TABLE 1.
NeabNPVORFs
| ORF | Name | Position | Length (amino acids) | Predicted sequence homologuea
|
Feature of coding sequenced | Putative promoter elementsc | ||||
|---|---|---|---|---|---|---|---|---|---|---|
| NeleNPV | NeseNPV | AcMNPV | PxGVb | CuniNPV | ||||||
| 1 | polyhedrin (polh) | 0 > 741 | 247 | 1 (99) 247 | 1 (93) 246 | 8 (46) 245 | 4 (36) 248 | TATA box, DTAAG, M7, M8, M9 | ||
| 2 | 906 < 1953 | 349 | 5 (84) 52 | 3 (14) 388 | Cyclin-like F-box domain, RNA-binding motif | M1, M2 | ||||
| rep1 | 1881 > 2755 | |||||||||
| 3 | 2093 < 2273 | 60 | M1, M2 | |||||||
| 4 | 2380 < 2551 | 57 | TATA box, M1, M2, M4 | |||||||
| 5 | 2797 > 3469 | 224 | 13 (62) 247 | 20 (21) 270 | Similar to AcMNPV P33, signal peptide | TATA box, Zeste, DTAAG, M1, M6, M7, M8, M9 | ||||
| 6 | dbp | 3557 < 4268 | 237 | 14 (88) 236 | 22 (45) 251 | 25 (19) 316 | TATA box, M2, M5 | |||
| 7 | lef-11 | 4248 < 4557 | 103 | 15 (84) 101 | 23 (43) 100 | TATA box, CAKT, M9 | ||||
| 8 | p33 | 4570 < 5341 | 257 | 16 (87) 256 | 24 (51) 252 | 92 (19) 259 | 76 (18) 250 | 14 (14) 370 | DTAAG, M3, M6 | |
| 9 | 5342 > 5855 | 171 | 17 (91) 170 | 25 (47) 170 | TATA box, DTAAG | |||||
| 10 | 5872 > 6523 | 217 | 18 (77) 216 | 26 (44) 218 | 1 predicted TM domain, signal peptide | TATA box, DTAAG, M7 | ||||
| rep2 | 6570 > 6954 | |||||||||
| 11 | 6635 > 6809 | 58 | 2 predicted TM domains | TATA box, M3 | ||||||
| 12 | dnapol | 6795 < 9555 | 920 | 20 (84) 923 | 28 (64) 913 | 65 (23) 984 | 94 (23) 979 | 91 (17) 1138 | DNA polymerase type B family | Zeste, CREB/ATF-47, CAKT, M6 |
| 13 | 9553 > 11638 | 695 | 21 (66) 728 | 29 (28) 792 | 93 (9) 651 | 67 (13) 1357 | Putative ATPase, putative IMP dehydrogenase domain; prefoldin structure | CREB/ATF-47, M3, M6, M7 | ||
| 14 | 11742 > 12963 | 407 | 22 (63) 380 | 3 (21) 388 | ||||||
| 15 | 13175 > 13937 | 254 | 25 (35) 261 | Leucine-rich repeat | TATA box, DTAAG, M3 | |||||
| 16 | odv-c56 | 14060 > 15071 | 337 | 23 (92) 336 | 38 (71) 339 | 148 (34) 376 | 16 (38) 351 | 101 (20) 361 | 1 predicted TM domain, IMP dehydrogenase/GMP reductase domain | TATA box, DTAAG, M5, M7, M9 |
| 17 | 15159 > 15738 | 193 | 24 (92) 192 | 39 (50) 192 | TATA box, DTAAG, M3 | |||||
| 18 | 15870 < 16698 | 276 | 25 (52) 261 | M3, M4, M9 | ||||||
| 19 | 16912 < 17596 | 228 | 26 (67) 226 | TATA box, Zeste, M1, M6, M9 | ||||||
| 20 | 17757 < 18267 | 170 | 2 (34) 108 | TATA box | ||||||
| rep3 | 17804 > 18262 | |||||||||
| 21 | iap | 18332 > 18941 | 203 | 11 (75) 260 | 17 (24) 181 | 27 (23) 286 | 98 (21) 281 | Baculovirus IAP repeat domain | TATA box, Zeste, M1, M7 | |
| 22 | 18912 < 19074 | 54 | CAKT, M7 | |||||||
| 23 | 19610 < 22079 | 823 | 9 (60) 794 | 16 (27) 637 | TATA box, M3 | |||||
| 24 | 22749 > 24213 | 488 | 8 (50) 526 | 11 (16) 461 | Ring finger domain, zinc finger, LMP repeat | TATA box, M3 | ||||
| 25 | 24466 > 24868 | 134 | 7 (71) 131 | TATA box, M3, M6, M7 | ||||||
