miRNA display CGI


Results 1 - 20 of 22 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
628 5' -58.3 AC_000017.1 + 30507 0.66 0.40051
Target:  5'- uUACCGAgcagcgucugcuaCaGAGGcGCaaAGCAGCGGCAg -3'
miRNA:   3'- uAUGGCU-------------GcCUCCuCG--UCGUCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 23103 0.66 0.373654
Target:  5'- -cACCGACGcGAGGuGCuGCGugcacgacGCGGCc -3'
miRNA:   3'- uaUGGCUGC-CUCCuCGuCGU--------CGUCGu -5'
628 5' -58.3 AC_000017.1 + 12683 0.66 0.373654
Target:  5'- -gGCCGugGcGcAGcguGAGCGcgcGCAGCAGCAg -3'
miRNA:   3'- uaUGGCugC-C-UC---CUCGU---CGUCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 12335 0.66 0.355858
Target:  5'- --cCCGGCGGuGcGGGCGGC-GCuGCAg -3'
miRNA:   3'- uauGGCUGCCuC-CUCGUCGuCGuCGU- -5'
628 5' -58.3 AC_000017.1 + 9575 0.66 0.355858
Target:  5'- -gGuuGGCGG-GGGGCuGCcguGCGGCAg -3'
miRNA:   3'- uaUggCUGCCuCCUCGuCGu--CGUCGU- -5'
628 5' -58.3 AC_000017.1 + 5878 0.67 0.338667
Target:  5'- -gGCUaaGugGGAGGGGUAGCGGUcGUu -3'
miRNA:   3'- uaUGG--CugCCUCCUCGUCGUCGuCGu -5'
628 5' -58.3 AC_000017.1 + 15874 0.67 0.338667
Target:  5'- uAUGCCcAgGGccuuguaaacguAGGGGCAGguGCGGCGu -3'
miRNA:   3'- -UAUGGcUgCC------------UCCUCGUCguCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 24655 0.67 0.314028
Target:  5'- -aGCCGAgCGGAcaAGCAGCuggccuuGCGGCAg -3'
miRNA:   3'- uaUGGCU-GCCUccUCGUCGu------CGUCGU- -5'
628 5' -58.3 AC_000017.1 + 3872 0.67 0.306121
Target:  5'- -cGCgGGCGGuGGcuGCAGCGGCugaAGCGg -3'
miRNA:   3'- uaUGgCUGCCuCCu-CGUCGUCG---UCGU- -5'
628 5' -58.3 AC_000017.1 + 33258 0.69 0.25504
Target:  5'- ----gGGCGGuGGuGCuGCAGCAGCGc -3'
miRNA:   3'- uauggCUGCCuCCuCGuCGUCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 25060 0.69 0.239852
Target:  5'- cUGCCGACuuGGAGGAGCGacGCAagcuaaugauggccGCAGUg -3'
miRNA:   3'- uAUGGCUG--CCUCCUCGU--CGU--------------CGUCGu -5'
628 5' -58.3 AC_000017.1 + 23927 0.69 0.234749
Target:  5'- -aGCCGcuuuuuugggggcGCGcGGGGGGCGGCGGCgacGGCGa -3'
miRNA:   3'- uaUGGC-------------UGC-CUCCUCGUCGUCG---UCGU- -5'
628 5' -58.3 AC_000017.1 + 9743 0.7 0.205456
Target:  5'- -cACCGugGcGGGcGGCAGCGgGCGGCGg -3'
miRNA:   3'- uaUGGCugCcUCC-UCGUCGU-CGUCGU- -5'
628 5' -58.3 AC_000017.1 + 15187 0.71 0.188601
Target:  5'- -cACgGGCGGAGGAGaAGCgcgcugaggccgaGGCAGCGg -3'
miRNA:   3'- uaUGgCUGCCUCCUCgUCG-------------UCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 26526 0.71 0.18394
Target:  5'- aGUGCCGGCGGcgccugAGGAGCGGagguuGUAGCc -3'
miRNA:   3'- -UAUGGCUGCC------UCCUCGUCgu---CGUCGu -5'
628 5' -58.3 AC_000017.1 + 2188 0.71 0.173946
Target:  5'- -aGCCaGGCGGcGGcGGCGGCAGgAGCAg -3'
miRNA:   3'- uaUGG-CUGCCuCC-UCGUCGUCgUCGU- -5'
628 5' -58.3 AC_000017.1 + 15047 0.71 0.169133
Target:  5'- -cACCGaacaggGCGGGGGuGGCgcaGGCGGCGGCAa -3'
miRNA:   3'- uaUGGC------UGCCUCC-UCG---UCGUCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 11139 0.73 0.125033
Target:  5'- cUACCGcgucaGGAGGGGCAacauccgcggcugacGCGGCGGCAg -3'
miRNA:   3'- uAUGGCug---CCUCCUCGU---------------CGUCGUCGU- -5'
628 5' -58.3 AC_000017.1 + 26304 0.73 0.123598
Target:  5'- --uCCGugGGuGGcGGCGGCAGCuGCAg -3'
miRNA:   3'- uauGGCugCCuCC-UCGUCGUCGuCGU- -5'
628 5' -58.3 AC_000017.1 + 26753 0.74 0.106901
Target:  5'- -cACCGGCGGcAGcGGCAGCAacaGCAGCGg -3'
miRNA:   3'- uaUGGCUGCC-UCcUCGUCGU---CGUCGU- -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.