miRNA display CGI


Results 1 - 20 of 43 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
11575 3' -54.9 NC_003085.1 + 29270 0.66 0.736062
Target:  5'- aGGCGcguGCGCuccGCgUCCUCGcGGCGcUGCCa -3'
miRNA:   3'- -CUGU---UGCG---UG-AGGAGCaCUGCcACGG- -5'
11575 3' -54.9 NC_003085.1 + 700 0.66 0.725432
Target:  5'- cGACGAggucCGCGCcagCCUCGagcgcgcccagGACGGcGCCa -3'
miRNA:   3'- -CUGUU----GCGUGa--GGAGCa----------CUGCCaCGG- -5'
11575 3' -54.9 NC_003085.1 + 28443 0.66 0.714709
Target:  5'- cGACAA-GUACggUCCgCGccacGGCGGUGCCg -3'
miRNA:   3'- -CUGUUgCGUG--AGGaGCa---CUGCCACGG- -5'
11575 3' -54.9 NC_003085.1 + 32374 0.66 0.712554
Target:  5'- gGAgAGCGCAgCUgCggacacuggagaCGUGuACGGUGCCa -3'
miRNA:   3'- -CUgUUGCGU-GAgGa-----------GCAC-UGCCACGG- -5'
11575 3' -54.9 NC_003085.1 + 40492 0.66 0.703903
Target:  5'- aGGCAGCGCGcCUCCgaaggugGUGAggaguUGGaUGCCg -3'
miRNA:   3'- -CUGUUGCGU-GAGGag-----CACU-----GCC-ACGG- -5'
11575 3' -54.9 NC_003085.1 + 14469 0.66 0.703903
Target:  5'- aGGCGAUGCGCUCC-CGccucuccCGG-GCCa -3'
miRNA:   3'- -CUGUUGCGUGAGGaGCacu----GCCaCGG- -5'
11575 3' -54.9 NC_003085.1 + 25165 0.66 0.693026
Target:  5'- cGGCGAcCGUgg-CCUgGUGGCGGUGgCg -3'
miRNA:   3'- -CUGUU-GCGugaGGAgCACUGCCACgG- -5'
11575 3' -54.9 NC_003085.1 + 43425 0.66 0.693026
Target:  5'- cACAgaGCGuCGCgUCgUCGUGAgGgGUGCCg -3'
miRNA:   3'- cUGU--UGC-GUG-AGgAGCACUgC-CACGG- -5'
11575 3' -54.9 NC_003085.1 + 40302 0.67 0.68209
Target:  5'- gGGCAGCGuCGCccucuaCCUCGccggcaagggcUGGCGcGUGCCu -3'
miRNA:   3'- -CUGUUGC-GUGa-----GGAGC-----------ACUGC-CACGG- -5'
11575 3' -54.9 NC_003085.1 + 3548 0.67 0.68209
Target:  5'- -uCGACGCAgaCgUCGccgUGAUGGUGCUc -3'
miRNA:   3'- cuGUUGCGUgaGgAGC---ACUGCCACGG- -5'
11575 3' -54.9 NC_003085.1 + 16552 0.67 0.671106
Target:  5'- uGCAGCG-ACUCCaacugCGUGGCGcccgGCCa -3'
miRNA:   3'- cUGUUGCgUGAGGa----GCACUGCca--CGG- -5'
11575 3' -54.9 NC_003085.1 + 22588 0.67 0.671106
Target:  5'- cGCGGCGCuucgugcgGCUUC-CGaUGuCGGUGCCg -3'
miRNA:   3'- cUGUUGCG--------UGAGGaGC-ACuGCCACGG- -5'
11575 3' -54.9 NC_003085.1 + 3873 0.67 0.660085
Target:  5'- cGACGGCGCGCccgCCgucUGUcGCGGUGgCa -3'
miRNA:   3'- -CUGUUGCGUGa--GGa--GCAcUGCCACgG- -5'
11575 3' -54.9 NC_003085.1 + 5459 0.67 0.660085
Target:  5'- uGGCGGCGUAggCCUCGacggUGACGGgaccggacgcGCCg -3'
miRNA:   3'- -CUGUUGCGUgaGGAGC----ACUGCCa---------CGG- -5'
11575 3' -54.9 NC_003085.1 + 1293 0.67 0.660085
Target:  5'- gGGCAGgGUugUCCUUGgUGAUGGgGUCc -3'
miRNA:   3'- -CUGUUgCGugAGGAGC-ACUGCCaCGG- -5'
11575 3' -54.9 NC_003085.1 + 16476 0.67 0.649037
Target:  5'- cGACcuGCGCGCcgccuUCCcgUCGcUGACGGcGCCg -3'
miRNA:   3'- -CUGu-UGCGUG-----AGG--AGC-ACUGCCaCGG- -5'
11575 3' -54.9 NC_003085.1 + 28068 0.67 0.649037
Target:  5'- uGACGcagACGCG-UCCguc-GACGGUGCCg -3'
miRNA:   3'- -CUGU---UGCGUgAGGagcaCUGCCACGG- -5'
11575 3' -54.9 NC_003085.1 + 21009 0.67 0.649037
Target:  5'- -uCAACGCGCgCUUCGacgcgGACGGcaGCCg -3'
miRNA:   3'- cuGUUGCGUGaGGAGCa----CUGCCa-CGG- -5'
11575 3' -54.9 NC_003085.1 + 10620 0.67 0.637973
Target:  5'- -cCAAUGCAcCUCCggcUGUGugGGgcGCCg -3'
miRNA:   3'- cuGUUGCGU-GAGGa--GCACugCCa-CGG- -5'
11575 3' -54.9 NC_003085.1 + 21417 0.67 0.626905
Target:  5'- gGAUGGCGCGCUCCagcaggGUGAUGcgcGUGCUg -3'
miRNA:   3'- -CUGUUGCGUGAGGag----CACUGC---CACGG- -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.