miRNA display CGI


Results 1 - 20 of 61 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
16997 3' -53.5 NC_004333.2 + 46190 1.08 0.001609
Target:  5'- gCCGGCGUAACGCUGACGAACUCGCAAc -3'
miRNA:   3'- -GGCCGCAUUGCGACUGCUUGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 45028 0.81 0.122946
Target:  5'- aCCGcGCGUGGCGCUGGCG-GCgCGCAAa -3'
miRNA:   3'- -GGC-CGCAUUGCGACUGCuUGaGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 32306 0.78 0.197918
Target:  5'- aCGGCGgcuCGCUcGCGGGCUCGCAc -3'
miRNA:   3'- gGCCGCauuGCGAcUGCUUGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 38593 0.77 0.232737
Target:  5'- gCCGGC-UGGCGCUGAagguggcggcaaCGAACUCGCc- -3'
miRNA:   3'- -GGCCGcAUUGCGACU------------GCUUGAGCGuu -5'
16997 3' -53.5 NC_004333.2 + 23193 0.76 0.252006
Target:  5'- gCGGCGcgGACGCaGACGuugcGCUCGCGAu -3'
miRNA:   3'- gGCCGCa-UUGCGaCUGCu---UGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 14725 0.75 0.279717
Target:  5'- cCCGGCGcgccgcugccAAUGCUGcCGGACUCGCGg -3'
miRNA:   3'- -GGCCGCa---------UUGCGACuGCUUGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 9930 0.75 0.279717
Target:  5'- -gGGCGUGcaucACGUUGACGAACggCGCGg -3'
miRNA:   3'- ggCCGCAU----UGCGACUGCUUGa-GCGUu -5'
16997 3' -53.5 NC_004333.2 + 19494 0.74 0.333935
Target:  5'- aUCGGCGcUGgcGCGCUGGCGGcGCUCGUg- -3'
miRNA:   3'- -GGCCGC-AU--UGCGACUGCU-UGAGCGuu -5'
16997 3' -53.5 NC_004333.2 + 22752 0.73 0.37177
Target:  5'- cCCGGCGUGacggccgccgccggcACGCUGcagGCGcGCUCGCc- -3'
miRNA:   3'- -GGCCGCAU---------------UGCGAC---UGCuUGAGCGuu -5'
16997 3' -53.5 NC_004333.2 + 17857 0.72 0.404828
Target:  5'- gCCGcGCGUAugGCgGGUGGugUCGCAGg -3'
miRNA:   3'- -GGC-CGCAUugCGaCUGCUugAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 22527 0.72 0.413378
Target:  5'- gCCGGCaagAcgcuuucgaccGCGCUGACGAcgccgcaagggcaACUCGCAAg -3'
miRNA:   3'- -GGCCGca-U-----------UGCGACUGCU-------------UGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 17236 0.72 0.433752
Target:  5'- gCCGGCGUAuCGCcgGACGuGAUcgUCGCGAu -3'
miRNA:   3'- -GGCCGCAUuGCGa-CUGC-UUG--AGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 47988 0.71 0.453688
Target:  5'- gCCGGCG-GGCGCacgGGCaguGGACUCGCGc -3'
miRNA:   3'- -GGCCGCaUUGCGa--CUG---CUUGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 15429 0.71 0.474112
Target:  5'- gCCGGCGgcagcgaccuGCGCgUGACGuucuGCUCGCc- -3'
miRNA:   3'- -GGCCGCau--------UGCG-ACUGCu---UGAGCGuu -5'
16997 3' -53.5 NC_004333.2 + 43434 0.71 0.474112
Target:  5'- gUCGGUGaaa-GCUGGCGuGCUCGCGGg -3'
miRNA:   3'- -GGCCGCauugCGACUGCuUGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 37879 0.71 0.484495
Target:  5'- gCCGGUG-AGCGCUucGGCcuGCUCGCGAu -3'
miRNA:   3'- -GGCCGCaUUGCGA--CUGcuUGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 2654 0.71 0.484495
Target:  5'- gCCGGCGUAucagccgcaACGCcGGC-AGCUUGCAGc -3'
miRNA:   3'- -GGCCGCAU---------UGCGaCUGcUUGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 5498 0.7 0.516268
Target:  5'- gCCGGCGUGgagacgaucgGCGCUGuuGCGGgcuGCUCGaCGGg -3'
miRNA:   3'- -GGCCGCAU----------UGCGAC--UGCU---UGAGC-GUU- -5'
16997 3' -53.5 NC_004333.2 + 20732 0.7 0.537908
Target:  5'- aCGGCGcgcGCGCUGcCGGACaUCGCc- -3'
miRNA:   3'- gGCCGCau-UGCGACuGCUUG-AGCGuu -5'
16997 3' -53.5 NC_004333.2 + 40032 0.69 0.570918
Target:  5'- gCGGCGccacGGCGCgGACGc-CUCGCAAg -3'
miRNA:   3'- gGCCGCa---UUGCGaCUGCuuGAGCGUU- -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.