TABLE 2.
ORFs associated with newly identified translation initiation sites
| TIS (nt)a | Strand | Read count | ORF length (aa)e | ORF typeb | Associated ORFc | Expression timingd |
|---|---|---|---|---|---|---|
| 4398 | − | 11,854 | 57 | cORF | 001 (C23L) | E |
| 10518 | − | 2,264 | 75 | tORF | 13 | PR |
| 17588 | − | 2,794 | 201 | tORF | 23 (C5L) | PR |
| 19282 | − | 8,367 | 201 | tORF | 25 (C3L) | PR |
| 22821 | − | 1,550 | 170 | tORF | 29 (N2L) | PR |
| 24221 | − | 1,260 | 447 | tORF | 30 (M1L) | PR |
| 27685 | − | 22,052 | 26 | dORF | 35 (K4L) | PR |
| 33845 | − | 1,503 | 295 | tORF | 43 (F4L) | PR |
| 34242 | − | 6,881 | 97 | tORF | 44 (F5L) | PR |
| 35417 | − | 6,975 | 76 | cORF | 46 (F7L) | E |
| 35663 | + | 1,003 | 33 | nORF | PR | |
| 38817 | − | 3,507 | 338 | tORF | 50 (F11L) | PR |
| 42113 | − | 4,315 | 48 | tORF | 53 (F14L) | PR |
| 42315 | − | 2,737 | 25 | tORF | 53.5 (F14.5) | PR |
| 43072 | − | 2,734 | 42 | tORF | 55 (F16L) | PR |
| 48073 | − | 5,450 | 97 | tORF | 59 (E3L) | E |
| 49329 | + | 2,985 | 310 | cORF | 61 (E5R) | E |
| 49398 | + | 3,430 | 287 | tORF | 61 (E5R) | E |
| 52222 | + | 8,181 | 153 | tORF | 63 (E7R) | PR |
| 52243 | + | 3,244 | 146 | tORF | 63 (E7R) | PR |
| 52276 | + | 8,194 | 135 | tORF | 63 (E7R) | PR |
| 59240 | − | 2,578 | 29 | dORF | 68 (O1L) | E |
| 59340 | − | 1,380 | 664 | tORF | 68 (O1L) | PR |
| 64458 | − | 1,503 | 63 | tORF | 74 (I5L) | PR |
| 79355 | + | 1,070 | 179 | tORF | 91 (L4R) | PR |
| 81353 | + | 2,204 | 323 | tORF | 95 (J3R) | PR |
| 83399 | + | 2,686 | 29 | dORF | 98 (J6R) | PR |
| 88545 | − | 3,524 | 73 | tORF | 101 (H3L) | E |
| 91919 | + | 23,869 | 187 | tORF | 103 (H5R) | PR |
| 104029 | + | 2,614 | 209 | tORF | 114 (D9R) | E |
| 110994 | − | 4,437 | 31 | dORF | 120 (A2L) | PR |
| 115895 | − | 1,043 | 32 | tORF | 126 (A7L) | PR |
| 117574 | − | 2,267 | 30 | dORF | 126 (A7L) | PR |
| 118061 | + | 1,894 | 262 | tORF | 127 (A8R) | E |
| 123568 | − | 6,787 | 49 | tORF | 132 (A13L) | PR |
| 126224 | + | 5,584 | 488 | tORF | 138 (A18R) | PR |
| 127877 | − | 25,602 | 68 | tORF | 139 (A19L) | PR |
| 131219 | + | 5,414 | 1156 | cORF | 144 (A24R) | PR |
| 131876 | − | 1,293 | 29 | nORF | PR | |
| 137695 | − | 2,130 | 47 | dORF | 148 (A25L) | PR |
| 142279 | + | 1,115 | 51 | tORF | 154 (A31R) | E |
| 143165 | − | 1,120 | 254 | tORF | 155 (A32L) | PR |
| 147704 | + | 1,833 | 257 | cORF | 163 (A39R) | PR |
| 151371 | + | 2,340 | 74 | tORF | 169 | PR |
| 154612 | − | 1,368 | 231 | tORF | 173 (A47L) | E |
| 154775 | + | 1,124 | 204 | cORF | 174 (A48R) | E |
| 158807 | + | 1,410 | 29 | dORF | 178 (A52R) | E |
| 163219 | + | 8,677 | 37 | dORF | 181.5 | PR |
| 175192 | + | 1,723 | 33 | dORF | 197 (B15R) | PR |
| 179114 | + | 4,622 | 347 | tORF | 200 (B19R) | PR |
| 190314 | + | 12,001 | 57 | cORF | (C23L) | E |
a
TIS, translation initiation site; position of start codon.
b
cORF, correction of annotated ORF; dORF, downstream frameshifting ORF; nORF, previous unannotated noncoding region ORF; tORF, downstream truncated ORF or upstream nonframeshifting ORF.
c
WR strain ORF numbers are given; common ORF names are in parentheses.
d
E, early stage (2 h); PR, postreplicative state (4 or 8 h).
e
aa, amino acids.