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CopraRNA 4894743

Input and runtime details for job 4894743 (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 4894743 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:35:26 CET 2018
?CopraRNA Started@ Fri Feb 16 21:36:09 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 05:38:38 CET 2018
?Post-Processing Finished@ Sat Feb 17 05:38:45 CET 2018
?Job Completed@ Sat Feb 17 05:39:16 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=4894743&toolName=CopraRNA ( 30 days expiry )

Description of the job

SR1

Output download complete results [zip]

Downloadable files

[csv]
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[csv]
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heatmap

? Conserved, identified interactions for NC_000964 Bacillus subtilis subsp. subtilis str. 168

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
1 1.123e-05 0.04352 bsu13990 kinA -26.46 0.000103 182 -- 297 38 -- 181 sporulation kinase A bsu14490 bsu13530
2 6.323e-05 0.08823 bsu13370 ykoQ -21.23 0.001523 8 -- 146 40 -- 170 metallophosphoesterase  
3 8.73e-05 0.08823 bsu25090 yqfW -16.63 0.015052 29 -- 79 33 -- 81 nucleotidase YqfW  
4 0.0001192 0.08823 bsu12150 yjgB -21.60 0.001260 37 -- 72 32 -- 79 Evidence 5: No homology to any previously reported sequences; PubMedId: 1580552  
5 0.0001198 0.08823 bsu33680 yvaP -23.88 0.000393 26 -- 134 34 -- 167 HTH-type transcriptional regulator YvaP  
6 0.0001543 0.08823 bsu10740 yisJ -16.00 0.020473 36 -- 139 34 -- 134 inner spore coat protein H-like protein  
7 0.0001858 0.08823 bsu34210 yvfG -17.07 0.012126 85 -- 142 32 -- 86 Evidence 4: Homologs of previously reported genes of unknown function  
8 0.0001871 0.08823 bsu22860 yphA -19.72 0.003251 3 -- 123 37 -- 178 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
9 0.0002071 0.08823 bsu08425 mprF -16.98 0.012672 3 -- 50 34 -- 81 phosphatidylglycerol lysyltransferase  
10 0.0002277 0.08823 bsu05690 ydhB -21.23 0.001523 113 -- 150 136 -- 182 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component' bsu12400
11 0.0003253 0.1011 bsu31319 yuzI -20.00 0.002830 16 -- 82 99 -- 165 Evidence 4: Homologs of previously reported genes of unknown function; PubMedId: 16704729; Product type f : factor  
12 0.0004273 0.1011 bsu13640 spo0E -21.66 0.001221 136 -- 180 32 -- 78 aspartyl-phosphate phosphatase Spo0E  
13 0.0004662 0.1011 bsu39950 yxaJ -7.42 0.718209 218 -- 252 31 -- 81 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15743949 15849754 16850406; Product type pm: membrane component'  
14 0.0004671 0.1011 bsu04470 dctP -11.58 0.162472 124 -- 147 15 -- 44 C4-dicarboxylate transport protein bsu02340 bsu10220
15 0.0004798 0.1011 bsu04380 ydaT -18.00 0.007663 13 -- 34 33 -- 57 Evidence 4: Homologs of previously reported genes of unknown function  
16 0.0004911 0.1011 bsu34650 yvdC -21.31 0.001462 17 -- 94 101 -- 185 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
