miRNA display CGI


Results 1 - 20 of 38 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
19734 5' -57.3 NC_004687.1 + 73724 0.66 0.868702
Target:  5'- gGUg-GCCuGGGC-AACGUCGGCGUc -3'
miRNA:   3'- aCAgaCGGcCCCGcUUGUAGCCGUAc -5'
19734 5' -57.3 NC_004687.1 + 74383 0.66 0.856648
Target:  5'- gGUCUGCuCGGcgccggggccugGGCGcucaacaaggugcagGACGUCGGCGa- -3'
miRNA:   3'- aCAGACG-GCC------------CCGC---------------UUGUAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 22976 0.66 0.837612
Target:  5'- gUGUCUGguCUGGGGaCGcAACGgcgaUCGGCAUu -3'
miRNA:   3'- -ACAGAC--GGCCCC-GC-UUGU----AGCCGUAc -5'
19734 5' -57.3 NC_004687.1 + 47603 0.66 0.837612
Target:  5'- gGUau-CCGGcGGCGAGC-UCGGCAa- -3'
miRNA:   3'- aCAgacGGCC-CCGCUUGuAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 48780 0.66 0.836795
Target:  5'- --cCUcCCGGGGCucgacgaGGACGUCGGCGc- -3'
miRNA:   3'- acaGAcGGCCCCG-------CUUGUAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 47984 0.67 0.820933
Target:  5'- ----aGCCGGuGGCGcucuCGUCGGCAa- -3'
miRNA:   3'- acagaCGGCC-CCGCuu--GUAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 61393 0.67 0.820933
Target:  5'- cGUCgacGCCaaGGGCGAccucguCAUCGGCAc- -3'
miRNA:   3'- aCAGa--CGGc-CCCGCUu-----GUAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 83161 0.67 0.820933
Target:  5'- cGUCU-UCGuGGGCGAggucgugagcGCGUCGaGCGUGa -3'
miRNA:   3'- aCAGAcGGC-CCCGCU----------UGUAGC-CGUAC- -5'
19734 5' -57.3 NC_004687.1 + 124680 0.67 0.820933
Target:  5'- gGUCagcacGCCGuGGGUGu-CGUCGGCGUu -3'
miRNA:   3'- aCAGa----CGGC-CCCGCuuGUAGCCGUAc -5'
19734 5' -57.3 NC_004687.1 + 35015 0.67 0.812336
Target:  5'- aG-CUGCC-GGGCGGGCAUgaGcGCGUGg -3'
miRNA:   3'- aCaGACGGcCCCGCUUGUAg-C-CGUAC- -5'
19734 5' -57.3 NC_004687.1 + 110578 0.67 0.812336
Target:  5'- gUGUUgcugGCCGGGGUGcccccgGUCGGCGc- -3'
miRNA:   3'- -ACAGa---CGGCCCCGCuug---UAGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 27061 0.67 0.811468
Target:  5'- cUGUUgcaGCCGGgcccgcaGGCGAGCgAUCGGgGUGc -3'
miRNA:   3'- -ACAGa--CGGCC-------CCGCUUG-UAGCCgUAC- -5'
19734 5' -57.3 NC_004687.1 + 153138 0.67 0.803578
Target:  5'- cGUCgccGCCGGGcGCGGug--CGGCAg- -3'
miRNA:   3'- aCAGa--CGGCCC-CGCUuguaGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 43334 0.67 0.803578
Target:  5'- gGUCccgGCUGGGGCGAGCugcagaagGGCGc- -3'
miRNA:   3'- aCAGa--CGGCCCCGCUUGuag-----CCGUac -5'
19734 5' -57.3 NC_004687.1 + 63490 0.67 0.785609
Target:  5'- --aUUGUCGGcGGCGGcaaucgccaugACGUCGGCGUa -3'
miRNA:   3'- acaGACGGCC-CCGCU-----------UGUAGCCGUAc -5'
19734 5' -57.3 NC_004687.1 + 85380 0.67 0.785609
Target:  5'- ----cGCUGGGcGCcuucGGCAUCGGCGUGg -3'
miRNA:   3'- acagaCGGCCC-CGc---UUGUAGCCGUAC- -5'
19734 5' -57.3 NC_004687.1 + 101531 0.68 0.776416
Target:  5'- cGUUgaccgUGUCGGuGGCGGACAccgguUCGGCGg- -3'
miRNA:   3'- aCAG-----ACGGCC-CCGCUUGU-----AGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 74578 0.68 0.756707
Target:  5'- cUGUCUGaaggcuuCCGGGGCGGcgaguacgACA-CGGuCAUGg -3'
miRNA:   3'- -ACAGAC-------GGCCCCGCU--------UGUaGCC-GUAC- -5'
19734 5' -57.3 NC_004687.1 + 37696 0.68 0.756707
Target:  5'- --cUUGaCCGGGGCGGACAggccgcgacggugUCGGUAa- -3'
miRNA:   3'- acaGAC-GGCCCCGCUUGU-------------AGCCGUac -5'
19734 5' -57.3 NC_004687.1 + 28196 0.68 0.748109
Target:  5'- gGUCUGggugcaccuguaCgGGGGCGAGCAggaCGGC-UGg -3'
miRNA:   3'- aCAGAC------------GgCCCCGCUUGUa--GCCGuAC- -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.