miRNA display CGI


Results 1 - 20 of 33 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
13109 3' -61.7 NC_003401.1 + 49871 0.66 0.619818
Target:  5'- uGuCGGGCGUcacGGCCGaaggGaCCGAGGGCa- -3'
miRNA:   3'- gC-GUCUGCG---CCGGCa---C-GGUUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 109918 0.66 0.609831
Target:  5'- -aUAGACGCaGCCGUGCUGcAGGcGCa- -3'
miRNA:   3'- gcGUCUGCGcCGGCACGGU-UCC-CGag -5'
13109 3' -61.7 NC_003401.1 + 126954 0.66 0.609831
Target:  5'- gGUAaucuGACaGCGGCCG-GCCcAGGGgUCc -3'
miRNA:   3'- gCGU----CUG-CGCCGGCaCGGuUCCCgAG- -5'
13109 3' -61.7 NC_003401.1 + 105000 0.66 0.603845
Target:  5'- aCGCcucuaGGACGUuugaguacgugaucuGGCgGUGCagAGGGGCUCc -3'
miRNA:   3'- -GCG-----UCUGCG---------------CCGgCACGg-UUCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 50027 0.66 0.599859
Target:  5'- aGCGaACuCGGCCGccGUCcGGGGCUCg -3'
miRNA:   3'- gCGUcUGcGCCGGCa-CGGuUCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 132398 0.66 0.589911
Target:  5'- gCGCaAGAUgGCGGCCGcgGCCcGGcGGCg- -3'
miRNA:   3'- -GCG-UCUG-CGCCGGCa-CGGuUC-CCGag -5'
13109 3' -61.7 NC_003401.1 + 132238 0.66 0.579991
Target:  5'- cCGcCGGGcCGCGGCCGccaucuugcGCCcGGGGCg- -3'
miRNA:   3'- -GC-GUCU-GCGCCGGCa--------CGGuUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 14793 0.66 0.579991
Target:  5'- aCGCGGcACGgcCGGCUGUGUUcuuGAGGGCc- -3'
miRNA:   3'- -GCGUC-UGC--GCCGGCACGG---UUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 42295 0.67 0.550472
Target:  5'- aGCGGguggaGCGUGGCCGccaCCAGGGGaUCg -3'
miRNA:   3'- gCGUC-----UGCGCCGGCac-GGUUCCCgAG- -5'
13109 3' -61.7 NC_003401.1 + 32425 0.67 0.521429
Target:  5'- --gAGACGCGGCa--GCUuaccGGGGCUCa -3'
miRNA:   3'- gcgUCUGCGCCGgcaCGGu---UCCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 89799 0.67 0.521429
Target:  5'- uGCGG-CGCGGuCCGUauauGCCA-GGGC-Cg -3'
miRNA:   3'- gCGUCuGCGCC-GGCA----CGGUuCCCGaG- -5'
13109 3' -61.7 NC_003401.1 + 132648 0.68 0.502402
Target:  5'- cCGcCGGGCuCGGCCG-GaCCGGGGcGCUCc -3'
miRNA:   3'- -GC-GUCUGcGCCGGCaC-GGUUCC-CGAG- -5'
13109 3' -61.7 NC_003401.1 + 72160 0.68 0.502402
Target:  5'- gGUAGACGCGcaCCGUGagaCGAGGGUc- -3'
miRNA:   3'- gCGUCUGCGCc-GGCACg--GUUCCCGag -5'
13109 3' -61.7 NC_003401.1 + 132498 0.68 0.493002
Target:  5'- cCGCGGGCcCgGGCCGgcgggGCgGAGGGC-Cg -3'
miRNA:   3'- -GCGUCUGcG-CCGGCa----CGgUUCCCGaG- -5'
13109 3' -61.7 NC_003401.1 + 24751 0.68 0.493002
Target:  5'- cCGCAG-CGCgGGgCGUGUUAAgcGGGCUUg -3'
miRNA:   3'- -GCGUCuGCG-CCgGCACGGUU--CCCGAG- -5'
13109 3' -61.7 NC_003401.1 + 132556 0.68 0.465307
Target:  5'- cCGCGGcGCGCGGCuccCGaUGCCGGGcGGC-Cg -3'
miRNA:   3'- -GCGUC-UGCGCCG---GC-ACGGUUC-CCGaG- -5'
13109 3' -61.7 NC_003401.1 + 14625 0.68 0.464398
Target:  5'- aGCAGGCccucaagaacacaGcCGGCCGUGCCGcguGcGGCUUc -3'
miRNA:   3'- gCGUCUG-------------C-GCCGGCACGGUu--C-CCGAG- -5'
13109 3' -61.7 NC_003401.1 + 122426 0.69 0.456256
Target:  5'- gCGCAGcGCGCGGCCGcUGCCGAaaccaacgccGCUUg -3'
miRNA:   3'- -GCGUC-UGCGCCGGC-ACGGUUcc--------CGAG- -5'
13109 3' -61.7 NC_003401.1 + 118439 0.69 0.447301
Target:  5'- gGCAGAgGcCGGCCG-GCCAaAGGuGCg- -3'
miRNA:   3'- gCGUCUgC-GCCGGCaCGGU-UCC-CGag -5'
13109 3' -61.7 NC_003401.1 + 124501 0.69 0.438444
Target:  5'- gGguGACGCagGGCCGU-CCuauAGaGGCUCg -3'
miRNA:   3'- gCguCUGCG--CCGGCAcGGu--UC-CCGAG- -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.