17 0.0005293 0.1011 bsu19390 yojN -14.35 0.045317 34 -- 87 125 -- 170 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15491156; Product type pe : enzyme'  
18 0.0005418 0.1011 bsu07080 yesZ -22.48 0.000806 260 -- 300 118 -- 160 beta-galactosidase YesZ  
19 0.0005622 0.1011 bsu33310 fhuB -20.25 0.002499 30 -- 116 99 -- 184 iron(3+)-hydroxamate import system permease protein FhuB bsu01620
20 0.0005654 0.1011 bsu03960 ycnK -22.14 0.000955 26 -- 173 12 -- 134 DeoR family transcriptional regulator  
21 0.0005858 0.1011 bsu27120 sigV -13.38 0.071859 12 -- 26 38 -- 54 RNA polymerase sigma factor SigV  
22 0.0005922 0.1011 bsu09965 yhaJ -9.39 0.394896 264 -- 275 174 -- 185 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 16845009; Product type pf : factor'  
23 0.0006135 0.1011 bsu23610 nudF -13.21 0.077687 6 -- 79 37 -- 88 adp-ribose pyrophosphatase  
24 0.0006259 0.1011 bsu03380 yckB -16.82 0.013754 20 -- 129 16 -- 148 ABC transporter substrate-binding protein  
25 0.0006626 0.1027 bsu07955 yfkA -14.87 0.035327 3 -- 70 36 -- 108 radical SAM protein YfkA  
26 0.0007049 0.1051 bsu24750 yqhB -20.67 0.002015 266 -- 294 134 -- 164 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pm: membrane component'  
27 0.0007779 0.1059 bsu31480 yuxJ -17.06 0.012234 48 -- 110 4 -- 55 MFS transporter  
28 0.0008121 0.1059 bsu37450 ywhK -15.95 0.020994 89 -- 155 41 -- 105 Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 12073041; Product type f: factor bsu37440
29 0.000814 0.1059 bsu35860 pgdS -7.84 0.648005 23 -- 34 130 -- 140 gamma-dl-glutamyl hydrolase  
30 0.0008394 0.1059 bsu25600 comER -17.70 0.008924 72 -- 169 82 -- 187 ComE operon protein 4  
31 0.0008564 0.1059 bsu10290 yhfN -10.46 0.260955 32 -- 88 131 -- 186 metalloprotease YhfN  
32 0.0008744 0.1059 bsu09430 citR -15.39 0.027619 23 -- 103 39 -- 111 LysR family transcriptional regulator  
33 0.0009705 0.114 bsu20780 yopS -12.53 0.106187 15 -- 36 34 -- 54 XRE family transcriptional regulator  
34 0.001006 0.1147 bsu37620 rsfA -13.01 0.085239 64 -- 106 124 -- 165 prespore-specific transcriptional regulator RsfA  
35 0.001083 0.1199 bsu38140 qoxD -14.68 0.038800 80 -- 211 61 -- 193 quinol oxidase subunit 4  
36 0.001118 0.1204 bsu17650 yncE -8.56 0.524973 291 -- 300 61 -- 70 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type h: extrachromosomal origin'  
37 0.00122 0.1206 bsu31150 yubB -14.80 0.036692 271 -- 292 145 -- 165 undecaprenyl-diphosphatase  
38 0.001252 0.1206 bsu19610 yodI -17.13 0.011794 8 -- 27 49 -- 68 Evidence 4: Homologs of previously reported genes of unknown function  
39 0.001272 0.1206 bsu38090 vpr -13.65 0.063330 246 -- 286 133 -- 174 minor extracellular protease vpr  
40 0.001293 0.1206 bsu13810 ykvS -11.02 0.206841 41 -- 57 31 -- 45 Evidence 4: Homologs of previously reported genes of unknown function  
41 0.00131 0.1206 bsu01580 ybaR -15.69 0.023818 44 -- 97 34 -- 84 sulfate transporter YbaR  
42 0.001312 0.1206 bsu39060 citH -14.25 0.047679 3 -- 65 120 -- 184 citrate transporter bsu26860 bsu07610
43 0.00135 0.1206 bsu10230 yhfH -10.18 0.291514 18 -- 110 27 -- 139 Evidence 6: Doubtful CDS  
