miRNA display CGI


Results 1 - 20 of 53 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
1764 3' -63.5 NC_001347.2 + 80673 0.65 0.756223
Target:  5'- cCCGuaacagcGCCGGCaGCCGGCCCaGgacaugaCCCAc -3'
miRNA:   3'- -GGC-------UGGCCGgCGGCUGGG-Caag----GGGU- -5'
1764 3' -63.5 NC_001347.2 + 37059 0.65 0.756223
Target:  5'- gCCGcggagguGCUGGCgGCCGugGCCUGUggCCCGa -3'
miRNA:   3'- -GGC-------UGGCCGgCGGC--UGGGCAagGGGU- -5'
1764 3' -63.5 NC_001347.2 + 104547 0.66 0.749227
Target:  5'- cCUGcauGCUGGCCGUCGAUCCGUacgacacggaggccgCCaCCAa -3'
miRNA:   3'- -GGC---UGGCCGGCGGCUGGGCAa--------------GG-GGU- -5'
1764 3' -63.5 NC_001347.2 + 190048 0.66 0.748349
Target:  5'- cUCGACgGGgaCCGCCG-CCguagGUUCCCCc -3'
miRNA:   3'- -GGCUGgCC--GGCGGCuGGg---CAAGGGGu -5'
1764 3' -63.5 NC_001347.2 + 87262 0.66 0.748349
Target:  5'- -gGAUgCGGCgCGCCGuACCCGU-CUCCu -3'
miRNA:   3'- ggCUG-GCCG-GCGGC-UGGGCAaGGGGu -5'
1764 3' -63.5 NC_001347.2 + 197142 0.66 0.73952
Target:  5'- cCCG-CCGucGUCGCCGcCCCGgggCCCUc -3'
miRNA:   3'- -GGCuGGC--CGGCGGCuGGGCaa-GGGGu -5'
1764 3' -63.5 NC_001347.2 + 192192 0.66 0.730614
Target:  5'- gCGGCCGcGgCGCgGGCUCGgcgUCCCg- -3'
miRNA:   3'- gGCUGGC-CgGCGgCUGGGCa--AGGGgu -5'
1764 3' -63.5 NC_001347.2 + 136486 0.66 0.730614
Target:  5'- cCCG-CgGGCC-CUGGCCCGcgcaugcgCCCCGg -3'
miRNA:   3'- -GGCuGgCCGGcGGCUGGGCaa------GGGGU- -5'
1764 3' -63.5 NC_001347.2 + 226764 0.66 0.721637
Target:  5'- gUCGGCauGCCGCUGAUCgcaGUggCCCCAc -3'
miRNA:   3'- -GGCUGgcCGGCGGCUGGg--CAa-GGGGU- -5'
1764 3' -63.5 NC_001347.2 + 85979 0.66 0.712596
Target:  5'- -aGugCGaGCCGCCGccACCCGaaccgUCCgCCGc -3'
miRNA:   3'- ggCugGC-CGGCGGC--UGGGCa----AGG-GGU- -5'
1764 3' -63.5 NC_001347.2 + 38410 0.66 0.712596
Target:  5'- uCCGuGCCGcucGCCGCUGGCggcgaCGUcgUCCCCGc -3'
miRNA:   3'- -GGC-UGGC---CGGCGGCUGg----GCA--AGGGGU- -5'
1764 3' -63.5 NC_001347.2 + 128661 0.66 0.712596
Target:  5'- cCCGAcgcgcCCGuGCCGCCGGCgaccgCCGUcugagCCUCAc -3'
miRNA:   3'- -GGCU-----GGC-CGGCGGCUG-----GGCAa----GGGGU- -5'
1764 3' -63.5 NC_001347.2 + 125536 0.66 0.708964
Target:  5'- aCC--UCGGCCGCCGGCCgCGUgugaggcaaacagCCCUc -3'
miRNA:   3'- -GGcuGGCCGGCGGCUGG-GCAa------------GGGGu -5'
1764 3' -63.5 NC_001347.2 + 71664 0.66 0.703499
Target:  5'- gCGGCCGGCgGCCu-CuuGUuuucguugUCCCCu -3'
miRNA:   3'- gGCUGGCCGgCGGcuGggCA--------AGGGGu -5'
1764 3' -63.5 NC_001347.2 + 119090 0.66 0.703499
Target:  5'- gCGGCgCaGCCGCgcuaugCGGCCCGgccUCCCCc -3'
miRNA:   3'- gGCUG-GcCGGCG------GCUGGGCa--AGGGGu -5'
1764 3' -63.5 NC_001347.2 + 79632 0.66 0.703499
Target:  5'- uUCGGCCGGCUGCUGcACCacagCgCCAg -3'
miRNA:   3'- -GGCUGGCCGGCGGC-UGGgcaaGgGGU- -5'
1764 3' -63.5 NC_001347.2 + 131726 0.67 0.694352
Target:  5'- aCGACCGGCCGUCGcCgCCG--CCgCGg -3'
miRNA:   3'- gGCUGGCCGGCGGCuG-GGCaaGGgGU- -5'
1764 3' -63.5 NC_001347.2 + 100878 0.67 0.685162
Target:  5'- gCGGCgCGGCgcagCGCCGGCCa-UUCUCCGg -3'
miRNA:   3'- gGCUG-GCCG----GCGGCUGGgcAAGGGGU- -5'
1764 3' -63.5 NC_001347.2 + 6863 0.67 0.685162
Target:  5'- gCGugCaGCCGCCGAgCCCGUcgacgUUgCCGa -3'
miRNA:   3'- gGCugGcCGGCGGCU-GGGCA-----AGgGGU- -5'
1764 3' -63.5 NC_001347.2 + 62761 0.67 0.685162
Target:  5'- aCGAgCGGCgGCCGACCCcg-CCg-- -3'
miRNA:   3'- gGCUgGCCGgCGGCUGGGcaaGGggu -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.