miRNA display CGI


Results 1 - 20 of 44 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
11606 3' -55.2 NC_003085.1 + 7330 0.66 0.681265
Target:  5'- -cGGAGGCGGCUgaGGaCGCGGgcuaCACgCGCc -3'
miRNA:   3'- gaCUUCCGCUGA--CC-GUGUCa---GUG-GUG- -5'
11606 3' -55.2 NC_003085.1 + 7484 0.66 0.669019
Target:  5'- gCUGGAGGUGACgGGCguccgcgucgaGCGGUugcaggaCAUCACc -3'
miRNA:   3'- -GACUUCCGCUGaCCG-----------UGUCA-------GUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 17914 0.66 0.669019
Target:  5'- uCUGGAGGUGGCaugucgagcccugUGGUGCcGUCuucCCACu -3'
miRNA:   3'- -GACUUCCGCUG-------------ACCGUGuCAGu--GGUG- -5'
11606 3' -55.2 NC_003085.1 + 39024 0.66 0.658967
Target:  5'- -aGGAGGCGAC-GGCAUgcguGGgcgagCGCUGCg -3'
miRNA:   3'- gaCUUCCGCUGaCCGUG----UCa----GUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 26722 0.66 0.636567
Target:  5'- -gGgcGGUGAC-GGCGCGG-CGCCGg -3'
miRNA:   3'- gaCuuCCGCUGaCCGUGUCaGUGGUg -5'
11606 3' -55.2 NC_003085.1 + 12373 0.66 0.636567
Target:  5'- aCUGGAG-CGACUGcGCGCcGUcCACCuGCa -3'
miRNA:   3'- -GACUUCcGCUGAC-CGUGuCA-GUGG-UG- -5'
11606 3' -55.2 NC_003085.1 + 28178 0.67 0.625354
Target:  5'- cCUGGgccAGGaCGAagucugGGCGCGG-CACCACc -3'
miRNA:   3'- -GACU---UCC-GCUga----CCGUGUCaGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 17489 0.67 0.625354
Target:  5'- ---cAGGCGuaACgGGgGCAGUCGCCAg -3'
miRNA:   3'- gacuUCCGC--UGaCCgUGUCAGUGGUg -5'
11606 3' -55.2 NC_003085.1 + 8938 0.67 0.625354
Target:  5'- -gGAcaguGGUGACUGuGC-CAGUCGCCu- -3'
miRNA:   3'- gaCUu---CCGCUGAC-CGuGUCAGUGGug -5'
11606 3' -55.2 NC_003085.1 + 3993 0.67 0.625354
Target:  5'- -cGAGcGCGACacGGCACAGUgGCC-Ca -3'
miRNA:   3'- gaCUUcCGCUGa-CCGUGUCAgUGGuG- -5'
11606 3' -55.2 NC_003085.1 + 2075 0.67 0.625354
Target:  5'- -cGGAcGGUGACgcgacGaGCGCAGcCGCCGCa -3'
miRNA:   3'- gaCUU-CCGCUGa----C-CGUGUCaGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 36450 0.67 0.625354
Target:  5'- -gGAGGGCGGCgccucaUGGCGaGGUaguGCCACu -3'
miRNA:   3'- gaCUUCCGCUG------ACCGUgUCAg--UGGUG- -5'
11606 3' -55.2 NC_003085.1 + 33556 0.67 0.625354
Target:  5'- aUGAGGGUucGAUUGGCuguuccgccuggACAcGUCACUACc -3'
miRNA:   3'- gACUUCCG--CUGACCG------------UGU-CAGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 23112 0.67 0.614149
Target:  5'- cCUGA--GCGAggcGGCGCAG-CACCGCa -3'
miRNA:   3'- -GACUucCGCUga-CCGUGUCaGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 12034 0.67 0.614149
Target:  5'- -gGuuGGCGcucgcuagccgcACUGGCGCaucGGUCACUACc -3'
miRNA:   3'- gaCuuCCGC------------UGACCGUG---UCAGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 22622 0.67 0.614149
Target:  5'- -cGAGGGUGGCgggGGCACA--CGCCugGCg -3'
miRNA:   3'- gaCUUCCGCUGa--CCGUGUcaGUGG--UG- -5'
11606 3' -55.2 NC_003085.1 + 47905 0.67 0.614149
Target:  5'- aCUGcAGGCGAC-GcGCACGGccUCGCgACa -3'
miRNA:   3'- -GACuUCCGCUGaC-CGUGUC--AGUGgUG- -5'
11606 3' -55.2 NC_003085.1 + 16458 0.67 0.602959
Target:  5'- --cGAGGCGAC-GGCAguGUCcgaccugcgcGCCGCc -3'
miRNA:   3'- gacUUCCGCUGaCCGUguCAG----------UGGUG- -5'
11606 3' -55.2 NC_003085.1 + 9138 0.67 0.602959
Target:  5'- uCUGGGaGCGGCaccUGGCGgAGcUCGCCGCc -3'
miRNA:   3'- -GACUUcCGCUG---ACCGUgUC-AGUGGUG- -5'
11606 3' -55.2 NC_003085.1 + 31182 0.67 0.601842
Target:  5'- -gGuAGGGCGGaaGGCcucauugGCGGUUACCGCg -3'
miRNA:   3'- gaC-UUCCGCUgaCCG-------UGUCAGUGGUG- -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.