miRNA display CGI


Results 1 - 20 of 39 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
16310 3' -57.1 NC_004084.1 + 6144 0.66 0.676745
Target:  5'- gCGACCAGCGCcgGGGUUCcu-GGCGa- -3'
miRNA:   3'- aGCUGGUCGCG--CUCAAGcucUCGCgc -5'
16310 3' -57.1 NC_004084.1 + 34552 0.66 0.676745
Target:  5'- gCGAUCAcCGCGuccaucgCGAGGGCGCu -3'
miRNA:   3'- aGCUGGUcGCGCucaa---GCUCUCGCGc -5'
16310 3' -57.1 NC_004084.1 + 43754 0.66 0.676745
Target:  5'- cCGGCCGGgacgcuCGCGGGcaUCGAcuGGGCGCu -3'
miRNA:   3'- aGCUGGUC------GCGCUCa-AGCU--CUCGCGc -5'
16310 3' -57.1 NC_004084.1 + 25254 0.66 0.676745
Target:  5'- aCGGCCuccuuGCGCGGGagCGAGuGCa-- -3'
miRNA:   3'- aGCUGGu----CGCGCUCaaGCUCuCGcgc -5'
16310 3' -57.1 NC_004084.1 + 40746 0.66 0.666053
Target:  5'- cUCGACCAGCGuCGcccuGUgcUCGGGuGuCGCc -3'
miRNA:   3'- -AGCUGGUCGC-GCu---CA--AGCUCuC-GCGc -5'
16310 3' -57.1 NC_004084.1 + 27307 0.66 0.659623
Target:  5'- cUCGACgAGC-UGAuauucgaccguucacGUUCGAGGGaCGCGg -3'
miRNA:   3'- -AGCUGgUCGcGCU---------------CAAGCUCUC-GCGC- -5'
16310 3' -57.1 NC_004084.1 + 38671 0.66 0.65533
Target:  5'- -aGACCuGCgGCGAGgucagCGAGaAGUGCu -3'
miRNA:   3'- agCUGGuCG-CGCUCaa---GCUC-UCGCGc -5'
16310 3' -57.1 NC_004084.1 + 9830 0.66 0.644587
Target:  5'- cUCGAuCCAGCacuaCGAGgUCGGcGAGgGCGg -3'
miRNA:   3'- -AGCU-GGUCGc---GCUCaAGCU-CUCgCGC- -5'
16310 3' -57.1 NC_004084.1 + 39458 0.66 0.644587
Target:  5'- cCGACUGGCGCGAGcgccgaUCGAGgAG-GCc -3'
miRNA:   3'- aGCUGGUCGCGCUCa-----AGCUC-UCgCGc -5'
16310 3' -57.1 NC_004084.1 + 41324 0.66 0.623078
Target:  5'- cCGGCgAGCGCGGGUgagaaUGGGAGU-CGg -3'
miRNA:   3'- aGCUGgUCGCGCUCAa----GCUCUCGcGC- -5'
16310 3' -57.1 NC_004084.1 + 29237 0.66 0.623078
Target:  5'- cCGAgCAGgGCGAGUUCcgcuGGAcgaacggcccGCGCGa -3'
miRNA:   3'- aGCUgGUCgCGCUCAAGc---UCU----------CGCGC- -5'
16310 3' -57.1 NC_004084.1 + 51980 0.67 0.61233
Target:  5'- gCGACCAGUGgGcGUUCGAacugaAGcCGCGg -3'
miRNA:   3'- aGCUGGUCGCgCuCAAGCUc----UC-GCGC- -5'
16310 3' -57.1 NC_004084.1 + 15424 0.67 0.601598
Target:  5'- cUCGAUC-GCGuCGAGUuccucaUCGAG-GCGCu -3'
miRNA:   3'- -AGCUGGuCGC-GCUCA------AGCUCuCGCGc -5'
16310 3' -57.1 NC_004084.1 + 35400 0.67 0.601598
Target:  5'- aCGACCuucccgagAGCGUug--UUGAGAGCGCGc -3'
miRNA:   3'- aGCUGG--------UCGCGcucaAGCUCUCGCGC- -5'
16310 3' -57.1 NC_004084.1 + 22424 0.67 0.595171
Target:  5'- aUUGGCCGGUcuaCGAGgccaauaccgccgucUUCGGGGGCGCu -3'
miRNA:   3'- -AGCUGGUCGc--GCUC---------------AAGCUCUCGCGc -5'
16310 3' -57.1 NC_004084.1 + 29191 0.67 0.590892
Target:  5'- cUCGcccuGCuCGGCGuCGAuGUUCcAGAGCGCGu -3'
miRNA:   3'- -AGC----UG-GUCGC-GCU-CAAGcUCUCGCGC- -5'
16310 3' -57.1 NC_004084.1 + 18467 0.67 0.569586
Target:  5'- aUGACCcGCuCGAGUUCGAG-GUGuCGa -3'
miRNA:   3'- aGCUGGuCGcGCUCAAGCUCuCGC-GC- -5'
16310 3' -57.1 NC_004084.1 + 6547 0.68 0.548475
Target:  5'- cUCGACCGGCGUccgguAGUUCGAcucgucGAGCcacGCGc -3'
miRNA:   3'- -AGCUGGUCGCGc----UCAAGCU------CUCG---CGC- -5'
16310 3' -57.1 NC_004084.1 + 37580 0.68 0.53801
Target:  5'- gUCGACgAGC-CGAGgcacucUCGGGgAGCGCu -3'
miRNA:   3'- -AGCUGgUCGcGCUCa-----AGCUC-UCGCGc -5'
16310 3' -57.1 NC_004084.1 + 56889 0.68 0.531764
Target:  5'- cUCGGuCCAGaccgacCGCGAGUgcaucggcuucgagcUCGAGGGCGaCGu -3'
miRNA:   3'- -AGCU-GGUC------GCGCUCA---------------AGCUCUCGC-GC- -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.