Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6527768

Input and runtime details for job 6527768 (precomputed example)

Sequence input

? sRNA sequences[.fa]
? Putative target sequences (organism of interest)[.fa]
? Extract sequences aroundstart codon
? nt up (1-300)200
? nt down (1-300)100

CopraRNA parameters

? Consensus prediction off
? p-value combinationno
? p-value filtering (0=off)0

IntaRNA parameters

? Target folding window size150
? Target max. basepair distance100

Job ID 6527768 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:51 CET 2018
?Processing Started@ Fri Feb 16 15:25:20 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:38:58 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:39:05 CET 2018
?Job Completed@ Fri Feb 16 20:39:38 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6527768&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicA


Output download complete results [zip]

Downloadable files

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heatmap

? Conserved, identified interactions for NC_000913 Escherichia coli str. K-12 substr. MG1655

Sort by selecting a column name:
Rank CopraRNA p-value CopraRNA fdr value Locus Tag Gene Name Energy [kcal/mol] IntaRNA p-value Position mRNA Position sRNA Annotation Additional homologs
148 0.01421 0.3104 b2379 alaC -8.54 0.209762 290 -- 297 5 -- 12 glutamate-pyruvate aminotransferase; glutamic-pyruvic transaminase (GPT); alanine transaminase  
25 0.001519 0.1943 b2817 amiC -17.97 0.004427 110 -- 131 1 -- 21 N-acetylmuramoyl-L-alanine amidase  
79 0.007292 0.3087 b0063 araB -12.45 0.045578 14 -- 28 6 -- 20 L-ribulokinase  
65 0.005951 0.3087 b0064 araC -16.15 0.009664 167 -- 213 8 -- 48 ara regulon transcriptional activator; autorepressor  
64 0.005939 0.3087 b3237 argR -9.39 0.153279 85 -- 104 1 -- 19 l-arginine-responsive arginine metabolism regulon transcriptional regulator  
35 0.002165 0.2094 b2714 ascG -14.61 0.018547 188 -- 213 10 -- 30 asc operon transcriptional repressor; prpBC operon repressor  
189 0.01853 0.3104 b3743 asnC -7.74 0.278830 255 -- 266 5 -- 18 transcriptional activator of asnA; autorepressor  
168 0.01645 0.3104 b3720 bglH -8.64 0.202347 15 -- 28 9 -- 22 carbohydrate-specific outer membrane porin cryptic  
131 0.01264 0.3104 b3412 bioH -11.05 0.080071 12 -- 32 7 -- 31 pimeloyl-ACP methyl ester carboxylesterase  
176 0.01748 0.3104 b0435 bolA -9.78 0.131850 202 -- 220 4 -- 22 stationary-phase morphogene transcriptional repressor for mreB; also regulator for dacA dacC and ampC  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

Evolutionary conservation of mRNA targets (alignment generated with Jalview)

Evolutionary conservation of sRNA (alignment generated with Jalview)

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Results are computed with CopraRNA version 2.1.2