miRNA display CGI


Results 1 - 18 of 18 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
3117 3' -52.2 NC_001493.1 + 80142 0.66 0.977396
Target:  5'- gGCCAuGGACGGgaUCCccccgcucgccaaGGGGCuGUGUUu -3'
miRNA:   3'- aUGGU-UCUGCCaaAGG-------------UCCUG-CACAG- -5'
3117 3' -52.2 NC_001493.1 + 4214 0.66 0.975081
Target:  5'- cGCCGAGACuccggUCCAGGcacACGUGg- -3'
miRNA:   3'- aUGGUUCUGccaa-AGGUCC---UGCACag -5'
3117 3' -52.2 NC_001493.1 + 40415 0.66 0.975081
Target:  5'- cUGCCGAccggcguacauGGCGGUgauguagaccUUCCAGGugGUcacgaGUCu -3'
miRNA:   3'- -AUGGUU-----------CUGCCA----------AAGGUCCugCA-----CAG- -5'
3117 3' -52.2 NC_001493.1 + 119768 0.66 0.975081
Target:  5'- cGCCGAGACuccggUCCAGGcacACGUGg- -3'
miRNA:   3'- aUGGUUCUGccaa-AGGUCC---UGCACag -5'
3117 3' -52.2 NC_001493.1 + 2829 0.66 0.969325
Target:  5'- cACgAAGACGGa--CgAGGGCGUGcUCa -3'
miRNA:   3'- aUGgUUCUGCCaaaGgUCCUGCAC-AG- -5'
3117 3' -52.2 NC_001493.1 + 37938 0.66 0.969325
Target:  5'- -uUCAGGGCGGggaUCGGGAUGUGg- -3'
miRNA:   3'- auGGUUCUGCCaaaGGUCCUGCACag -5'
3117 3' -52.2 NC_001493.1 + 118383 0.66 0.969325
Target:  5'- cACgAAGACGGa--CgAGGGCGUGcUCa -3'
miRNA:   3'- aUGgUUCUGCCaaaGgUCCUGCAC-AG- -5'
3117 3' -52.2 NC_001493.1 + 126409 0.67 0.962323
Target:  5'- gACCGcGGcCGGUUcgcgaUCCGGGACucuccggGUGUCg -3'
miRNA:   3'- aUGGUuCU-GCCAA-----AGGUCCUG-------CACAG- -5'
3117 3' -52.2 NC_001493.1 + 10855 0.67 0.962323
Target:  5'- gACCGcGGcCGGUUcgcgaUCCGGGACucuccggGUGUCg -3'
miRNA:   3'- aUGGUuCU-GCCAA-----AGGUCCUG-------CACAG- -5'
3117 3' -52.2 NC_001493.1 + 109004 0.68 0.936943
Target:  5'- -cCCGugcGGCGGcugUCCAGGGCGUcGUUg -3'
miRNA:   3'- auGGUu--CUGCCaa-AGGUCCUGCA-CAG- -5'
3117 3' -52.2 NC_001493.1 + 32599 0.69 0.908474
Target:  5'- gACCGGGACGGgcguuuacggUCCGGGgccauauccgcGCGUGcCg -3'
miRNA:   3'- aUGGUUCUGCCaa--------AGGUCC-----------UGCACaG- -5'
3117 3' -52.2 NC_001493.1 + 24170 0.69 0.908474
Target:  5'- aACCGguuGACGGUggggUCCAGGugGg--- -3'
miRNA:   3'- aUGGUu--CUGCCAa---AGGUCCugCacag -5'
3117 3' -52.2 NC_001493.1 + 50363 0.69 0.902009
Target:  5'- uUGCCAgAGGCGGggagUCCGGGAUGa--- -3'
miRNA:   3'- -AUGGU-UCUGCCaa--AGGUCCUGCacag -5'
3117 3' -52.2 NC_001493.1 + 64843 0.69 0.881112
Target:  5'- gAUCGAGAUGGUgugugUCgaCAGGGCGUGa- -3'
miRNA:   3'- aUGGUUCUGCCAa----AG--GUCCUGCACag -5'
3117 3' -52.2 NC_001493.1 + 69778 0.71 0.824266
Target:  5'- cACgGGGAUGGggaagCGGGACGUGUCc -3'
miRNA:   3'- aUGgUUCUGCCaaag-GUCCUGCACAG- -5'
3117 3' -52.2 NC_001493.1 + 92545 0.74 0.675704
Target:  5'- -cCCGAGccCGGUUuccUCCAGGAUGUGUUc -3'
miRNA:   3'- auGGUUCu-GCCAA---AGGUCCUGCACAG- -5'
3117 3' -52.2 NC_001493.1 + 43476 0.74 0.664048
Target:  5'- gGCCGaucucguAGACGGac-CCAGGGCGUGUa -3'
miRNA:   3'- aUGGU-------UCUGCCaaaGGUCCUGCACAg -5'
3117 3' -52.2 NC_001493.1 + 110610 1.08 0.006291
Target:  5'- cUACCAAGACGGUUUCCAGGACGUGUCu -3'
miRNA:   3'- -AUGGUUCUGCCAAAGGUCCUGCACAG- -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.