3'- caCCGGCUCACCGuCCU----------AGU---GGUCCC- -5'
29025 3' -59 NC_006146.1 + 24109 0.66 0.803979
Target:  5'- -gGGUCGAG-GGCGGcuggCACCGGGc -3'
miRNA:   3'- caCCGGCUCaCCGUCcua-GUGGUCCc -5'
29025 3' -59 NC_006146.1 + 124228 0.66 0.795258
Target:  5'- cUGGuCCGAcGUGG-AGGccaaCGCCGGGGa -3'
miRNA:   3'- cACC-GGCU-CACCgUCCua--GUGGUCCC- -5'
29025 3' -59 NC_006146.1 + 129346 0.66 0.795258
Target:  5'- -cGGCCGAGUGGCuucuaaAGaGAgaGCCggagAGGGa -3'
miRNA:   3'- caCCGGCUCACCG------UC-CUagUGG----UCCC- -5'
29025 3' -59 NC_006146.1 + 60960 0.66 0.795258
Target:  5'- -aGGCCcggGGGUGG-GGGGUCACCuuGGu -3'
miRNA:   3'- caCCGG---CUCACCgUCCUAGUGGucCC- -5'
29025 3' -59 NC_006146.1 + 40323 0.66 0.78907
Target:  5'- -aGGCCGgaggaggguagccguGGUGGUaggcgugGGGAUCugCGGcGGa -3'
miRNA:   3'- caCCGGC---------------UCACCG-------UCCUAGugGUC-CC- -5'
29025 3' -59 NC_006146.1 + 170417 0.66 0.786397
Target:  5'- -gGGCgGAG-GGgGGGGUC-CCGcGGGg -3'
miRNA:   3'- caCCGgCUCaCCgUCCUAGuGGU-CCC- -5'
29025 3' -59 NC_006146.1 + 4936 0.66 0.786397
Target:  5'- gGUGGCCGugcucuGUGcccCGGGG--ACCAGGGg -3'
miRNA:   3'- -CACCGGCu-----CACc--GUCCUagUGGUCCC- -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.