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. 2003 Mar;67(1):86–156. doi: 10.1128/MMBR.67.1.86-156.2003

TABLE 1.

Continued

Genea Strandb Startc Stopc Length (bp)d Length (aa)d Correlatione coefficient pIf Mrf
17′A + 96933 98504 1,572 523 5.16 59,245
17′B + 96987 98504 1,518 505 5.02 57,108
17" + 97254 98504 1,251 416 4.67 46,841
Pl + 98513
18 + 98536 100515 1,980 659 0.95 4.795 71,338
Pl + 100564
Pl + 100623
19 + 100632 101123 492 163 0.99 4.546 18,462
Term + 101131
Pl + 101184
20 + 101207 102781 1,575 524 0.99 5.341 61,037
Pl + 102539
67 + 102781 103023 243 80 0.77 3.662 9,106
68 + 103023 103448 426 141 0.98 10.108 15,874
Pl + 103146
21 + 103448 104086 639 212 0.95 4.725 23,253
21′ + 103514 104086 573 190 5.134 20,834
Pl + 104095
22 + 104117 104926 810 269 0.92 4.498 29,906
Pl + 104787
Pl + 104816
23 + 104945 106510 1,566 521 0.97 5.29 56,023
Term + 106537
segD − 107232 106561 672 223 0.99 9.740 25,619
Pl + 107301
24 + 107323 108606 1,284 427 0.92 4.618 46,998
Term + 108613
Term + 108668
rnlB = 24.1 − 109640 108636 1,005 334 0.99 5.666 37,631
24.2 − 109928 109650 279 92 0.87 4.923 11,003
24.3 − 110085 109915 171 56 0.85 10.22 6,550
Term − 110180
hoc − 111317 110187 1,317 376 0.93 4.626 40,388
inh − 112007 111327 681 226 0.97 4.304 25,570
Pl − 112029
Pl + 112034
segE + 112057 112674 618 205 0.92 4.559 22,896
Pl + 112588
uvsW + 112677 114440 1,764 587 0.93 10.304 67,526
Term − 114472
uvsY.-2 − 114663 114496 168 55 0.91 4.323 6,062
Pl − 114681
uvsY.-1 − 114914 114690 225 74 0.74 4.939 8,963
uvsY − 115327 114914 414 137 0.88 8.53 15,840
Pm − 115371
25 − 115802 115404 399 132 0.95 4.49 15,096
26′ − 116089 115802 288 95 5.27 10,856
Pl − 116412
26 − 116428 115802 627 208 0.86 5.748 23,883
Pl − 116436
Pl − 116444
Pl + 116467
51 + 116479 117228 750 249 0.91 6.229 29,340
27 + 117228 118403 1,176 391 0.97 5.24 44,462
28 + 118348 118881 534 177 0.94 5.75 20,122
29 + 118878 120650 1,773 590 0.95 4.931 64,416
48 + 120659 121753 1,095 364 0.76 8.715 39,738
54 + 121753 122715 963 320 0.87 5.383 34,981
Term + 122720
alt.-3 − 123032 122742 291 96 0.93 4.58 10,704
Pe − 123057
alt.-2 − 123268 123065 204 67 0.70 9.81 7,382
alt.-1 − 123450 123265 186 61 0.95 5.71 6,622
alt − 125502 123454 2,049 682 0.95 6.158 75,819
Pl − 125525
Term − 125558
alt.1 − 125748 125560 189 62 0.89 4.371 7,153
30 − 127208 125745 1,464 487 0.98 6.315 55,299
Pm 127234
30.1 − 127474 127205 270 89 0.82 8 10,833
30.2 − 128310 127474 837 278 0.94 6.241 32,433
Pm 128355
30.3′ − 128629 128402 228 75 −0.17 10.4 8,945
30.3 − 128765 128307 459 152 0.85 8.849 17,088
30.4 − 128964 128758 207 68 0.95 4.535 8,064
30.5 − 129158 128961 198 65 0.82 5.091 7,252
30.6 − 129445 129158 288 95 0.88 7.19 10,814
30.7 − 129852 129487 366 121 0.82 7.305 14,131
Pe (128.2) − 129883
30.8 − 130253 129921 333 110 0.94 6.612 12,893
Pe (128.6) − 130274
Term − 130358
Term − 130402
30.9 − 130540 130364 177 58 0.92 11.44 6,519
rIII − 131033 130785 249 82 0.90 8.479 9,325
Pl − 131167
31 − 131516 131181 336 111 0.89 5.315 12,079
Pm 131540
31.1 − 131881 131573 309 102 0.84 9.113 11,520
31.2 − 132118 131882 237 78 0.71 9.806 9,397
cd − 132699 132118 582 193 0.90 7.833 21,200
cd.1 − 133034 132696 339 112 0.84 8.138 12,814
cd.2 − 133261 133031 231 76 0.69 4.823 10,131
Pe (131.7) − 133295
Term − 133376
cd.3 − 133609 133334 276 91 0.88 4.82 10,131
cd.4 − 133812 133612 201 66 0.83 4.19 7,918
cd.5 − 134032 133805 228 75 0.81 8.521 8,738
pseT − 134907 134002 906 301 0.96 8.671 34,622
pseT.1 − 135135 134908 228 75 0.74 8.455 8,833
pseT.2 − 135431 135132 300 99 0.75 8.577 11,645
pseT.3 − 135781 135428 354 117 0.90 8.947 13,136
alc − 136275 135772 504 167 0.94 7.23 18,962
Pe (134.4) − 136300
Pl + 136889
rnlA = 63 − 137464 136340 1,125 374 0.96 4.885 43,514
denA − 137951 137517 435 144 0.94 9.442 16,744
Term − 137950
nrdB+ − 138457 137955 503 388 0.92 4.924 45,357
I-TevIII − 138886 38593 294 97 0.78 9.011 11,331
Pl − 138933
Pm − 138939
nrdB+ − 139719 139056 664
Pm − 139878
nrdB.1 − 139967 139716 252 83 0.83 9.874 9,409
Term − 140384
mobE − 140416 139991 426 141 0.94 10.102 16,448
nrdA − 142680 140416 2,265 754 0.98 6.117 85,982
Pm − 142725
nrdA.1 − 142997 142671 327 108 0.70 9.035 12,362
nrdA.2 − 143214 142951 264 87 0.96 5.233 10,065
td+ − 143546 143235 312 286 0.89 8.617 33,077
I-TevI − 144431 143694 738 245 0.83 9.625 28,175
Pl − 144449
td+ − 145112 144564 549
Pm − 145142
frd − 145690 145109 582 193 0.98 6.35 21,714
frd.1 − 146004 145762 243 80 0.75 4.843 9,471
Term − 146051
frd.2 − 146529 146143 387 128 0.73 4.281 14,742
frd.3 − 146802 146575 228 75 0.85 3.699 8,820
Pe (144.6) − 146839 146833
Term − 146925
32 − 147853 146948 906 301 0.96 4.681 33,509
Pl − 147998
Pm − 148057
segG = 32.1 − 148541 147909 633 210 0.95 7.194 24,564
59 − 149196 148543 654 217 0.89 9.387 26,000
33 − 149531 149193 339 112 0.93 4.38 12,831
dsbA − 149778 149509 270 89 0.96 4.969 10,379
Pm − 149873
rnh − 150704 149787 918 305 0.97 8.535 35,562
Pe (148.6) − 150727
Pl + 150780
34 + 150809 154678 3870 1289 0.94 5.206 140,416
Pm − 153011
35 + 154687 155805 1,119 372 0.84 4.96 40,123
Term + 155811
Pl + 155850
36 + 155868 156533 666 221 0.92 8.072 23,343
Pl + 156369
37 + 156542 159622 3,081 1,026 0.87 8.537 109,226
Term + 159628
38 + 159649 160200 552 183 0.88 6.633 22,311
Pl + 160209
t + 160221 160877 657 218 0.94 7.921 25,178
Term + 160924
asiA − 161150 160878 273 90 0.95 5.395 10,590
Pe (158.7) − 161175
asiA.1 − 161315 161163 153 50 0.89 4.51 5,935
arn − 161590 161312 279 92 0.81 4.351 10,903
arn.1 − 161805 161674 132 43 0.54 8.334 5,173
arn.2 − 162172 161876 297 98 0.59 5.243 12,402
arn.3 − 162630 162172 459 152 0.90 5.078 17,837
arn.4 − 162833 162627 207 68 0.99 9.24 12,802
motA − 163602 162967 636 211 0.96 8.772 23,577
Pe (161.1) − 163637
Term − 163724
motA.1 − 163879 163730 150 49 0.49 10.036 4,842
52 − 165204 163876 1,329 442 0.99 8.799 50,582
52.1 − 165349 165209 141 46 0.42 8.649 5,098
Term − 165332
ac − 165497 165342 156 51 0.51 3.916 5,472
stp − 165585 165505 81 26 −0.14 10.28 3,184
ndd − 166040 165585 456 151 0.85 9.524 16,935
ndd.1 − 166316 166101 216 71 0.86 4.111 8,143
ndd.2 − 166435 166325 111 36 0.09 5.818 4,354
ndd.2a − 166554 166432 123 40 0.73 7.14 4,303
ndd.3 − 166628 166548 81 26 −0.49 8.25 3,019
ndd.4 − 166764 166636 129 42 0.11 8.622 4,954
Pe (164.2) − 166771
ndd.5 − 166913 166815 99 32 0.81 7.082 3,687
ndd.6 − 166996 166910 87 28 −0.05 8.014 3,406
Pe (164.5) − 167050
denB − 167660 167103 558 185 0.91 7.232 21,162
Term − 167736
denB.1 − 167937 167743 195 64 0.52 8.134 7,452
rIIB − 168903 167965 939 312 0.96 6.24 35,544
End 168903
a