44 0.001404 0.1206 bsu30660 ytkA -11.27 0.185588 215 -- 238 164 -- 186 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type lp: lipoprotein'  
45 0.001428 0.1206 bsu27290 yrzA -10.49 0.257926 1 -- 17 111 -- 136 Evidence 4: Homologs of previously reported genes of unknown function  
46 0.001434 0.1206 bsu07700 nagP -14.91 0.034715 11 -- 49 31 -- 62 PTS system-N-acetylglucosamine-specific transporter subunit EIICB  
47 0.001488 0.1206 bsu18480 proH -12.75 0.095888 85 -- 112 155 -- 184 pyrroline-5-carboxylate reductase 1 bsu23800
48 0.001494 0.1206 bsu33660 rghRA -13.24 0.076349 28 -- 146 39 -- 166 HTH-type transcriptional repressor RghR bsu33670
49 0.001587 0.1212 bsu40240 yycS -16.07 0.019817 5 -- 79 35 -- 113 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type h: extrachromosomal origin'  
50 0.001627 0.1212 bsu38130 ywcE -9.91 0.324646 1 -- 15 39 -- 56 spore morphogenesis and germination protein YwcE  
51 0.001644 0.1212 bsu29870 ytzB -11.72 0.152375 23 -- 59 33 -- 85 Evidence 4: Homologs of previously reported genes of unknown function  
52 0.001732 0.1212 bsu29530 sppA -10.15 0.295539 2 -- 29 39 -- 81 signal peptide peptidase SppA  
53 0.001762 0.1212 bsu10040 ecsA -7.56 0.695140 42 -- 51 33 -- 42 ABC transporter ATP-binding protein  
54 0.001793 0.1212 bsu21030 yonP -11.11 0.198660 20 -- 36 161 -- 178 Evidence 5: No homology to any previously reported sequences  
55 0.001813 0.1212 bsu30290 amyC -12.90 0.089506 91 -- 153 102 -- 159 ABC transporter permease  
56 0.00183 0.1212 bsu11770 cotW -16.10 0.019548 48 -- 170 31 -- 163 spore coat protein W  
57 0.001839 0.1212 bsu14940 ylbA -10.08 0.303417 14 -- 67 35 -- 81 Evidence 4: Homologs of previously reported genes of unknown function  
58 0.001848 0.1212 bsu21840 ypjP -10.31 0.277541 15 -- 73 14 -- 70 Evidence 4: Homologs of previously reported genes of unknown function  
59 0.001868 0.1212 bsu12260 yjlA -14.41 0.044077 46 -- 133 103 -- 182 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pt: transporter'  
60 0.001877 0.1212 bsu12040 yjdG -19.63 0.003403 61 -- 106 39 -- 81 N-acetyltransferase YjdG  
61 0.001915 0.1214 bsu19720 yodR -8.11 0.600668 13 -- 29 71 -- 89 coenzyme A transferase subunit beta  
62 0.001958 0.1214 bsu25150 yqfQ -10.78 0.228520 210 -- 221 125 -- 139 Evidence 4: Homologs of previously reported genes of unknown function  
63 0.001974 0.1214 bsu34640 yvdD -9.92 0.323853 41 -- 65 33 -- 60 LOG family protein YvdD  
64 0.002007 0.1215 bsu37680 ywfH -19.51 0.003623 4 -- 58 32 -- 83 bacilysin biosynthesis oxidoreductase YwfH  
65 0.002089 0.123 bsu15330 sigG -7.32 0.735765 1 -- 8 133 -- 140 RNA polymerase sigma-G factor  
66 0.002095 0.123 bsu28660 sspI -12.58 0.103691 257 -- 278 56 -- 77 small acid-soluble spore protein I  
67 0.002241 0.1242 bsu04040 ycsE -12.95 0.087665 83 -- 153 117 -- 184 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
68 0.002291 0.1242 bsu02600 cwlJ -9.38 0.396883 135 -- 166 88 -- 116 cell wall hydrolase CwlJ  