| 26 | trypsin-like protein | 25091 > 25871 | 260 | 6 (96) 259 | 7 (73) 258 | Trypsin-like serine protease | DTAAG, M3, M6 | |||
| 27 | 25989 < 27069 | 360 | 4 (73) 332 | 9 (20) 416 | TATA box, Zeste, M4 | |||||
| rep4 | 26312 > 26527 | |||||||||
| 28 | 27373 < 27559 | 62 | Signal peptide | Zeste, CAKT, M1, M6, M9 | ||||||
| rep5 | 27427 > 29532 | |||||||||
| 29 | 28291 > 29335 | 348 | 5 (84) 52 | 3 (14) 388 | F-box domain | TATA box, CREB/ATF-47 | ||||
| 30 | 29972 > 30539 | 189 | 27 (51) 190 | 37 (29) 133 | TATA box, M1, M2 | |||||
| 31 | 30612 < 30869 | 86 | TATA box, CAKT, M5 | |||||||
| 32 | p40 | 30950 < 32051 | 367 | 29 (91) 366 | 35 (64) 368 | TATA box, Zeste | ||||
| 33 | 32105 < 32423 | 106 | 30 (75) 116 | 34 (47) 117 | TATA box, DTAAG, M7 | |||||
| 34 | p48 | 32419 < 33628 | 403 | 31 (85) 390 | 33 (54) 402 | 103 (10) 387 | IMP dehydrogenase/GMP reductase domain | TATA box, M6 | ||
| 35 | 33646 < 34348 | 234 | 32 (88) 238 | 32 (63) 235 | 40 (17) 206 | Zeste, M6 | ||||
| 36 | alk-exo | 34451 > 35663 | 404 | 33 (82) 402 | 31 (48) 399 | 133 (22) 419 | 106 (25) 378 | 54 (15) 367 | IAP repeat restriction endonuclease like | |
| 37 | 35659 > 36133 | 158 | 34 (84) 157 | 152 (14) 408 | 1 predicted TM domain, signal peptide | TATA box, CAKT, DTAAG, M6, M9 | ||||
| 38 | 36417 < 37371 | 318 | 36 (60) 319 | 1 predicted TM domain, signal peptide | TATA box, M6 | |||||
| 39 | lef-9 | 37363 < 38953 | 530 | 37 (87) 503 | 40 (62) 507 | 62 (29) 516 | 99 (31) 494 | 59 (15) 590 | TATA box, M3, M7, M9 | |
| 40 | 38981 < 39404 | 141 | 38 (87) 141 | 41 (48) 147 | 68 (20) 192 | 96 (15) 128 | 58 (18) 137 | 1 predicted TM domain | TATA box, M7 | |
| 41 | 39533 < 39722 | 73 | TATA box, DTAAG, M7, M8, M9 | |||||||
| 42 | 39720 > 40707 | 329 | 39 (70) 353 | 42 (24) 444 | Zeste, M3, M7 | |||||
| 43 | 40703 < 41081 | 126 | 40 (87) 125 | 43 (39) 125 | TATA box, DTAAG, M7 | |||||
| 44 | 41077 < 41308 | 74 | 41 (90) 76 | 44 (63) 82 | 1 predicted TM domain, signal peptide | CREB/ATF-47, M6 | ||||
| 45 | vlf-1 | 41310 < 42375 | 355 | 42 (86) 354 | 45 (65) 353 | 77 (24) 379 | 89 (29) 346 | 18 (16) 358 | DNA breaking-rejoining enzyme, catalytic core, IMP dehydrogenase/GMP reductase domain | TATA box, CAKT, DTAAG |
| 46 | 42458 > 42617 | 53 | 1 predicted TM domain, signal peptide | TATA box | ||||||
| 47 | gp41 | 42649 < 43315 | 222 | 44 (94) 270 | 47 (60) 312 | 80 (30) 409 | 87 (19) 283 | TATA box, DTAAG, M4, M8 | ||
| 48 | 43484 > 44012 | 176 | 45 (90) 175 | 48 (75) 176 | 81 (36) 233 | 86 (34) 191 | 106 (14) 186 | 2 predicted TM domains | Zeste, DTAAG, M3 | |
| 49 | p47 | 44255 < 45434 | 393 | 46 (87) 389 | 49 (61) 386 | 40 (22) 401 | 51 (20) 386 | 73 (10) 439 | Zeste, CAKT, M7 | |
| 50 | p74 | 45435 < 47340 | 635 | 47 (86) 633 | 50 (63) 634 | 138 (38) 645 | 49 (31) 578 | 74 (32) 681 | 3 predicted TM domains, IMP dehydrogenase/GMP reductase domain | TATA box, M3 |
| 51 | 47317 < 47854 | 179 | 48 (69) 178 | 51 (28) 142 | Double-stranded RNA-binding motif | TATA box, M8, M9 | ||||
