Table 2 List of ORFs searched for and the transcript frequency for each ORF
MRC-5 cells | A549 cells | 293 cells | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Feature | Count 24 h | Percent of total at 24 h | Count 48 h | Percent of total at 48 h | Count 72 h | Percent of total at 72 h | Count 24 h | Percent of total at 24 h | Count 48 h | Percent of total at 48 h | Count 72 h | Percent of total at 72 h | Count 24 h | Percent of total at 24 h |
Total of all reads | 4443 | 100.00 | 9201 | 100.00 | 6849 | 100.00 | 2070 | 100.00 | 1937 | 100.00 | 1811 | 100.00 | 62,281 | 100.00 |
SARS_CoV_2_S_protein | 4156 | 93.54 | 8570 | 93.14 | 6453 | 94.22 | 1536 | 74.20 | 1447 | 74.70 | 1645 | 90.83 | 10,586 | 17.00 |
None from list | 148 | 3.33 | 278 | 3.02 | 214 | 3.12 | 92 | 4.44 | 112 | 5.78 | 53 | 2.93 | 4138 | 6.64 |
pIX | 21 | 0.47 | 27 | 0.29 | 23 | 0.34 | 14 | 0.68 | 13 | 0.67 | 2 | 0.11 | 909 | 1.46 |
DBP(E2A) | 1 | 0.02 | 3 | 0.03 | 0 | 0.00 | 205 | 9.90 | 95 | 4.90 | 13 | 0.72 | 5198 | 8.35 |
fibre(L5) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 2 | 0.10 | 9 | 0.46 | 2 | 0.11 | 6011 | 9.65 |
hexon(L3) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 16 | 0.77 | 20 | 1.03 | 3 | 0.17 | 3990 | 6.41 |
33K_full_length(L4) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 10 | 0.48 | 20 | 1.03 | 7 | 0.39 | 3217 | 5.17 |
preVII(L2) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 12 | 0.58 | 7 | 0.36 | 2 | 0.11 | 3212 | 5.16 |
100K(L4) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 11 | 0.53 | 25 | 1.29 | 7 | 0.39 | 2212 | 3.55 |
i_leader_protein | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 18 | 0.87 | 46 | 2.37 | 11 | 0.61 | 1969 | 3.16 |
IVa2 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 6 | 0.29 | 14 | 0.72 | 3 | 0.17 | 1676 | 2.69 |
pV(L2) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 4 | 0.19 | 3 | 0.15 | 0 | 0.00 | 1373 | 2.20 |
52/55K(L1) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 20 | 0.97 | 28 | 1.45 | 6 | 0.33 | 1345 | 2.16 |
22K(L4) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 9 | 0.43 | 9 | 0.46 | 2 | 0.11 | 1193 | 1.92 |
preX(L2) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 6 | 0.29 | 8 | 0.41 | 4 | 0.22 | 1180 | 1.89 |
E4_orf2 | 0 | 0.00 | 2 | 0.02 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 2 | 0.11 | 1040 | 1.67 |
E4_orf3 | 0 | 0.00 | 1 | 0.01 | 0 | 0.00 | 13 | 0.63 | 8 | 0.41 | 3 | 0.17 | 1011 | 1.62 |
preVI(L3) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 8 | 0.39 | 7 | 0.36 | 1 | 0.06 | 821 | 1.32 |
preVIII(L4) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 2 | 0.10 | 1 | 0.06 | 821 | 1.32 |
penton_base(L2) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 2 | 0.10 | 1 | 0.06 | 631 | 1.01 |
Ad5_E1b_19K | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 506 | 0.81 |
E4_orf1 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 0 | 0.00 | 0 | 0.00 | 286 | 0.46 |
preIIIa(L1) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 5 | 0.24 | 3 | 0.15 | 0 | 0.00 | 239 | 0.38 |
E4_orf4 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 2 | 0.10 | 2 | 0.10 | 0 | 0.00 | 187 | 0.30 |
UXP | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 159 | 0.26 |
Ad5_E1a_13S | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 97 | 0.16 |
E4_orf6_7 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 0 | 0.00 | 1 | 0.06 | 79 | 0.13 |
23K_protease(L3) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 70 | 0.11 |
Ad5_E1a_12S | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 26 | 0.04 |
preTP(E2B) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.05 | 0 | 0.00 | 0 | 0.00 | 23 | 0.04 |
Ad5_pIX | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 10 | 0.02 |
pol(E2B) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 4 | 0.01 |
Ad5_E1a_10S(171R) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 3 | 0.00 |
E4_orf6 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 3 | 0.00 |
Ad5_E1b_13S(E1b-84R) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 2 | 0.00 |
Ad5_E1b_22S(E1b 55 K) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 2 | 0.00 |
Ad5_E1a_9S | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 1 | 0.00 |
Ad5_E1a_11S(217R) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 |
Ad5_E1b_14.5S(E1b-93R) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 |
Ad5_E1b_14S(E1b-156R) | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 |
Ad5_E1b_novel-84R | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 | 0 | 0.00 |