miRNA display CGI


Results 1 - 20 of 29 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
2738 3' -55.7 NC_001491.2 + 68737 0.77 0.371752
Target:  5'- cCGCGCGUgcaGCGGAGAGCGCcgACGCc- -3'
miRNA:   3'- aGCGUGCG---CGCUUCUCGUGa-UGCGcu -5'
2738 3' -55.7 NC_001491.2 + 14255 0.75 0.446867
Target:  5'- uUCGCGCGUGCGAAGcucugauagguaaaAGCGCUGUGcCGAu -3'
miRNA:   3'- -AGCGUGCGCGCUUC--------------UCGUGAUGC-GCU- -5'
2738 3' -55.7 NC_001491.2 + 123308 0.72 0.607282
Target:  5'- -aGUACGCGCaGAAGAGCAUgcggccgcugacucgGCGUGGg -3'
miRNA:   3'- agCGUGCGCG-CUUCUCGUGa--------------UGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 147760 0.71 0.687921
Target:  5'- -aGCGCGCGCcgucccgggccGggGGGCcGCUGCaGCGGg -3'
miRNA:   3'- agCGUGCGCG-----------CuuCUCG-UGAUG-CGCU- -5'
2738 3' -55.7 NC_001491.2 + 36408 0.71 0.687921
Target:  5'- uUCGCGCGuCGCG-AGAGaauCAUUAcCGCGAa -3'
miRNA:   3'- -AGCGUGC-GCGCuUCUC---GUGAU-GCGCU- -5'
2738 3' -55.7 NC_001491.2 + 54685 0.7 0.718014
Target:  5'- cUCGUGCGCGCaauGGuGgACUGCGCGc -3'
miRNA:   3'- -AGCGUGCGCGcu-UCuCgUGAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 82607 0.69 0.785226
Target:  5'- -aGC-CGCGCGAuGAguucgcGCGCUuGCGCGAg -3'
miRNA:   3'- agCGuGCGCGCUuCU------CGUGA-UGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 20922 0.69 0.794349
Target:  5'- aCGCAacaucaGCGgGGugGGGGCAgUAUGCGAa -3'
miRNA:   3'- aGCGUg-----CGCgCU--UCUCGUgAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 123068 0.68 0.811274
Target:  5'- gCGCACGacCGCGGcaaagucccccacGGAGCGCgGCaGCGAg -3'
miRNA:   3'- aGCGUGC--GCGCU-------------UCUCGUGaUG-CGCU- -5'
2738 3' -55.7 NC_001491.2 + 125560 0.68 0.829294
Target:  5'- aUGCGCGCccCGAGGcGGCGCUcGCGCGc -3'
miRNA:   3'- aGCGUGCGc-GCUUC-UCGUGA-UGCGCu -5'
2738 3' -55.7 NC_001491.2 + 137677 0.68 0.845722
Target:  5'- -aGCGgGCGCG-GGAGCGCgcgaGCGCc- -3'
miRNA:   3'- agCGUgCGCGCuUCUCGUGa---UGCGcu -5'
2738 3' -55.7 NC_001491.2 + 148586 0.67 0.861375
Target:  5'- -gGC-CGCGCGGu-GGCuCUGCGCGGc -3'
miRNA:   3'- agCGuGCGCGCUucUCGuGAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 57383 0.67 0.868893
Target:  5'- aCGCugGUGgGGgcuGAGCAggggcuggcUUGCGCGAg -3'
miRNA:   3'- aGCGugCGCgCUu--CUCGU---------GAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 114636 0.67 0.868893
Target:  5'- -gGCGC-CGCGcAGAGCcACcGCGCGGc -3'
miRNA:   3'- agCGUGcGCGCuUCUCG-UGaUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 95206 0.67 0.87403
Target:  5'- cUCGC-CGCGCGccGAaGCcaagaaauccaccaGCUGCGCGu -3'
miRNA:   3'- -AGCGuGCGCGCuuCU-CG--------------UGAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 38639 0.67 0.876199
Target:  5'- -gGUGCGCGCuuuccuGAAGAGCGaccCUAUGCGc -3'
miRNA:   3'- agCGUGCGCG------CUUCUCGU---GAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 137747 0.67 0.883287
Target:  5'- cCGCccgGCGgGCGgcGGGCGCc-CGCGGg -3'
miRNA:   3'- aGCG---UGCgCGCuuCUCGUGauGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 67233 0.67 0.890152
Target:  5'- cCGCGCGCGCGggGA--ACUG-GUGu -3'
miRNA:   3'- aGCGUGCGCGCuuCUcgUGAUgCGCu -5'
2738 3' -55.7 NC_001491.2 + 123516 0.66 0.89679
Target:  5'- cCGCGgGCGCGcAGGuacgccgcGGCGgCUGCGUGGc -3'
miRNA:   3'- aGCGUgCGCGC-UUC--------UCGU-GAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 15772 0.66 0.908764
Target:  5'- gUGCAaagucCGCGCGAGGucugggugcuuguGGCugUGCGgGGa -3'
miRNA:   3'- aGCGU-----GCGCGCUUC-------------UCGugAUGCgCU- -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.