69 0.002314 0.1242 bsu15650 yloB -14.32 0.046100 4 -- 34 102 -- 149 calcium-transporting ATPase  
70 0.00232 0.1242 bsu24010 bmr -11.41 0.174600 110 -- 147 39 -- 86 multidrug resistance protein bsu26590
71 0.002326 0.1242 bsu37230 ywjA -17.78 0.008577 195 -- 260 99 -- 147 ABC transporter ATP-binding protein  
72 0.002326 0.1242 bsu10730 yisI -10.35 0.272902 44 -- 108 96 -- 182 aspartyl-phosphate phosphatase YisI  
73 0.002371 0.1242 bsu00930 cysE -20.00 0.002833 192 -- 291 102 -- 187 serine acetyltransferase  
74 0.002384 0.1242 bsu09450 yhdF -14.81 0.036487 208 -- 244 132 -- 159 oxidoreductase  
75 0.002405 0.1242 bsu01600 ybbA -13.26 0.075734 128 -- 177 34 -- 77 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 12354229 2974033; Product type pe: enzyme'  
76 0.002466 0.1257 bsu07870 yfkK -15.12 0.031390 12 -- 33 33 -- 55 Evidence 4: Homologs of previously reported genes of unknown function  
77 0.002638 0.1315 bsu36790 ywmA -11.30 0.183092 1 -- 48 33 -- 81 Evidence 5: No homology to any previously reported sequences  
78 0.002646 0.1315 bsu37410 albE -16.69 0.014616 33 -- 81 32 -- 77 antilisterial bacteriocin subtilosin biosynthesis protein AlbE  
79 0.002683 0.1316 bsu12250 yjkB -15.23 0.029777 154 -- 245 42 -- 131 ABC transporter ATP-binding protein  
80 0.002732 0.1323 bsu14790 ylaI -9.42 0.391167 138 -- 189 118 -- 178 Evidence 4: Homologs of previously reported genes of unknown function  
81 0.002798 0.1325 bsu03250 ycgR -7.37 0.727097 84 -- 130 48 -- 86 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pt: transporter'  
82 0.002803 0.1325 bsu34100 rsbQ -17.18 0.011511 5 -- 86 34 -- 116 sigma factor SigB regulation protein RsbQ  
83 0.002931 0.1368 bsu18650 pelB -17.38 0.010445 17 -- 103 38 -- 142 pectin lyase  
84 0.003073 0.1418 bsu31450 kinB -10.05 0.307083 220 -- 261 31 -- 74 sporulation kinase B  
85 0.003124 0.1423 bsu15550 pyrF -13.42 0.070218 194 -- 221 50 -- 78 orotidine 5'-phosphate decarboxylase  
86 0.003162 0.1423 bsu32080 yuiB -17.14 0.011766 214 -- 271 6 -- 63 Evidence 4: Homologs of previously reported genes of unknown function  
87 0.003215 0.1423 bsu04140 pbpC -8.12 0.599206 128 -- 139 96 -- 107 penicillin-binding protein 3  
88 0.003231 0.1423 bsu34620 mdxD -9.76 0.344052 128 -- 173 81 -- 130 glucan 1 4-alpha-maltohexaosidase  
89 0.003315 0.1443 bsu30460 ytrA -11.86 0.143485 75 -- 137 74 -- 137 GntR family transcriptional regulator  
90 0.003471 0.1486 bsu35950 rbsC -15.06 0.032267 242 -- 293 40 -- 84 ribose transport system permease RbsC  
91 0.00349 0.1486 bsu28050 maf -6.37 0.874324 134 -- 184 39 -- 85 septum formation protein Maf  
92 0.003598 0.1515 bsu22200 cotD -17.29 0.010920 45 -- 158 37 -- 130 spore coat protein D  
93 0.003652 0.1515 bsu03060 lctP -13.96 0.054584 161 -- 227 49 -- 115 L-lactate permease bsu34190
94 0.003675 0.1515 bsu40130 yydK -17.16 0.011624 17 -- 47 34 -- 60 HTH-type transcriptional regulator YydK  
95 0.003784 0.1541 bsu12910 proG -16.76 0.014152 1 -- 50 33 -- 83 pyrroline-5-carboxylate reductase 3  
