miRNA display CGI


Results 1 - 20 of 101 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
17008 3' -52.3 NC_004333.2 + 47994 0.66 0.842067
Target:  5'- gGGCGCAcgggcaGUGGAcUCGCGCcaGGcGCc -3'
miRNA:   3'- gCCGCGUag----CAUUUuAGCGCG--CCaCG- -5'
17008 3' -52.3 NC_004333.2 + 47956 0.71 0.587282
Target:  5'- uCGGCGCgcugGUCGUcgGcgucAUCG-GCGGUGUg -3'
miRNA:   3'- -GCCGCG----UAGCAuuU----UAGCgCGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 45236 0.66 0.850006
Target:  5'- uCGGUgccgaccuguccgGCAUCG-AAGcgCGCGUGGcGCc -3'
miRNA:   3'- -GCCG-------------CGUAGCaUUUuaGCGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 45044 0.66 0.823765
Target:  5'- gCGGCGCGcaaaCGcUGAAcacCGCGCGGccGCg -3'
miRNA:   3'- -GCCGCGUa---GC-AUUUua-GCGCGCCa-CG- -5'
17008 3' -52.3 NC_004333.2 + 44956 0.69 0.654754
Target:  5'- cCGGCGuCAUCGggg---CGgGCGGcGCg -3'
miRNA:   3'- -GCCGC-GUAGCauuuuaGCgCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 43449 0.66 0.842067
Target:  5'- aCGcGCGCAUCGcgcgcUUGCGCGccGCa -3'
miRNA:   3'- -GC-CGCGUAGCauuuuAGCGCGCcaCG- -5'
17008 3' -52.3 NC_004333.2 + 43257 0.69 0.710462
Target:  5'- aCGGCGCGaUGUuuuGGAUgGCGaCGGcGCa -3'
miRNA:   3'- -GCCGCGUaGCAu--UUUAgCGC-GCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 42108 0.71 0.542948
Target:  5'- aGGCGUGUCGcGAGGU-GCGCcaguugccGGUGCa -3'
miRNA:   3'- gCCGCGUAGCaUUUUAgCGCG--------CCACG- -5'
17008 3' -52.3 NC_004333.2 + 42011 0.74 0.403247
Target:  5'- uCGGUGCG-CGUGAAG-CGCGCGGccaacgagcggggcgUGCu -3'
miRNA:   3'- -GCCGCGUaGCAUUUUaGCGCGCC---------------ACG- -5'
17008 3' -52.3 NC_004333.2 + 41832 1.13 0.000928
Target:  5'- cCGGCGCAUCGUAAAAUCGCGCGGUGCg -3'
miRNA:   3'- -GCCGCGUAGCAUUUUAGCGCGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 41722 0.74 0.408932
Target:  5'- aCGGCGCgAUCaacgagGAGAUCgGCGCGG-GCg -3'
miRNA:   3'- -GCCGCG-UAGca----UUUUAG-CGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 41588 0.68 0.76415
Target:  5'- gCGGCGCGcCGUGGcggCGaUGCGG-GCu -3'
miRNA:   3'- -GCCGCGUaGCAUUuuaGC-GCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 41321 0.69 0.665986
Target:  5'- cCGGCGCGcgauggaCGUGA---CGCGCGaGUGUg -3'
miRNA:   3'- -GCCGCGUa------GCAUUuuaGCGCGC-CACG- -5'
17008 3' -52.3 NC_004333.2 + 40516 0.68 0.729019
Target:  5'- cCGGCaGUcgaagcgGUCGUGAAcgaagucGUCGCGCuguuccaGGUGCu -3'
miRNA:   3'- -GCCG-CG-------UAGCAUUU-------UAGCGCG-------CCACG- -5'
17008 3' -52.3 NC_004333.2 + 39999 0.8 0.173716
Target:  5'- uGGCGCGuUCGUAGGAcugaucacggaacUCGCGCGGcGCc -3'
miRNA:   3'- gCCGCGU-AGCAUUUU-------------AGCGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 38211 0.65 0.864467
Target:  5'- uCGGCGguUCGguacacaaCGUGCGGUucgacgGCa -3'
miRNA:   3'- -GCCGCguAGCauuuua--GCGCGCCA------CG- -5'
17008 3' -52.3 NC_004333.2 + 37409 0.71 0.565001
Target:  5'- uCGGCGC-UCGcggu-UUGCGCGGcgUGCa -3'
miRNA:   3'- -GCCGCGuAGCauuuuAGCGCGCC--ACG- -5'
17008 3' -52.3 NC_004333.2 + 37302 0.72 0.510432
Target:  5'- aGGCGacgCGUuccagucGGUCGCgGCGGUGCu -3'
miRNA:   3'- gCCGCguaGCAuu-----UUAGCG-CGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 37288 0.67 0.77451
Target:  5'- uCGGCGCAa-GUGAcuGUCGCGcCGGcGUu -3'
miRNA:   3'- -GCCGCGUagCAUUu-UAGCGC-GCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 36887 0.68 0.767274
Target:  5'- aCGGCGCAguucaacagCGCGCGGcaacGCg -3'
miRNA:   3'- -GCCGCGUagcauuuuaGCGCGCCa---CG- -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.