miRNA display CGI


Results 1 - 20 of 78 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
17138 3' -57.7 NC_004333.2 + 30045 0.66 0.556694
Target:  5'- cGGCGCCggugGCAgCGCGGCcgcgcUCGGCa- -3'
miRNA:   3'- cUCGCGGaa--CGU-GCGUCGc----AGCUGcu -5'
17138 3' -57.7 NC_004333.2 + 25408 0.66 0.556694
Target:  5'- cGAGCGC---GCcUGCAGCGUgcCGGCGGc -3'
miRNA:   3'- -CUCGCGgaaCGuGCGUCGCA--GCUGCU- -5'
17138 3' -57.7 NC_004333.2 + 32542 0.66 0.556694
Target:  5'- -cGCGCg--GCGCGCucGCGUCGAUc- -3'
miRNA:   3'- cuCGCGgaaCGUGCGu-CGCAGCUGcu -5'
17138 3' -57.7 NC_004333.2 + 26052 0.66 0.550242
Target:  5'- -uGCGCCggauuugccagugGCGcCGCAGCGgCGGCGc -3'
miRNA:   3'- cuCGCGGaa-----------CGU-GCGUCGCaGCUGCu -5'
17138 3' -57.7 NC_004333.2 + 23077 0.66 0.545953
Target:  5'- cGAGuUGCCUUGCugcUGCAgcugcaucgguuGCGUCGGCuGAa -3'
miRNA:   3'- -CUC-GCGGAACGu--GCGU------------CGCAGCUG-CU- -5'
17138 3' -57.7 NC_004333.2 + 4205 0.66 0.545953
Target:  5'- -uGCGCCUggauuUGCAgcUGC-GCGUUGACGc -3'
miRNA:   3'- cuCGCGGA-----ACGU--GCGuCGCAGCUGCu -5'
17138 3' -57.7 NC_004333.2 + 31097 0.66 0.545953
Target:  5'- cGGCGCCUgGCcCGuCAGCGgCG-CGAg -3'
miRNA:   3'- cUCGCGGAaCGuGC-GUCGCaGCuGCU- -5'
17138 3' -57.7 NC_004333.2 + 15541 0.66 0.545953
Target:  5'- -uGCGCUcgGCACGCcaAGCG-CGcCGAu -3'
miRNA:   3'- cuCGCGGaaCGUGCG--UCGCaGCuGCU- -5'
17138 3' -57.7 NC_004333.2 + 13932 0.66 0.53528
Target:  5'- cGGCGCg--GCGCGCucaauGCGcUCGACGc -3'
miRNA:   3'- cUCGCGgaaCGUGCGu----CGC-AGCUGCu -5'
17138 3' -57.7 NC_004333.2 + 19999 0.66 0.53528
Target:  5'- -cGcCGCCcgGCGCGCucguCGUCGAUGAu -3'
miRNA:   3'- cuC-GCGGaaCGUGCGuc--GCAGCUGCU- -5'
17138 3' -57.7 NC_004333.2 + 13829 0.66 0.53528
Target:  5'- -cGCGCgagcgGCGCGCGGCGUCcuACGc -3'
miRNA:   3'- cuCGCGgaa--CGUGCGUCGCAGc-UGCu -5'
17138 3' -57.7 NC_004333.2 + 19961 0.66 0.53528
Target:  5'- cGAGUGCUUUGCccgacuGCGCGcUGUCGGCc- -3'
miRNA:   3'- -CUCGCGGAACG------UGCGUcGCAGCUGcu -5'
17138 3' -57.7 NC_004333.2 + 17294 0.66 0.528911
Target:  5'- cGGCuuuGCCUUGCA-GUAGCGgcagugaucgcccgCGACGAu -3'
miRNA:   3'- cUCG---CGGAACGUgCGUCGCa-------------GCUGCU- -5'
17138 3' -57.7 NC_004333.2 + 37742 0.66 0.524681
Target:  5'- -cGCGCC-UGCGCG-AGa-UCGACGAg -3'
miRNA:   3'- cuCGCGGaACGUGCgUCgcAGCUGCU- -5'
17138 3' -57.7 NC_004333.2 + 31152 0.66 0.524681
Target:  5'- aGGCGCCgaaccUGCAgGCGcucGCGUCGuuCGGc -3'
miRNA:   3'- cUCGCGGa----ACGUgCGU---CGCAGCu-GCU- -5'
17138 3' -57.7 NC_004333.2 + 26604 0.66 0.524681
Target:  5'- cGGCGCgUUcacgacaaaGCugGCGGCGUUGAUc- -3'
miRNA:   3'- cUCGCGgAA---------CGugCGUCGCAGCUGcu -5'
17138 3' -57.7 NC_004333.2 + 9351 0.66 0.524681
Target:  5'- --uCGUCgucgGCGCGCGGCGUCGGg-- -3'
miRNA:   3'- cucGCGGaa--CGUGCGUCGCAGCUgcu -5'
17138 3' -57.7 NC_004333.2 + 12388 0.66 0.514163
Target:  5'- -cGCGCCccgcccgGCGCGcCAGUGUCGcCGc -3'
miRNA:   3'- cuCGCGGaa-----CGUGC-GUCGCAGCuGCu -5'
17138 3' -57.7 NC_004333.2 + 41480 0.66 0.513116
Target:  5'- cGAGCucgagaaGUCggaGCGCGUguuaGGCGUCGAUGAg -3'
miRNA:   3'- -CUCG-------CGGaa-CGUGCG----UCGCAGCUGCU- -5'
17138 3' -57.7 NC_004333.2 + 47949 0.66 0.503732
Target:  5'- aAGCuGCUcgGCGCGCuGGuCGUCGGCGu -3'
miRNA:   3'- cUCG-CGGaaCGUGCG-UC-GCAGCUGCu -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.