Skip to main content

Table 1 Transcription units of pCAR1 identified by tiling array analysis at 9-bp resolution.

From: High-resolution mapping of plasmid transcriptomes in different host bacteria

Unit Direction Transcription start site Transcription termination site Length Genes or ORFs KT_SUC sense KT_SUC antisense KT_CAR sense KT_CAR antisense CA_SUC sense CA_SUC antisense CA_CAR sense CA_CAR antisense
#1 - 4440 3210 1230 tnpA3 2164 428 1879 378 1386 236 2339 386
#2 - 7530 4440 3090 antA-antC 86 86 4410 1399 136 78 4883 1810
#3 - 8830 7440 1390 tnpA2 1153 161 1266 201 929 124 851 100
#4 + 10580 12310 1730 antR 54 45 1271 277 52 25 2902 430
#5 - 14440 13310 1130 ORF21 310 110 486 175 513 187 1325 491
#6 + 18860 19730 870 ORF16 678 124 395 141 465 84 405 72
#7 + 25320 26350 1030 tnpA1 1450 182 1375 219 1045 115 1001 104
#8A + 26620 40170 13550 ORF9-carE 589 151 4068 646 1444 319 5481 946
#8B + 27760 40170 12410 carAa-carE 645 159 3919 632 1552 358 5488 929
#9 - 40980 39560 1420 ORF37 576 142 658 252 936 182 875 186
#10 + 41500 42530 1030 tnpA4 1420 193 1320 217 1103 119 943 109
#11 + 43880 44630 750 ORF40 577 372 623 335 987 351 706 211
#12 - 46080 44190 1890 ORF42-41 898 300 903 460 653 234 637 173
#13 + 46110 48370 2260 tnpRaAa 296 183 580 257 168 82 129 76
#14 - 53780 50550 3230 tnpS- ORF47 839 212 780 277 494 109 409 72
#15 + 53890 55400 1510 tnpT 261 94 458 145 143 56 137 46
#16 + 56180 58400 2220 ORF53-54 719 216 582 222 1073 255 789 150
#17 + 60210 64660 4450 klaA- ORF59 356 120 269 105 353 130 368 119
#18 - 68940 64440 4500 ORF61-ORF60 217 101 214 93 246 128 267 101
#19 - 70120 69120 1000 repA 347 67 235 65 362 82 372 85
#20A + 70060 75580 5520 parW- ORF67a 2441 364 1316 175 1372 255 1257 202
#20B + 71770 75580 3810 parA- ORF67a 3199 506 1713 231 1924 319 1562 221
#21 + 77490 80400 2910 pmr- ORF72 1163 269 769 184 752 198 728 181
#22 - 81820 79480 2340 ORF74-73 318 174 271 183 388 169 427 150
#23 - 84010 82170 1840 ORF77-75 401 88 301 76 294 78 411 87
#24 + 85720 85870 150 ncRNA1 1301 543 1168 470 403 150 1283 114
#25 - 86510 84550 1960 ORF81-79 249 61 291 72 196 48 262 60
#26 - 90880 87680 3200 ORF89-85 880 158 406 93 1051 211 620 128
#27 - 92880 91500 1380 ORF91 283 93 123 94 207 75 146 80
#28 + 93360 94230 870 ORF92 569 100 357 64 366 86 479 78
#29 - 95580 94380 1200 ORF93 541 187 404 149 482 152 559 169
#30 + 97170 98100 930 ORF95a 848 146 627 121 607 110 587 107
#31 + 102560 110380 7820 ORF100-109 4564 554 1588 169 667 80 443 59
#32 - 117040 113160 3880 ORF115-111 264 76 129 58 302 93 165 70
#33 + 117170 119180 2010 ssb-recT 719 103 249 33 208 34 114 19
#34 - 119470 119330 140 ncRNA2 806 725 656 545 242 254 237 168
#35 + 121840 121950 110 ncRNA3 1847 573 1562 472 581 125 694 129
#36 + 123060 124110 1050 ORF120 458 60 598 62 189 39 400 47
#37 + 127040 140790 13750 traG- ORF131 125 46 73 44 191 70 150 63
#38 + 141370 152460 11090 ORF134-143 252 150 204 188 235 120 187 118
#39 + 153440 155620 2180 ORF145-146 4464 645 2126 311 897 149 801 115
#40 + 155840 161570 5730 traF-trhG 181 134 135 212 180 103 120 107
#41 - 165130 161590 3540 ORF154-150 193 60 180 102 217 63 222 47
#42 + 168730 176860 8130 ORF159-167 1295 263 1296 272 1082 214 1148 181
#43 - 180180 179390 790 tnpRb 283 68 439 113 144 28 223 30
#44 + 180340 185550 5210 ORF170-175 717 165 899 218 492 106 765 153
#45 + 185870 189340 3470 tnpAcC 310 307 1004 536 76 93 853 290
#46 + 190420 192860 2440 ORF179-181 746 489 640 349 664 379 608 308
#47 + 193300 195590 2290 ORF182-184 1451 227 1167 208 1942 330 1537 207
  1. The transcription units of pCAR1 and their median signal intensities on both the sense and antisense strands are indicated; KT_SUC, KT2440(pCAR1) grown on succinate; KT_CAR, KT2440(pCAR1) grown on carbazole; CA_SUC, CA10 grown on succinate; CA_CAR, CA10 grown on carbazole. The positions of the transcription start and stop sites correspond to the pCAR1 nucleotide sequence [GenBank:AB088420].