Table 1 Element occurrence frequencies within viral and Arabidopsis sequence databases
From: Plant viral intergenic DNA sequence repeats with transcription enhancing activity
Element Identifier | Element Sequence | Occurrence frequency from each database. Values are relative to Arabidopsis CDS = 1.00 (Mean of 18 matched oligomer frequencies) | ||||
|---|---|---|---|---|---|---|
| Â | Â | Arabidopsis -3000 to -1001 | Arabidopsis -1000 to -501 | Arabidopsis -500 to -1 | Arabidopsis CDS | Gemini + nanovirus |
Previously Identified Promoter Elements from A. thaliana (*also confirmed as geminiviral element) | ||||||
ABRE-like | ACGTGKM | 1.65 (1.72) | 1.78 (1.8) | 3 (1.44) | 1 (1.59) | 2.45 (1.28) |
DRE | RCCGAC | 1.86 (1.75) | 1.81 (1.55) | 2.13 (1.46) | 1 (1.13) | 1.09 (0.85) |
G-box* | CACGTG | 2.28 (1.79) | 2.57 (1.58) | 4.35 (1.47) | 1 (1.41) | 3.81 (1.43) |
Consensus Gemini/Nanoviral Sequence Elements (**not a promoter element) | ||||||
CLE | GTGGNCCC | 3.15 (3.51) | 3.62 (2.99) | 3.9 (2.79) | 1 (1.56) | 17.36 (2.81) |
DR08/13 | TCTCTCTCTA | 3.15 (0.46) | 3.6 (0.4) | 7.75 (0.35) | 1 (0.51) | 6.92 (0.53) |
BCTV DR19/30 | AAACTTC | 0.7 (0.62) | 0.69 (0.64) | 0.68 (0.66) | 1 (0.72) | 0.64 (0.52) |
GV rep-stem** | CGCGNCCA | 2.52 (3.51) | 2.2 (2.99) | 2.26 (2.79) | 1 (1.89) | 17.11 (3.42) |