Table 1.
Analyses of prokaryotic and eukaryotic genomes for GC-rich transcriptional elements (percentage GC content, percentage CpG dinucleotides, number of NFI binding sites, and number of Z-DNA sequences)
| Genome size, Mbp (no. of chromosomes) | No. of genes | GC content, % | CpG, % | Total no. of NFIs | Total no. of ZDRs | |
|---|---|---|---|---|---|---|
| Prokaryotes (Complete Microbial Genomes, www.ncbi.nlm.nih.gov/genomes/lproks.cgi) | ||||||
| Eubacteria | ||||||
| Synechocystis sp. PCC6083 (Syn) | 3.57 | 3,218 | 47.72 | 10.05 | 15,982 | 118 |
| B. subtilis subsp. subtilis str.168 (Bs) | 4.21 | 4,226 | 43.52 | 10.92 | 7,827 | 2,143 |
| E. coli K12 (Ec) | 4.64 | 4,915 | 50.79 | 15.75 | 12,472 | 10,424 |
| H. pylori J99 (Hp) | 1.64 | 1,496 | 39.19 | 9.54 | 3,077 | 1,282 |
| Archaea | ||||||
| M. thermoautotrophicus Δ H (Mt) | 1.75 | 1,921 | 49.54 | 7.80 | 2,791 | 206 |
| A. fulgidus DSM 4304 (Af) | 2.18 | 2,487 | 48.58 | 10.60 | 4,019 | 292 |
| A. pernix K1 (Ap) | 1.67 | 1,894 | 56.53 | 13.17 | 4,154 | 603 |
| Eukaryotes (Ensembl v36-Dec 2005, www.ensembl.org/index.html) | ||||||
| S. cerevisiae (Sc) | 12 (16) | 6,652† | 38.42 | 6.73 | 20,729 | 1902 |
| C. elegans (Ce) | 100 (6) | 19,723† | 35.47 | 6.48 | 165,940 | 39,734 |
| D. melanogaster (Dm)‡ | 118 (6) | 13,733§ | 41.30 | 9.47 | 165,940 | 148,116 |
| A. gambiae (Ag) | 278 (5) | 12,500§ | 44.73 | 11.06 | 388,446 | 693,596 |
| T. nigroviridis (Tn) | 402 (21) | 15,357† | 45.99 | 8.81 | 363,806 | 475,219 |
| D. rerio (Dr) | 1,688 (25) | 18,009§ | 36.42 | 5.63 | 1,715,635 | 1,285,246 |
| G. gallus (Gg) | 1,054 (30) | 15,348§ | 44.47 | 7.02 | 1,644,258 | 231,151 |
| R. norvegicus (Rn) | 2,719 (21) | 21,939§ | 42.25 | 5.13 | 4,468,986 | 2,526,023 |
| C. familiaris (Cf) | 2,385 (39) | 17,861§ | 40.90 | 5.14 | 4,555,797 | 1,061,843 |
| H. sapiens (Hs) | 3,272 (24¶) | 20,121† | 41.53 | 5.44 | 5,693,028 | 1,065,255 |
†Number of annotated known RNA polymerase II (Pol II) transcribed genes.
‡Ensembl v42-Dec 2006.
§Number of annotated known and novel RNA Pol II transcribed genes.
¶Includes both the X and Y chromosomes.