| 52 | 47916 > 48585 | 223 | 49 (76) 218 | 52 (40) 220 | Zinc finger | TATA box, Zeste | ||||
| 53 | 48577 > 49933 | 452 | 53 (48) 386 | 1 predicted TM domain IMP dehydrogenase/GMP reductase domain | TATA box, M4, M5, M6 | |||||
| 54 | 49929 > 50508 | 193 | 51 (83) 192 | 54 (47) 184 | TATA box, CREB/ATF-47, DTAAG, M6, M9 | |||||
| 55 | pif-2 | 50537 > 51692 | 385 | 52 (93) 384 | 55 (73) 384 | 22 (43) 382 | 37 (46) 368 | 38 (43) 403 | 1 predicted TM domain, signal peptide | TATA box, DTAAG, M3, M6, M7 |
| 56 | 51761 > 52094 | 111 | 53 (88) 104 | 56 (57) 115 | TATA box, DTAAG, M7 | |||||
| 57 | lef-2 | 52095 > 52683 | 196 | 54 (80) 195 | 57 (37) 200 | 6 (16) 210 | 25 (11) 225 | TATA box, M4 | ||
| 58 | lef-5 | 52709 < 53417 | 236 | 55 (88) 235 | 58 (57) 230 | 99 (27) 265 | 69 (31) 247 | Zinc finger | TATA box, M9 | |
| 59 | 38K | 53407 > 54325 | 306 | 56 (88) 305 | 59 (59) 304 | 98 (31) 320 | 70 (31) 340 | 87 (25) 303 | IMP dehydrogenase/GMP reductase domain, putative phosphatase | Zeste, DTAAG |
| 60 | 54310 < 54817 | 169 | 57 (92) 168 | 60 (63) 170 | 96 (25) 173 | 71 (24) 161 | 90 (25) 202 | 1 predicted TM domain, signal peptide | TATA box, M5 | |
| 61 | helicase | 54803 > 58214 | 1,137 | 58 (89) 1134 | 61 (59) 1143 | 95 (18) 1221 | 72 (18) 1124 | 89 (12) 1332 | IMP dehydrogenase/GMP reductase domain, P-loop containing nucleoside triphosphate hydrolases | M7 |
| 62 | lef-4 | 58210 < 59617 | 469 | 59 (85) 468 | 62 (52) 477 | 90 (22) 464 | 78 (25) 432 | 96 (16) 497 | TATA box, M4, M6 | |
| 63 | 59633 > 60962 | 443 | 60 (89) 442 | 63 (52) 441 | 142 (20) 477 | TATA box, DTAAG, M3, M6 | ||||
| 64 | 60970 > 61210 | 80 | 61 (89) 78 | 64 (43) 78 | 1 predicted TM domain | TATA box, DTAAG, M4, M5 | ||||
| 65 | odv-e18 | 61285 > 61489 | 68 | 62 (95) 85 | 65 (83) 83 | 1 predicted TM domain, signal peptide, aspartate and glutamate racemases signature 1 | TATA box, DTAAG | |||
| 66 | odv-e27 | 61503 > 62292 | 263 | 63 (94) 262 | 66 (71) 260 | 144 (21) 290 | 80 (12) 287 | CAKT, DTAAG | ||
| 67 | 62319 > 62652 | 111 | 64 (87) 110 | 67 (70) 108 | 145 (20) 77 | 12 (27) 98 | 1 predicted TM domain, signal peptide, putative chitin-binding motif | TATA box, DTAAG | ||
| 68 | lef-1 | 62659 < 63295 | 212 | 65 (85) 211 | 68 (54) 190 | 14 (20) 266 | 55 (27) 251 | 45 (26) 235 | DNA primase | TATA box, CREB/ATF-47, M5 |
| 69 | 63352 > 63940 | 196 | 66 (89) 193 | 69 (63) 190 | 115 (24) 204 | 29 (28) 181 | 46 (27) 203 | 1 predicted TM domain, signal peptide | TATA box, Zeste, M9 | |
| 70 | 63939 > 64119 | 60 | 1 predicted TM domain, signal peptide | TATA box, Zeste, DTAAG, M6, M7 | ||||||
| 71 | 64093 > 65158 | 355 | 67 (86) 354 | 70 (57) 357 | 109 (21) 390 | 43 (20) 414 | 69 (17) 409 | TATA box, M3, M7, M9 | ||
| 72 | 65157 > 65367 | 70 | 68 (89) 69 | 71 (53) 71 | 1 predicted TM domain | TATA box, DTAAG | ||||
| 73 | rcc1 | 65353 > 65851 | 166 | 69 (80) 136 | 72 (60) 118 | RCC1 domain, 1 predicted TM domain | TATA box, M3, M5, M6 | |||
