miRNA display CGI


Results 1 - 20 of 47 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
31658 5' -59.7 NC_006883.1 + 211193 0.66 0.840776
Target:  5'- cAGGAuggagcuuauCCUGGAGGACCACaagccuuugaagauaAGUAuGGAu -3'
miRNA:   3'- cUCCU----------GGACCUCCUGGUGg--------------UCGU-CCU- -5'
31658 5' -59.7 NC_006883.1 + 23410 0.67 0.794066
Target:  5'- -uGGACCUGGuccugcugguccuccAGGuCCAucugguCCAGCAGGu -3'
miRNA:   3'- cuCCUGGACC---------------UCCuGGU------GGUCGUCCu -5'
31658 5' -59.7 NC_006883.1 + 222975 0.67 0.815985
Target:  5'- cAGGugaACCUuGuGGACCaguuccACCAGCAGGAc -3'
miRNA:   3'- cUCC---UGGAcCuCCUGG------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 23159 0.67 0.799209
Target:  5'- ---aACCUGGAG---CACCAGCAGGAc -3'
miRNA:   3'- cuccUGGACCUCcugGUGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 212143 0.68 0.736587
Target:  5'- aGAGGACCUGGAucaGGugCuccugguaCAGCAGa- -3'
miRNA:   3'- -CUCCUGGACCU---CCugGug------GUCGUCcu -5'
31658 5' -59.7 NC_006883.1 + 24969 0.68 0.773038
Target:  5'- -uGGACCUGauGGACCACUuggaccuGUAGGAc -3'
miRNA:   3'- cuCCUGGACcuCCUGGUGGu------CGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 26556 0.69 0.708359
Target:  5'- gGAGGACCUGcuGGACCuguaggACCuGCuGGAc -3'
miRNA:   3'- -CUCCUGGACcuCCUGG------UGGuCGuCCU- -5'
31658 5' -59.7 NC_006883.1 + 28452 0.7 0.611613
Target:  5'- gGAGGuCCUGGAGGACCACUuccuccauCAGa- -3'
miRNA:   3'- -CUCCuGGACCUCCUGGUGGuc------GUCcu -5'
31658 5' -59.7 NC_006883.1 + 23431 0.7 0.611613
Target:  5'- -uGGACCUGGuGGACCu---GUAGGAc -3'
miRNA:   3'- cuCCUGGACCuCCUGGugguCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 27506 0.7 0.631071
Target:  5'- -uGGACCUGuAGGACCugCuggaccuGUAGGAc -3'
miRNA:   3'- cuCCUGGACcUCCUGGugGu------CGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 27741 0.7 0.660245
Target:  5'- uGGGACCaguUGGuccuguGGGACCugucggACCAGUAGGAc -3'
miRNA:   3'- cUCCUGG---ACC------UCCUGG------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 22238 0.71 0.553769
Target:  5'- cAGGACCaGGAGGACCACUu---GGAc -3'
miRNA:   3'- cUCCUGGaCCUCCUGGUGGucguCCU- -5'
31658 5' -59.7 NC_006883.1 + 223026 0.72 0.501319
Target:  5'- uAGGACCaGGAuuuccaacaGGACCaguugcaccaggcgaACCAGCAGGAc -3'
miRNA:   3'- cUCCUGGaCCU---------CCUGG---------------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 21846 0.73 0.474125
Target:  5'- uAGGACCaGGAccaccacucGGACCaacaucaccuugaggGCCAGCAGGAc -3'
miRNA:   3'- cUCCUGGaCCU---------CCUGG---------------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 23719 0.74 0.394177
Target:  5'- -uGGACCUGGAGGACCugCu---GGAc -3'
miRNA:   3'- cuCCUGGACCUCCUGGugGucguCCU- -5'
31658 5' -59.7 NC_006883.1 + 222936 0.74 0.402264
Target:  5'- cAGGACCaGGAGaACCaguaggACCAGCAGGAc -3'
miRNA:   3'- cUCCUGGaCCUCcUGG------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 26817 0.75 0.389376
Target:  5'- uGGGGACCaGcAGGACCaguuggaccugguggACCAGCAGGAc -3'
miRNA:   3'- -CUCCUGGaCcUCCUGG---------------UGGUCGUCCU- -5'
31658 5' -59.7 NC_006883.1 + 21774 0.75 0.370559
Target:  5'- aAGGACCUGGAGGACCagaaggACCAGUu--- -3'
miRNA:   3'- cUCCUGGACCUCCUGG------UGGUCGuccu -5'
31658 5' -59.7 NC_006883.1 + 28407 0.76 0.326297
Target:  5'- gGAGGACCUGGAGGACCACUu------ -3'
miRNA:   3'- -CUCCUGGACCUCCUGGUGGucguccu -5'
31658 5' -59.7 NC_006883.1 + 23368 0.77 0.278522
Target:  5'- -uGGACCUGGAuuugaaggaccuacaGGACCaguuggaccuggagaACCAGCAGGAc -3'
miRNA:   3'- cuCCUGGACCU---------------CCUGG---------------UGGUCGUCCU- -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.