96 0.003858 0.1541 bsu03700 gerKA -12.88 0.090279 45 -- 139 38 -- 125 spore germination protein KA  
97 0.003858 0.1541 bsu32520 pucG -15.24 0.029596 117 -- 232 36 -- 162 purine catabolism protein PucG  
98 0.003906 0.1544 bsu29990 pbuO -11.33 0.180719 218 -- 233 123 -- 137 guanine/hypoxanthine permease PbuO  
99 0.004027 0.1561 bsu13870 ykvZ -9.91 0.324242 1 -- 15 1 -- 17 LacI family transcriptional regulator  
100 0.004029 0.1561 bsu32980 yusZ -14.16 0.049671 3 -- 55 39 -- 90 oxidoreductase  
101 0.004166 0.1594 bsu11270 yjzD -8.07 0.607351 275 -- 290 119 -- 136 Evidence 4: Homologs of previously reported genes of unknown function  
102 0.004212 0.1594 bsu10510 yhjH -17.94 0.007893 238 -- 265 152 -- 183 MarR family transcriptional regulator  
103 0.004238 0.1594 bsu09690 nhaX -18.33 0.006526 38 -- 80 34 -- 77 stress response protein NhaX  
104 0.004338 0.1606 bsu08000 yfjQ -9.77 0.342120 136 -- 162 103 -- 137 metal ion transporter YfjQ bsu24740
105 0.004352 0.1606 bsu05340 ydfA -10.81 0.225539 212 -- 245 38 -- 75 arsenic pump protein  
106 0.004415 0.1614 bsu10790 asnO -17.17 0.011578 3 -- 52 32 -- 73 asparagine synthetase 3  
107 0.004539 0.1633 bsu11020 yitK -8.14 0.595243 151 -- 171 155 -- 171 nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription  
108 0.004583 0.1633 bsu07910 yfkF -13.96 0.054522 60 -- 82 157 -- 179 MFS transporter  
109 0.004595 0.1633 bsu02700 estA -7.85 0.646397 289 -- 295 181 -- 187 lipase EstA bsu08350
110 0.004746 0.1671 bsu09940 yhaL -13.90 0.056226 141 -- 159 37 -- 56 sporulation protein YhaL  
111 0.004819 0.1671 bsu32120 yuzG -7.22 0.752372 165 -- 182 149 -- 166 Evidence 5: No homology to any previously reported sequences  
112 0.00483 0.1671 bsu26010 yqbQ -18.75 0.005285 180 -- 239 82 -- 139 Evidence 4: Homologs of previously reported genes of unknown function bsu12700
113 0.005141 0.1741 bsu36080 ywrF -10.09 0.302867 265 -- 274 38 -- 47 Evidence 4: Homologs of previously reported genes of unknown function  
114 0.005219 0.1741 bsu18630 exlX -14.36 0.045196 231 -- 263 38 -- 88 expansin-YoaJ  
115 0.005245 0.1741 bsu07690 yflG -14.30 0.046489 29 -- 56 32 -- 57 methionine aminopeptidase 2  
116 0.005334 0.1741 bsu30510 ytpA -10.58 0.247824 123 -- 177 35 -- 87 phospholipase YtpA  
117 0.005342 0.1741 bsu33050 gerAA -9.34 0.402150 52 -- 63 38 -- 49 spore germination protein A1  
118 0.005364 0.1741 bsu21980 ypdP -14.81 0.036422 190 -- 236 72 -- 112 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
119 0.005369 0.1741 bsu33250 yvrL -8.38 0.555183 10 -- 36 76 -- 105 membrane-bound negative regulator YvrL  
120 0.005453 0.1741 bsu38750 cydB -16.17 0.018868 36 -- 121 37 -- 136 cytochrome d ubiquinol oxidase subunit 2  
121 0.005491 0.1741 bsu40190 fbp -16.50 0.016068 67 -- 83 53 -- 69 fructose-1 6-bisphosphatase  
122 0.005613 0.1741 bsu19770 cgeC -14.56 0.041162 73 -- 119 6 -- 59 spore maturation protein CgeC  
123 0.005649 0.1741 bsu37530 ywhC -10.56 0.250674 18 -- 29 105 -- 116 zinc metalloprotease YwhC  
124 0.005654 0.1741 bsu24680 comGF -17.71 0.008856 105 -- 249 40 -- 187 ComG operon protein 6  
