miRNA display CGI


Results 1 - 20 of 24 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
3050 3' -56.5 NC_001493.1 + 130843 0.66 0.887124
Target:  5'- -aGGAGCUCCuugAGCGCcccgaGACUCcCGAa -3'
miRNA:   3'- gaCCUCGAGGcg-UUGCG-----CUGAGaGCU- -5'
3050 3' -56.5 NC_001493.1 + 15289 0.66 0.887124
Target:  5'- -aGGAGCUCCuugAGCGCcccgaGACUCcCGAa -3'
miRNA:   3'- gaCCUCGAGGcg-UUGCG-----CUGAGaGCU- -5'
3050 3' -56.5 NC_001493.1 + 69580 0.66 0.880147
Target:  5'- -gGGGGaCUCUGC--CGCGGC-CUCGGc -3'
miRNA:   3'- gaCCUC-GAGGCGuuGCGCUGaGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 95788 0.66 0.880147
Target:  5'- aUGGuuCUCCaGCGACGgGACUCgUCa- -3'
miRNA:   3'- gACCucGAGG-CGUUGCgCUGAG-AGcu -5'
3050 3' -56.5 NC_001493.1 + 89801 0.66 0.872948
Target:  5'- -gGGAGCccuagagaacgCCGCcguGCGCGACUgUUCGGu -3'
miRNA:   3'- gaCCUCGa----------GGCGu--UGCGCUGA-GAGCU- -5'
3050 3' -56.5 NC_001493.1 + 94967 0.66 0.865532
Target:  5'- -cGGAGCUCCGCc-CGgGGaUCUaCGAg -3'
miRNA:   3'- gaCCUCGAGGCGuuGCgCUgAGA-GCU- -5'
3050 3' -56.5 NC_001493.1 + 61464 0.66 0.865532
Target:  5'- -cGGGGCUUauaGC-GCGCGGCUgUUCGGc -3'
miRNA:   3'- gaCCUCGAGg--CGuUGCGCUGA-GAGCU- -5'
3050 3' -56.5 NC_001493.1 + 13273 0.66 0.857906
Target:  5'- -cGGGGCUCCaGUcuCGgGAuCUCUCGu -3'
miRNA:   3'- gaCCUCGAGG-CGuuGCgCU-GAGAGCu -5'
3050 3' -56.5 NC_001493.1 + 95692 0.66 0.857906
Target:  5'- -gGGAGCggggaugUUGCGAuCGUGACUCUCc- -3'
miRNA:   3'- gaCCUCGa------GGCGUU-GCGCUGAGAGcu -5'
3050 3' -56.5 NC_001493.1 + 128827 0.66 0.857906
Target:  5'- -cGGGGCUCCaGUcuCGgGAuCUCUCGu -3'
miRNA:   3'- gaCCUCGAGG-CGuuGCgCU-GAGAGCu -5'
3050 3' -56.5 NC_001493.1 + 42282 0.67 0.842044
Target:  5'- --uGAGCUCCGUguaAAUGUGACcUUCGAg -3'
miRNA:   3'- gacCUCGAGGCG---UUGCGCUGaGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 8430 0.67 0.839597
Target:  5'- -cGGGGCUCCcacccaucggugcuGgAGCGCGGgUCUCa- -3'
miRNA:   3'- gaCCUCGAGG--------------CgUUGCGCUgAGAGcu -5'
3050 3' -56.5 NC_001493.1 + 123984 0.67 0.839597
Target:  5'- -cGGGGCUCCcacccaucggugcuGgAGCGCGGgUCUCa- -3'
miRNA:   3'- gaCCUCGAGG--------------CgUUGCGCUgAGAGcu -5'
3050 3' -56.5 NC_001493.1 + 38611 0.68 0.780904
Target:  5'- gCUGGA-UUCUGCGAUGuCGuuuCUCUCGAu -3'
miRNA:   3'- -GACCUcGAGGCGUUGC-GCu--GAGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 29662 0.68 0.771565
Target:  5'- -cGGAGCUUCGCuuCGUu-CUCUUGGa -3'
miRNA:   3'- gaCCUCGAGGCGuuGCGcuGAGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 126363 0.68 0.761147
Target:  5'- -gGGAGCUCgCGCGaucggGCGCgucccgaGAgUCUCGAc -3'
miRNA:   3'- gaCCUCGAG-GCGU-----UGCG-------CUgAGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 10809 0.68 0.761147
Target:  5'- -gGGAGCUCgCGCGaucggGCGCgucccgaGAgUCUCGAc -3'
miRNA:   3'- gaCCUCGAG-GCGU-----UGCG-------CUgAGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 24310 0.69 0.742833
Target:  5'- aCUGGAGCUcaCCG-AGCGCGuCUUgCGAa -3'
miRNA:   3'- -GACCUCGA--GGCgUUGCGCuGAGaGCU- -5'
3050 3' -56.5 NC_001493.1 + 10626 0.69 0.713227
Target:  5'- -gGGucCUCCGCGGuCGaGACUCUCGGg -3'
miRNA:   3'- gaCCucGAGGCGUU-GCgCUGAGAGCU- -5'
3050 3' -56.5 NC_001493.1 + 126180 0.69 0.713227
Target:  5'- -gGGucCUCCGCGGuCGaGACUCUCGGg -3'
miRNA:   3'- gaCCucGAGGCGUU-GCgCUGAGAGCU- -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.