Table 1.
SARS-CoV-2 binding sites for ISGF3-induced TF
| Gene | Start | TF name | TF ID | Start position | End position | Core match score | Matrix match score | Sequence |
|---|---|---|---|---|---|---|---|---|
| orf1ab | 266 | POU4F2 | MA0683.1 | 125 | 140 | 1 | 0.858 | CAGTATAATTAATAAC |
| orf1ab | 266 | RFX2 | MA0600.2 | 659 | 674 | 0.89 | 0.855 | GGTGGCCATAGTTACG |
| orf1ab | 266 | XBP1 | MA0844.1 | 385 | 398 | 1 | 0.95 | AGAGGCACGTCAAC |
| S | 21563 | HOXD9 | MA0913.2 | 21578 | 21587 | 1 | 1 | GCAATAAAAC |
| S | 21563 | ATOH1 (var. 2) | MA1467.1 | 22336 | 22345 | 1 | 0.957 | ACCAGCTGTC |
| S | 21563 | HOXD13 | MA0909.2 | 21578 | 21588 | 1 | 0.993 | GGCAATAAAAC |
| S | 21563 | Stat5a | MA1624.1 | 21178 | 21189 | 1 | 0.999 | ATTCCAAGAATG |
| S | 21563 | CDX4 | MA1473.1 | 21578 | 21588 | 1 | 1 | GGCAATAAAAC |
| ORF3a | 25393 | NEUROG2 | MA0669.1 | 24577 | 24586 | 1 | 0.957 | CACATATGTC |
| ORF3a | 25393 | Six3 | MA0631.1 | 24491 | 24507 | 1 | 0.904 | GAAAGGATATCATTTAA |
| ORF3a | 25393 | ZSCAN4 | MA1155.1 | 24647 | 24661 | 1 | 0.888 | TACACACTCTGACAT |
| ORF3a | 25393 | NEUROG1 | MA0623.2 | 24577 | 24586 | 1 | 0.971 | CACATATGTC |
| ORF3a | 25393 | Alx1 | MA0854.1 | 24591 | 24607 | 1 | 0.98 | AGCTCTAATTAATTGTT |
| ORF3a | 25393 | SOX21 | MA0866.1 | 26089 | 26103 | 1 | 0.91 | AACAATTTTATTGTA |
| ORF3a | 25393 | HOXA9 | MA0594.2 | 25848 | 25857 | 1 | 0.99 | GTCGTAACAA |
| E | 26245 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| E | 26245 | SOX21 | MA0866.1 | 26089 | 26103 | 1 | 0.91 | AACAATTTTATTGTA |
| E | 26245 | HOXA9 | MA0594.2 | 25848 | 25857 | 1 | 0.99 | GTCGTAACAA |
| M | 26523 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| M | 26523 | SOX21 | MA0866.1 | 26089 | 26103 | 1 | 0.91 | AACAATTTTATTGTA |
| M | 26523 | HOXA9 | MA0594.2 | 25848 | 25857 | 1 | 0.99 | GTCGTAACAA |
| ORF6 | 27202 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| ORF6 | 27202 | FOXK1 | MA0852.2 | 28136 | 28149 | 1 | 0.993 | AAGGTAAACAGGAA |
| ORF6 | 27202 | Hmx1 | MA0896.1 | 28151 | 28167 | 1 | 0.955 | CCTGGCAATTAATTGTA |
| ORF7a | 27394 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| ORF7a | 27394 | FOXK1 | MA0852.2 | 28136 | 28149 | 1 | 0.993 | AAGGTAAACAGGAA |
| ORF7a | 27394 | Hmx1 | MA0896.1 | 28151 | 28167 | 1 | 0.955 | CCTGGCAATTAATTGTA |
| ORF7b | 27756 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| ORF7b | 27756 | FOXK1 | MA0852.2 | 28136 | 28149 | 1 | 0.993 | AAGGTAAACAGGAA |
| ORF7b | 27756 | Hmx1 | MA0896.1 | 28151 | 28167 | 1 | 0.955 | CCTGGCAATTAATTGTA |
| ORF8 | 27894 | SIX1 | MA1118.1 | 27220 | 27230 | 1 | 0.995 | GTAACCTGAAA |
| ORF8 | 27894 | FOXK1 | MA0852.2 | 28136 | 28149 | 1 | 0.993 | AAGGTAAACAGGAA |
| ORF8 | 27894 | Hmx1 | MA0896.1 | 28151 | 28167 | 1 | 0.955 | CCTGGCAATTAATTGTA |
| N | 28274 | FOXK1 | MA0852.2 | 28136 | 28149 | 1 | 0.993 | AAGGTAAACAGGAA |
| N | 28274 | Hmx1 | MA0896.1 | 28151 | 28167 | 1 | 0.955 | CCTGGCAATTAATTGTA |
| ORF10 | 29558 | MAFA | MA1521.1 | 29327 | 29341 | 1 | 0.923 | ATGCTTATTCAGCAA |
Abbreviations: ISGF3, interferon-stimulated gene factor 3; SARS-CoV-2, severe acute respiratory syndrome coronavirus 2; TF, transcription factor.