| 74 | rcc1 | 66214 > 66565 | 117 | 71 (71) 99 | 72 (7) 118 | RCC1 domain, 1 predicted TM domain, signal peptide | TATA box, M7 | |||
| 75 | 66996 > 67545 | 183 | 72 (64) 283 | 75 (39) 273 | TATA box, M7 | |||||
| 76 | 67599 > 67755 | 52 | TATA box | |||||||
| 77 | 67787 > 68585 | 266 | 74 (81) 265 | 77 (36) 284 | TATA box, M4, M7 | |||||
| 78 | 68962 > 69592 | 210 | 75 (79) 209 | 78 (27) 143 | TATA box, CREB/ATF-47, M9 | |||||
| 79 | pif | 69573 < 71187 | 538 | 76 (91) 530 | 79 (63) 519 | 119 (29) 530 | 7 (28) 536 | 29 (30) 523 | 1 predicted TM domain, signal peptide, zinc finger | Zeste, CREB/ATF-47, DTAAG, M1, M6, M9 |
| rep6 | 71014 > 72092 | |||||||||
| 80 | 71218 > 71485 | 89 | 35 (25) 97 | TATA box, CAKT, M7 | ||||||
| 81 | 71728 < 71899 | 57 | 2 (51) 108 | TATA box, M3, M6 | ||||||
| 82 | 71923 < 72379 | 152 | 77 (70) 149 | 80 (45) 156 | 28 (13) 284 | TATA box, CREB/ATF-47 | ||||
| 83 | lef-8 | 72377 > 74909 | 844 | 78 (87) 843 | 81 (69) 846 | 50 (30) 876 | 109 (32) 838 | 26 (20) 922 | Subunits of DNA dependent RNA polymerase | TATA box, Zeste, CAKT, M5 |
| rep7 | 74887 > 75140 | |||||||||
| 84 | 74926 > 75151 | 75 | 2 (28) 108 | TATA box | ||||||
| 85 | 75391 < 75556 | 55 | TATA box, DTAAG, M4, M8 | |||||||
| 86 | 75878 > 76430 | 184 | 81 (89) 148 | 83 (66) 145 | Capsid structural protein | TATA box, M1, M5, M8 | ||||
| 87 | vp91 | 76438 > 78844 | 802 | 82 (82) 803 | 84 (51) 824 | 83 (23) 847 | 84 (21) 533 | 35 (22) 741 | 1 predicted TM domain, signal peptide, IMP dehydrogenase/GMP reductase domain, chitin-binding peritrophin A domain | TATA box, Zeste, DTAAG, M4, M7, M9 |
| 88 | vp1054 | 78845 < 79787 | 314 | 83 (93) 313 | 85 (60) 310 | 54 (20) 365 | 115 (16) 311 | 8 (13) 329 | IMP dehydrogenase/GMP reductase domain, DNA polymerase beta, N terminals like | |
| 89 | 79912 > 80125 | 71 | 84 (81) 69 | 86 (58) 73 | ||||||
| 90 | 80132 > 81056 | 308 | 85 (83) 305 | 87 (38) 311 | TATA box, DTAAG, M6 | |||||
| 91 | 81100 > 82480 | 460 | 87 (54) 476 | 18 (11) 301 | TATA box, M7 | |||||
| 92 | vp39 | 82640 < 83588 | 316 | 88 (98) 315 | 89 (71) 312 | 89 (18) 347 | 79 (14) 320 | 24 (10) 289 | Putative RNA 2′-phosphotransferase | CAKT, M2, M5, M6 |
| 93 | 83597 > 84140 | 181 | 89 (80) 183 | 90 (43) 192 | Putative RNA 2′-phosphotransferase | TATA box, Zeste, DTAAG | ||||
a
The ORF number of a putative homologue is shown with the percent amino acid identity in parentheses, followed by the length of the homologue.
b
PxGV: Platella xylostella GV.
c
Promoter elements and abbreviations are defined in Table 2. A TATA box was defined as a TATA sequence within the −40 to −20-bp upstream region of the ORF or a TATAW sequence within 160 bp upstream of the ORF. CAKT was reported only when it occurred within the −40 to −20-bp upstream region of the ORF. All other elements were reported if they occurred within 160 bp upstream of the ORF.
d
Summary of BLAST, PSI-BLAST, RPS-BLAST, and INTERPRO SignalScan analyses.