125 0.005817 0.1741 bsu26980 yraE -11.00 0.208718 35 -- 90 112 -- 185 Evidence 4: Homologs of previously reported genes of unknown function  
126 0.005872 0.1741 bsu36510 amtB -10.53 0.253946 51 -- 89 33 -- 57 ammonium transporter NrgA  
127 0.005895 0.1741 bsu15640 yloA -14.75 0.037563 39 -- 86 36 -- 83 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 11238985 17586671; Product type pf: factor'  
128 0.005903 0.1741 bsu24110 yqzF -12.53 0.106013 93 -- 138 39 -- 81 Evidence 4: Homologs of previously reported genes of unknown function  
129 0.005948 0.1741 bsu13580 ykrV -12.37 0.114104 93 -- 132 31 -- 61 transaminase MtnE  
130 0.005995 0.1741 bsu19660 yozD -10.24 0.285413 18 -- 51 105 -- 135 Evidence 4: Homologs of previously reported genes of unknown function  
131 0.006003 0.1741 bsu37510 pbpG -10.90 0.216982 70 -- 106 84 -- 108 penicillin-binding protein 2D  
132 0.006133 0.1741 bsu24800 yqgW -15.55 0.025469 1 -- 63 31 -- 85 Evidence 4: Homologs of previously reported genes of unknown function  
133 0.006226 0.1741 bsu14430 ykpA -10.78 0.228396 48 -- 105 75 -- 129 ABC transporter ATP-binding protein  
134 0.00626 0.1741 bsu03360 yciC -8.59 0.518951 99 -- 108 130 -- 139 metal chaperone YciC  
135 0.00631 0.1741 bsu31510 yufK -14.38 0.044651 233 -- 280 42 -- 85 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
136 0.006329 0.1741 bsu10210 yhfF -9.29 0.409483 117 -- 143 37 -- 59 Evidence 4: Homologs of previously reported genes of unknown function  
137 0.006339 0.1741 bsu39320 yxiB -11.20 0.191268 188 -- 222 111 -- 147 Evidence 4: Homologs of previously reported genes of unknown function  
138 0.00639 0.1741 bsu24900 rpmG -18.16 0.007101 92 -- 175 92 -- 166 50S ribosomal protein L33  
139 0.006395 0.1741 bsu30170 ytcP -13.74 0.060669 6 -- 28 1 -- 23 ABC transporter permease  
140 0.006451 0.1741 bsu29090 polA -11.51 0.167440 58 -- 84 30 -- 56 DNA polymerase I  
141 0.006569 0.1741 bsu19520 yojA -12.26 0.119762 158 -- 180 120 -- 146 permease YojA bsu40070
142 0.006636 0.1741 bsu22510 ypjC -12.74 0.096342 122 -- 155 156 -- 190 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
143 0.006663 0.1741 bsu05790 ydhK -18.88 0.004963 179 -- 222 125 -- 163 Evidence 5: No homology to any previously reported sequences  
144 0.006712 0.1741 bsu25040 yqgB -19.28 0.004052 60 -- 160 55 -- 168 Evidence 2a: Function of homologous gene experimentally demonstrated in an other organism; PubMedId: 15294815; Product type ph: phenotype  
145 0.006739 0.1741 bsu12460 xlyB -11.80 0.146979 21 -- 64 155 -- 186 N-acetylmuramoyl-L-alanine amidase XlyB bsu12810 bsu25710 bsu25900 bsu21410
146 0.00677 0.1741 bsu29690 acuA -9.85 0.331997 126 -- 137 14 -- 25 acetoin utilization protein AcuA  
147 0.006774 0.1741 bsu08550 sspK -14.99 0.033457 165 -- 208 137 -- 183 small acid-soluble spore protein K  
148 0.006782 0.1741 bsu14050 ykuE -11.57 0.163142 1 -- 16 37 -- 54 metallophosphoesterase  
149 0.006788 0.1741 bsu28960 ytxC -13.61 0.064351 236 -- 300 132 -- 186 Evidence 4: Homologs of previously reported genes of unknown function  
