miRNA display CGI


Results 1 - 20 of 60 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
29981 5' -56.3 NC_006273.1 + 6399 1.09 0.00378
Target:  5'- aUCACGCCAGGCGUUGCAGAGACACCAg -3'
miRNA:   3'- -AGUGCGGUCCGCAACGUCUCUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 1170 0.73 0.630764
Target:  5'- -aGCGCCAGGCGcUGaCGGAGcuggaAUACCAg -3'
miRNA:   3'- agUGCGGUCCGCaAC-GUCUC-----UGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 196063 0.73 0.630764
Target:  5'- -aGCGCCAGGCGcUGaCGGAGcuggaAUACCAg -3'
miRNA:   3'- agUGCGGUCCGCaAC-GUCUC-----UGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 170846 0.73 0.640763
Target:  5'- uUCAUgGCgAGGcCGgcgGCAGGGACACCGa -3'
miRNA:   3'- -AGUG-CGgUCC-GCaa-CGUCUCUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 64253 0.71 0.710135
Target:  5'- gCGgGCaCGGGCGUUGCGGcGGCgGCCGa -3'
miRNA:   3'- aGUgCG-GUCCGCAACGUCuCUG-UGGU- -5'
29981 5' -56.3 NC_006273.1 + 189839 0.7 0.767232
Target:  5'- cCACGCCGGGUGgcaucUGCggcauggcggggGGAGACGCg- -3'
miRNA:   3'- aGUGCGGUCCGCa----ACG------------UCUCUGUGgu -5'
29981 5' -56.3 NC_006273.1 + 141174 0.7 0.776396
Target:  5'- -uGCGCCGGGgGgcgGCGGGcACGCCGg -3'
miRNA:   3'- agUGCGGUCCgCaa-CGUCUcUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 101166 0.69 0.820206
Target:  5'- cUCGgGCaCGGGCGUgGCGGccguAGGCGCCu -3'
miRNA:   3'- -AGUgCG-GUCCGCAaCGUC----UCUGUGGu -5'
29981 5' -56.3 NC_006273.1 + 10017 0.69 0.820206
Target:  5'- aCGuCGCCAGGUGaUGguGaAGAuCACCAa -3'
miRNA:   3'- aGU-GCGGUCCGCaACguC-UCU-GUGGU- -5'
29981 5' -56.3 NC_006273.1 + 91288 0.69 0.828509
Target:  5'- ---aGCaCAGGCGUacgcaCAGAGACGCCGa -3'
miRNA:   3'- agugCG-GUCCGCAac---GUCUCUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 140156 0.69 0.828509
Target:  5'- aCACGCCAcagccuGGUGggGUccGAGGCGCCGa -3'
miRNA:   3'- aGUGCGGU------CCGCaaCGu-CUCUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 190473 0.69 0.8516
Target:  5'- gUUGCGCCGgacGGCGUUguggcgcGCAGGGGCuCCGa -3'
miRNA:   3'- -AGUGCGGU---CCGCAA-------CGUCUCUGuGGU- -5'
29981 5' -56.3 NC_006273.1 + 50704 0.69 0.852369
Target:  5'- gCACGCC-GGCGUUaggucgcuacucGCuGGGAgACCAg -3'
miRNA:   3'- aGUGCGGuCCGCAA------------CGuCUCUgUGGU- -5'
29981 5' -56.3 NC_006273.1 + 79374 0.68 0.86514
Target:  5'- cCACGCCGGuaaaaccguagaaaGCGUUGCAcguuacuuuGAG-CGCCAu -3'
miRNA:   3'- aGUGCGGUC--------------CGCAACGU---------CUCuGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 27369 0.68 0.867334
Target:  5'- aCACaGCCAGacGCGUUcgucaGCAGcGACGCCGa -3'
miRNA:   3'- aGUG-CGGUC--CGCAA-----CGUCuCUGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 26121 0.68 0.874516
Target:  5'- aCGcCGCCGGGCGcUGCGGucccGACAUgGa -3'
miRNA:   3'- aGU-GCGGUCCGCaACGUCu---CUGUGgU- -5'
29981 5' -56.3 NC_006273.1 + 132128 0.68 0.874516
Target:  5'- --gUGCUGGGCGUguUGCAGAGuaucagcgguACGCCGc -3'
miRNA:   3'- aguGCGGUCCGCA--ACGUCUC----------UGUGGU- -5'
29981 5' -56.3 NC_006273.1 + 64481 0.68 0.874516
Target:  5'- ---aGCCAGGCGcaGCAG-GACAUCu -3'
miRNA:   3'- agugCGGUCCGCaaCGUCuCUGUGGu -5'
29981 5' -56.3 NC_006273.1 + 7681 0.68 0.874516
Target:  5'- aCAUGCCgaugguauGGGCGgcgGCGGcAGugGCCGc -3'
miRNA:   3'- aGUGCGG--------UCCGCaa-CGUC-UCugUGGU- -5'
29981 5' -56.3 NC_006273.1 + 66216 0.68 0.881492
Target:  5'- -gACGUCGGGUGUUGCAacgucaacgcGAGGaaUACCAc -3'
miRNA:   3'- agUGCGGUCCGCAACGU----------CUCU--GUGGU- -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.