miRNA display CGI


Results 1 - 20 of 35 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
17122 3' -62.3 NC_004333.2 + 41892 0.66 0.375034
Target:  5'- cGGCcGGGCGC-CGUCGuGCcguCgGGCa -3'
miRNA:   3'- -CCGcCCCGUGaGCAGC-CGau-GgCCGc -5'
17122 3' -62.3 NC_004333.2 + 18471 0.66 0.375034
Target:  5'- aGGCGuuGCGCuUCGgaCGGCacgagcaugaUGCCGGCGa -3'
miRNA:   3'- -CCGCccCGUG-AGCa-GCCG----------AUGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 37290 0.66 0.375034
Target:  5'- uGGUGcGGGCcacaGCgUCGcgcggaacUCGGC-ACCGGCGc -3'
miRNA:   3'- -CCGC-CCCG----UG-AGC--------AGCCGaUGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 45395 0.66 0.370025
Target:  5'- aGGuCGGcaaggccgcagaccuGGCACUCGguuUCGGCgg-CGGCGa -3'
miRNA:   3'- -CC-GCC---------------CCGUGAGC---AGCCGaugGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 764 0.66 0.366712
Target:  5'- gGGCGGcGGCACga-UCGcGCUcACCGaGCa -3'
miRNA:   3'- -CCGCC-CCGUGagcAGC-CGA-UGGC-CGc -5'
17122 3' -62.3 NC_004333.2 + 41608 0.66 0.342519
Target:  5'- uGCGGcccacGCGCUCGcUCGuGCU-CUGGCGg -3'
miRNA:   3'- cCGCCc----CGUGAGC-AGC-CGAuGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 39277 0.66 0.342519
Target:  5'- cGGCcgacGGGaGCGCggGcCGuGCUGCCGGUGc -3'
miRNA:   3'- -CCG----CCC-CGUGagCaGC-CGAUGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 31384 0.66 0.342519
Target:  5'- uGCGGGcGCcguGCUCGgcgUCGGCgcaggugcgGCCGGUc -3'
miRNA:   3'- cCGCCC-CG---UGAGC---AGCCGa--------UGGCCGc -5'
17122 3' -62.3 NC_004333.2 + 29872 0.67 0.327041
Target:  5'- cGCGcGGUAgUCGUCGGCgaagcGCUGcGCGa -3'
miRNA:   3'- cCGCcCCGUgAGCAGCCGa----UGGC-CGC- -5'
17122 3' -62.3 NC_004333.2 + 20838 0.67 0.327041
Target:  5'- aGGCGuGucgacguucaGGCGCgcagccgCGUCGGCgauguCCGGCa -3'
miRNA:   3'- -CCGC-C----------CCGUGa------GCAGCCGau---GGCCGc -5'
17122 3' -62.3 NC_004333.2 + 35193 0.67 0.319498
Target:  5'- cGCGGcaUGCUCaUUGGCUGCCGGUa -3'
miRNA:   3'- cCGCCccGUGAGcAGCCGAUGGCCGc -5'
17122 3' -62.3 NC_004333.2 + 13898 0.67 0.319498
Target:  5'- cGGCacGGGCuGCgCGgCGGCUGCCguGGCGa -3'
miRNA:   3'- -CCGc-CCCG-UGaGCaGCCGAUGG--CCGC- -5'
17122 3' -62.3 NC_004333.2 + 21815 0.67 0.304807
Target:  5'- uGGCGGuugaGCucgucgaacuucGCUgCGUCGaGCUGCUGGCGc -3'
miRNA:   3'- -CCGCCc---CG------------UGA-GCAGC-CGAUGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 13612 0.67 0.301932
Target:  5'- uGCGGauGCACUCGUCGGCgagcacuucgugcAUCGcGCGg -3'
miRNA:   3'- cCGCCc-CGUGAGCAGCCGa------------UGGC-CGC- -5'
17122 3' -62.3 NC_004333.2 + 47956 0.67 0.297658
Target:  5'- -uCGGcGCGCuggUCGUCGGCgucAUCGGCGg -3'
miRNA:   3'- ccGCCcCGUG---AGCAGCCGa--UGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 22431 0.67 0.297658
Target:  5'- cGGCGcgugcGGCGCagguuUCGUCGGCUuCCucguGGCGa -3'
miRNA:   3'- -CCGCc----CCGUG-----AGCAGCCGAuGG----CCGC- -5'
17122 3' -62.3 NC_004333.2 + 5044 0.67 0.29695
Target:  5'- aGGCGGccGGCugUuggccgaCGUCGGCg--CGGCGc -3'
miRNA:   3'- -CCGCC--CCGugA-------GCAGCCGaugGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 23048 0.67 0.29064
Target:  5'- cGGCGaccGGUAC-CG-CGacGCUGCCGGCGg -3'
miRNA:   3'- -CCGCc--CCGUGaGCaGC--CGAUGGCCGC- -5'
17122 3' -62.3 NC_004333.2 + 22628 0.68 0.283752
Target:  5'- cGGCGGGuuucaccgcGCGCUCGUCG-CU--CGGCa -3'
miRNA:   3'- -CCGCCC---------CGUGAGCAGCcGAugGCCGc -5'
17122 3' -62.3 NC_004333.2 + 31044 0.68 0.28307
Target:  5'- aGCaGGGCuuuauggagucgcGCUUGaCGGCcGCCGGCGu -3'
miRNA:   3'- cCGcCCCG-------------UGAGCaGCCGaUGGCCGC- -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.