150 0.006829 0.1741 bsu17970 cotM -16.22 0.018442 252 -- 285 70 -- 101 spore coat protein M  
151 0.00683 0.1741 bsu18660 yoaM -13.14 0.080203 141 -- 183 39 -- 78 Evidence 4: Homologs of previously reported genes of unknown function bsu18880 bsu20490
152 0.006831 0.1741 bsu09480 yhdI -9.89 0.327778 76 -- 101 102 -- 130 GntR family transcriptional regulator bsu05240
153 0.007014 0.1751 bsu10400 yhxC -16.66 0.014878 138 -- 167 138 -- 167 oxidoreductase  
154 0.00707 0.1751 bsu07830 yfkO -12.90 0.089530 138 -- 152 158 -- 172 NAD(P)H nitroreductase YfkO  
155 0.00708 0.1751 bsu17280 ymaD -7.93 0.631070 192 -- 223 42 -- 69 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 16267290; Product type pe : enzyme'  
156 0.007194 0.1751 bsu12900 htrA -15.16 0.030869 26 -- 118 38 -- 130 serine protease Do-like HtrA  
157 0.007221 0.1751 bsu40660 yybF -12.55 0.105157 243 -- 270 125 -- 152 MFS transporter  
158 0.007267 0.1751 bsu33000 htrB -17.04 0.012352 105 -- 237 50 -- 180 serine protease Do-like HtrB  
159 0.007366 0.1751 bsu06380 yebC -16.67 0.014812 77 -- 156 105 -- 185 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
160 0.007403 0.1751 bsu11139 yizC -17.39 0.010400 11 -- 81 42 -- 107 Evidence 4: Homologs of previously reported genes of unknown function  
161 0.00741 0.1751 bsu24000 bmrU -16.51 0.015967 115 -- 144 156 -- 183 lipid kinase BmrU  
162 0.007531 0.1751 bsu14350 yknX -8.74 0.495402 179 -- 195 123 -- 140 efflux system component YknX  
163 0.007546 0.1751 bsu03210 ycgN -11.47 0.170088 123 -- 268 12 -- 147 1-pyrroline-5-carboxylate dehydrogenase  
164 0.007653 0.1751 bsu02110 ybyB -7.82 0.651200 271 -- 286 38 -- 56 Evidence 4: Homologs of previously reported genes of unknown function  
165 0.007704 0.1751 bsu18170 yngA -16.77 0.014091 132 -- 192 122 -- 181 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
166 0.007737 0.1751 bsu10770 wprA -9.60 0.364837 176 -- 232 111 -- 164 cell wall-associated protease  
167 0.007775 0.1751 bsu09889 yhzD -15.75 0.023145 43 -- 92 39 -- 89 Evidence 4: Homologs of previously reported genes of unknown function  
168 0.007777 0.1751 bsu32270 yutH -11.70 0.153975 226 -- 259 121 -- 158 endospore coat-associated protein YutH  
169 0.007812 0.1751 bsu04680 rsbS -7.92 0.633185 77 -- 93 53 -- 67 RsbT antagonist protein RsbS  
170 0.007871 0.1751 bsu13520 ykrP -11.14 0.196181 76 -- 136 99 -- 167 membrane-bound acyltransferase YkrP  
171 0.007883 0.1751 bsu38330 lrgB -10.47 0.260275 28 -- 48 159 -- 187 'Evidence 2a: Function of homologous gene experimentally demonstrated in an other organism; PubMedId: 15659658 15849754 16850406; Product type r : regulator'  
172 0.008071 0.1751 bsu03860 ycnD -16.76 0.014170 153 -- 167 135 -- 149 FMN reductase  
173 0.008072 0.1751 bsu38150 qoxC -9.07 0.441891 44 -- 68 85 -- 107 quinol oxidase subunit 3  
174 0.008073 0.1751 bsu36350 ywpD -6.29 0.883503 121 -- 192 80 -- 160 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 16740923; Product type prc : receptor'  
