Table 2.
SH2016 genome non-coding motifs annotations.
| Motif (5′ to 3′) | Function | Nucleotide locatity |
|---|---|---|
| CATCAT…CGTAG | ITR | 1–103 |
| AATAATATACC | DNApol-pTP-binding site | 8–18 |
| TATGATAATGA | NFIII-binding site | 39–49 |
| GGGGGTGG | Sp1-recognition | 50–56 |
| TGACGT | Transcription factor ATF-binding site | 64–69 |
| GGGCGTGG | Transcription factor Sp1-recognition site | 76–83 |
| CGGGGCGG | Transcription factor Sp1-recognition site | 87–92 |
| TGACGT | Transcription factor ATF-binding site | 96–101 |
| TAAATA | TATA box for E1A | 468–473 |
| AATAAA | polyA signal for E1A | 1,612–1,617 |
| TATATA | TATA box for E1B | 1,675–1,680 |
| ACTGAA | polyA signal for E1B | 3,519–3,525 |
| TATATAA | TATA box for pIX gene | 3,557–,3563 |
| AATAAA | polyA signal for pIX gene | 4,042–4,047 |
| AATACA | polyA signal for E2B | 4,081–4,086 C |
| TGATTGGTTT | Inverted CAAT box for MLP | 5,970–5,979 |
| GCCACGTGAC | Upstream element for MLP | 5,990–5,999 |
| GAAGGGGGGG | MAZ/Sp1-binding site for MLP | 6,011–6,020 |
| TATAAAA | TATA box for MLP | 6,021–6,027 |
| GGGGGTGGGGG | MAZ/SP1-binding site for MLP | 6,028–6,038 |
| TCACTCT | Initiator element for MLP | 6,050–6,056 |
| TTGTCAGTTTCCA | DE1 for MLP | 6,137–6,149 |
| AACGAGGAGGATTTGA | DE2a & DE2b for MLP | 6,152–6,167 |
| AATAAA | polyA signal for L1 | 14,103–14,109 |
| ATTAAA | polyA signal for VII gene | 16,495–16,500 |
| AATAAA | polyA signal for V gene | 17,967–17,972 |
| AATAAA | polyA signal for L3 | 22,425–22,430 |
| TATAAC | TATA box for E3 | 27,587–27,592 |
| AACACA | polyA signal for L4 | 27,938–27,943 |
| AATAAA | polyA signal for E3 | 30,844–30,849 |
| AAAAAA | polyA signal for L5 | 32,837–32,842 |
| AATATA | polyA signal for E4 | 32,947–32,952 C |
| TATATATA | TATA box for E4 | 35,643–35,650 C |
| ATAATATACC | DNApol-pTP-binding site | 35,929–35,938 C |
| CATCAT…CGTAG | Inverted terminal repeat | 35,844–35,946 C |
ITR: Inverted terminal repeat, DNApol-pTP-binding site: the pre-terminal protein-DNA polymerase complex binding site, NFIII: nuclear factor III, MLP: major-late promoter, DE1: Downstream sequence element 1, DE 2a & DE2b: Downstream sequence element 2a & 2b, MAZ: Myc-associated Zinc Finger Protein.
DNA non-coding sequence motifs are recognized for the novel Shanghai HAdV-1 strain (human/CHN/SH/2016/1[P1H1F1]). The nucleotide signatures and their putative functions are indicated. The complementary strand functions are marked as ‘c’, for example 4081–4086c.