miRNA display CGI


Results 1 - 18 of 18 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
2685 5' -51.1 NC_001491.2 + 134118 0.66 0.992711
Target:  5'- aCGAGGAAGuCUAUAgCUUUCGuCUCg-- -3'
miRNA:   3'- -GCUCUUUC-GAUGUgGAAGGC-GAGacg -5'
2685 5' -51.1 NC_001491.2 + 5025 0.66 0.992711
Target:  5'- aGAG-GAGCUacucgccccgGCACCaUCCGC-CUGg -3'
miRNA:   3'- gCUCuUUCGA----------UGUGGaAGGCGaGACg -5'
2685 5' -51.1 NC_001491.2 + 25342 0.66 0.990397
Target:  5'- gGAGAGGuGCU-CAgCUacUCCGCcCUGCc -3'
miRNA:   3'- gCUCUUU-CGAuGUgGA--AGGCGaGACG- -5'
2685 5' -51.1 NC_001491.2 + 27195 0.67 0.985888
Target:  5'- gCGAGAccGCgUGCGCCgcggugUCCGUgCUGg -3'
miRNA:   3'- -GCUCUuuCG-AUGUGGa-----AGGCGaGACg -5'
2685 5' -51.1 NC_001491.2 + 35368 0.67 0.984072
Target:  5'- cCGAGGccGCguucgcGCGCCUguacCCGgaCUCUGCg -3'
miRNA:   3'- -GCUCUuuCGa-----UGUGGAa---GGC--GAGACG- -5'
2685 5' -51.1 NC_001491.2 + 5393 0.67 0.984072
Target:  5'- cCGAGGGcgaccGCUuCGCCUUCC-CUCcGCg -3'
miRNA:   3'- -GCUCUUu----CGAuGUGGAAGGcGAGaCG- -5'
2685 5' -51.1 NC_001491.2 + 26694 0.67 0.983881
Target:  5'- aGAGGGAGCUugcggccgcgggcGCGCagguacgCCGCggcggCUGCg -3'
miRNA:   3'- gCUCUUUCGA-------------UGUGgaa----GGCGa----GACG- -5'
2685 5' -51.1 NC_001491.2 + 25165 0.67 0.979913
Target:  5'- cCGAGAggcGAGCguaaGCACCUguucaacCCGUUCgggUGCa -3'
miRNA:   3'- -GCUCU---UUCGa---UGUGGAa------GGCGAG---ACG- -5'
2685 5' -51.1 NC_001491.2 + 11708 0.67 0.979913
Target:  5'- cCGGGAGAGU---GCUggggUCCGCgCUGCu -3'
miRNA:   3'- -GCUCUUUCGaugUGGa---AGGCGaGACG- -5'
2685 5' -51.1 NC_001491.2 + 33825 0.67 0.977554
Target:  5'- cCGAc-GAGCUGCGCCUcgcggugcgcgCCGUUCUGg -3'
miRNA:   3'- -GCUcuUUCGAUGUGGAa----------GGCGAGACg -5'
2685 5' -51.1 NC_001491.2 + 39962 0.68 0.972233
Target:  5'- aGGGGGAGCUuuaaaaauagAUAUCUUUggguuuaauUGCUCUGCa -3'
miRNA:   3'- gCUCUUUCGA----------UGUGGAAG---------GCGAGACG- -5'
2685 5' -51.1 NC_001491.2 + 2951 0.68 0.962277
Target:  5'- cCGGGGAGGCggccGCcugaggggagcggGCCUUCUGCggcugggCUGCu -3'
miRNA:   3'- -GCUCUUUCGa---UG-------------UGGAAGGCGa------GACG- -5'
2685 5' -51.1 NC_001491.2 + 146539 0.7 0.931863
Target:  5'- uGGGAGAGUUGCACUcUUCGCgg-GCc -3'
miRNA:   3'- gCUCUUUCGAUGUGGaAGGCGagaCG- -5'
2685 5' -51.1 NC_001491.2 + 51296 0.7 0.920795
Target:  5'- -cAGAcAAGCU-CGCCUUCgCGgCUCUGCc -3'
miRNA:   3'- gcUCU-UUCGAuGUGGAAG-GC-GAGACG- -5'
2685 5' -51.1 NC_001491.2 + 31273 0.72 0.839693
Target:  5'- cCGGcGAAGGCUAUACCUUCCccggGCagacccgggcggcuUCUGCc -3'
miRNA:   3'- -GCU-CUUUCGAUGUGGAAGG----CG--------------AGACG- -5'
2685 5' -51.1 NC_001491.2 + 113605 0.73 0.825023
Target:  5'- aGGGcaguGAGCcGCGC--UCCGCUCUGCa -3'
miRNA:   3'- gCUCu---UUCGaUGUGgaAGGCGAGACG- -5'
2685 5' -51.1 NC_001491.2 + 49227 0.74 0.7692
Target:  5'- cCGAGAGAGCgagauCACCcaccUCCGCgaacaacugCUGCg -3'
miRNA:   3'- -GCUCUUUCGau---GUGGa---AGGCGa--------GACG- -5'
2685 5' -51.1 NC_001491.2 + 55642 1.12 0.005289
Target:  5'- cCGAGAAAGCUACACCUUCCGCUCUGCc -3'
miRNA:   3'- -GCUCUUUCGAUGUGGAAGGCGAGACG- -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.