miRNA display CGI


Results 1 - 20 of 21 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
145 3' -63.7 AC_000006.1 + 10657 0.66 0.230928
Target:  5'- --aCCGCGaCCGCGGCCguagcaGGCGccggCGCu -3'
miRNA:   3'- guaGGCGC-GGCGUCGGg-----CCGCca--GUG- -5'
145 3' -63.7 AC_000006.1 + 10969 0.66 0.230928
Target:  5'- --gUCGCGCaGCAcGCgCUGGCGGUC-Ca -3'
miRNA:   3'- guaGGCGCGgCGU-CG-GGCCGCCAGuG- -5'
145 3' -63.7 AC_000006.1 + 16564 0.66 0.230928
Target:  5'- --aCCggGUGCCGCgguAGCCCGGC-GUCGg -3'
miRNA:   3'- guaGG--CGCGGCG---UCGGGCCGcCAGUg -5'
145 3' -63.7 AC_000006.1 + 6713 0.66 0.230928
Target:  5'- -uUCCGCGCCgaGCAGCCCcaGCG--CACc -3'
miRNA:   3'- guAGGCGCGG--CGUCGGGc-CGCcaGUG- -5'
145 3' -63.7 AC_000006.1 + 19256 0.66 0.230336
Target:  5'- --gCCGCGUgGUAGCCCccucgcuGGUGGaCGCc -3'
miRNA:   3'- guaGGCGCGgCGUCGGG-------CCGCCaGUG- -5'
145 3' -63.7 AC_000006.1 + 3680 0.66 0.219324
Target:  5'- --gCgGCuGCCGCGGCUgCGGCGGUg-- -3'
miRNA:   3'- guaGgCG-CGGCGUCGG-GCCGCCAgug -5'
145 3' -63.7 AC_000006.1 + 3619 0.66 0.219324
Target:  5'- aCAgcaC-CGCCGCAGCCgCGGCaGcCGCa -3'
miRNA:   3'- -GUag-GcGCGGCGUCGG-GCCGcCaGUG- -5'
145 3' -63.7 AC_000006.1 + 12120 0.66 0.219324
Target:  5'- --gCCGUGgCGCAGCgCGaGCGGuUCAa -3'
miRNA:   3'- guaGGCGCgGCGUCGgGC-CGCC-AGUg -5'
145 3' -63.7 AC_000006.1 + 15876 0.66 0.21371
Target:  5'- ---gCGUGuuGCGGCCCGGCacGGcggugguguUCACg -3'
miRNA:   3'- guagGCGCggCGUCGGGCCG--CC---------AGUG- -5'
145 3' -63.7 AC_000006.1 + 8284 0.66 0.202854
Target:  5'- --aCCGUGCCGCGGUgCGcuuuuagaaGCGGugUCGCg -3'
miRNA:   3'- guaGGCGCGGCGUCGgGC---------CGCC--AGUG- -5'
145 3' -63.7 AC_000006.1 + 23227 0.67 0.190963
Target:  5'- --cCCGCGCCgacGCgcuccucgcucuggGGCCCGGCGcG-CGCa -3'
miRNA:   3'- guaGGCGCGG---CG--------------UCGGGCCGC-CaGUG- -5'
145 3' -63.7 AC_000006.1 + 10972 0.67 0.17779
Target:  5'- --cCCGCGCCGC-GCacguggCGGCGGcCAa -3'
miRNA:   3'- guaGGCGCGGCGuCGg-----GCCGCCaGUg -5'
145 3' -63.7 AC_000006.1 + 17429 0.67 0.177318
Target:  5'- gCAUCUG-GCCGCGGCCgcuucucgcccuuCGGCGG-CGg -3'
miRNA:   3'- -GUAGGCgCGGCGUCGG-------------GCCGCCaGUg -5'
145 3' -63.7 AC_000006.1 + 17335 0.67 0.173119
Target:  5'- uUAUCuCGCGCUGCAcuGCCUGGU--UCGCg -3'
miRNA:   3'- -GUAG-GCGCGGCGU--CGGGCCGccAGUG- -5'
145 3' -63.7 AC_000006.1 + 14263 0.69 0.139548
Target:  5'- aGUCCaCcCCGCAGCCCGGCaGcagCACc -3'
miRNA:   3'- gUAGGcGcGGCGUCGGGCCGcCa--GUG- -5'
145 3' -63.7 AC_000006.1 + 14679 0.69 0.139548
Target:  5'- -cUCCGCGCCGCAggugacGUCCGG-GGUgGu -3'
miRNA:   3'- guAGGCGCGGCGU------CGGGCCgCCAgUg -5'
145 3' -63.7 AC_000006.1 + 414 0.69 0.135797
Target:  5'- -uUCCGCGuCCGUgucaaAGUCCGGUGuuuauGUCACa -3'
miRNA:   3'- guAGGCGC-GGCG-----UCGGGCCGC-----CAGUG- -5'
145 3' -63.7 AC_000006.1 + 15155 0.69 0.129989
Target:  5'- cCGUCCGCGuCCGCGGCCaCuuccgcgcuccguggGGCGcUUACa -3'
miRNA:   3'- -GUAGGCGC-GGCGUCGG-G---------------CCGCcAGUG- -5'
145 3' -63.7 AC_000006.1 + 10713 0.72 0.071591
Target:  5'- --cCUGCuacgGCCGCGGUCgCGGUGGUCGCc -3'
miRNA:   3'- guaGGCG----CGGCGUCGG-GCCGCCAGUG- -5'
145 3' -63.7 AC_000006.1 + 23682 0.74 0.050883
Target:  5'- --cUUGCGCCGCugcuccagGGCCUGGgGGUCGCg -3'
miRNA:   3'- guaGGCGCGGCG--------UCGGGCCgCCAGUG- -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.