175 0.008121 0.1751 bsu19160 yocC -10.77 0.229075 5 -- 48 34 -- 79 Evidence 4: Homologs of previously reported genes of unknown function  
176 0.008122 0.1751 bsu16520 frr -16.32 0.017549 85 -- 113 136 -- 167 ribosome-recycling factor  
177 0.008148 0.1751 bsu37320 narK -12.38 0.113512 147 -- 292 34 -- 178 nitrite extrusion protein  
178 0.008149 0.1751 bsu39610 yxeB -9.68 0.354141 1 -- 23 37 -- 58 iron(3+)-hydroxamate-binding protein YxeB bsu33320
179 0.008166 0.1751 bsu40550 ppaC -16.23 0.018315 37 -- 106 8 -- 74 manganese-dependent inorganic pyrophosphatase  
180 0.008222 0.1751 bsu14560 def -9.11 0.436669 135 -- 145 75 -- 85 peptide deformylase  
181 0.008392 0.1751 bsu19600 yodH -10.70 0.236480 130 -- 154 156 -- 183 methyltransferase  
182 0.008397 0.1751 bsu38410 sacX -16.96 0.012854 69 -- 151 101 -- 169 negative regulator of SacY activity  
183 0.008402 0.1751 bsu03010 amhX -13.44 0.069669 23 -- 92 7 -- 86 amidohydrolase AmhX  
184 0.008461 0.1751 bsu09120 dgcK -13.04 0.083992 38 -- 184 37 -- 168 diguanylate cyclase  
185 0.008526 0.1751 bsu02370 ybgA -10.25 0.283898 252 -- 276 59 -- 82 GntR family transcriptional regulator  
186 0.00854 0.1751 bsu03320 nasB -11.11 0.199178 25 -- 36 33 -- 45 assimilatory nitrate reductase electron transfer subunit bsu03300
187 0.008608 0.1751 bsu17960 yneK -9.96 0.317804 143 -- 172 155 -- 184 Evidence 4: Homologs of previously reported genes of unknown function  
188 0.008618 0.1751 bsu31720 degQ -9.47 0.382925 276 -- 300 147 -- 170 degradation enzyme regulation protein DegQ  
189 0.008686 0.1751 bsu03110 ycgH -10.16 0.294825 102 -- 123 120 -- 141 transporter  
190 0.008698 0.1751 bsu19130 yocA -15.61 0.024807 4 -- 94 40 -- 127 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type h: extrachromosomal origin'  
191 0.008727 0.1751 bsu31280 yugU -11.72 0.152832 2 -- 31 120 -- 152 Evidence 4: Homologs of previously reported genes of unknown function  
192 0.00876 0.1751 bsu33520 csoR -16.67 0.014798 32 -- 56 39 -- 62 copper-sensing transcriptional repressor CsoR  
193 0.008782 0.1751 bsu13160 ohrB -9.78 0.341127 32 -- 61 100 -- 129 organic hydroperoxide resistance protein OhrB  
194 0.008808 0.1751 bsu16370 fliR -9.70 0.351361 227 -- 250 157 -- 179 flagellar biosynthetic protein FliR  
195 0.008951 0.1751 bsu05080 yddR -8.99 0.454521 34 -- 81 5 -- 51 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
196 0.008988 0.1751 bsu24970 pstA -9.97 0.317060 128 -- 176 38 -- 86 ABC transporter permease  
197 0.009002 0.1751 bsu33650 yvzC -16.51 0.015985 3 -- 52 121 -- 172 HTH-type transcriptional regulator YvzC  
198 0.009004 0.1751 bsu38400 epr -15.65 0.024309 91 -- 136 32 -- 78 minor extracellular protease epr  
199 0.00902 0.1751 bsu30990 thiT -13.50 0.067771 270 -- 291 126 -- 147 thiamine transporter ThiT  
200 0.009037 0.1751 bsu15760 prpC -17.37 0.010506 124 -- 148 133 -- 158 protein phosphatase PrpC  

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



		 
	

			





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