Genes are listed sequentially as they appear in the GenBank file (accession no. AF158101), clockwise on the circular map (by convention) starting with the first base 5′ of rIIB. Recently renamed genes, or those with multiple names, are labeled with =. Intron-containing or translational bypass genes (nrdB+, 60+) are noted with a+ for each reading frame. Genes marked with a prime (′) are overlapping with, or internal to, the designated gene. Transcription signals listed are Pe, Pm, and Pl for early, middle and late promoters, respectively, and Ter for terminator. Pe entries in parentheses are promoter designations used in earlier literature.

b

The coding strand is noted as either the GenBank deposited (+) sequence or the complement (−).

c

Start and stop coordinates denote the first base of the coding region (usually the A of the initiator ATG) and the last base of the stop codon. Promoter coordinates given are either the mapped or predicted transcript start sites (the “+1” position), and terminator coordinates are the first 5′ base of the hairpin.

d

The length (bp) entry includes the stop codon of each coding sequence. Only the mature protein length (aa) is given for those proteins that arise from spliced or bypassed genes.

e

The correlation coefficient given for each gene is the probability of an ORF being a T4 gene based on the codon usage in characterized T4 genes. The program was written by Gary Stormo and is available at the web site: http://www.lecb.ncifcrf.gov/∼toms/delila/frame.html.

f

pI and Mr are calculated values.