Table 2.
Other HML-2 (and HML-2-like) proviruses
| Provirus | Alias | Chr | Orientation | Start | End | Oldest Common Ancestora |
Estimated Ageg | ORFs | Reference |
|---|---|---|---|---|---|---|---|---|---|
| 1p36.21a | 1 | (-) | 12840260 | 12846364 | Orangutan | N/A | gag | This Study | |
| 1p36.21c | K6,K76 | 1 | (+) | 13678850 | 13688242 | Orangutan | 22.69-41.09 | gag | Hughes and Coffin, 2001 |
| 1p34.3 | 1 | (-) | 36955490 | 36956728 | Orangutan | N/A | This Study | ||
| 1q43 | 1 | (-) | 238925595 | 238927773 | Rhesus | N/A | This Study | ||
| 4p16.3b | K77 | 4 | (-) | 3980069 | 3988631 | Chimpanzee | 11.1-20.1 | Romano et al., 2006 | |
| 4p16.1b | K50c | 4 | (+) | 9659588 | 9668650 | Chimpanzee | 17.19-31.13 | Macfarlane and Simmonds, 2004 |
|
| 5q33.2 | K18b | 5 | (-) | 154016502 | 154024214 | Chimpanzee | 13.03-23.6 | env | Romano et al., 2006 |
| 6p11.2 | K23 | 6 | (+) | 57623896 | 57628704 | Orangutan | 9.38-16.99 | Romano et al., 2006 | |
| 7q11.21 | 7 | (-) | 65469689 | 65472384 | Chimpanzee | N/A | This Study | ||
| 8p22 | 8 | (-) | 17765202 | 17773940 | Rhesus | N/A | This Study | ||
| 8q24.3b | K29 | 8 | (-) | 146246648 | 146254211 | Gibbonf | 12.33-22.33 | env | Hughes and Coffin, 2001 |
| 12q24.33 | K42 | 12 | (-) | 133667120 | 133673132 | Orangutan | 7.07-12.81 | Romano et al., 2006 | |
| 14q11.2 | K(OLDAL136419), K71 |
14 | (-) | 24480625 | 24484121 | Orangutan | 11.98-21.69 | gag | Reus et al., 2001 |
| 14q32.33 | 14 | (+) | 106139659 | 106142540 | Rhesus | N/A | Romano et al., 2006 | ||
| 15q25.2 | 15 | (+) | 84829020 | 84832364 | Orangutan | N/A | This Study | ||
| 16p13.3 | K(OLDAC004034 | 16 | (+) | 2976160 | 2977661 | Rhesus | N/A | This Study | |
| 17p13.1 | 17 | (+) | 7960357 | 7967219 | Rhesus | N/A | This Study | ||
| 19q13.41 | 19 | (-) | 53248274 | 53252591 | Orangutan | N/A | pol | Hughes and Coffin, 2001 | |
| 22q11.23 | K(OLDAP000345), KOLD345 |
22 | (+) | 23879930 | 23888810 | Gorillaf | 21.64-39.18* | gag | Hughes and Coffin, 2001 |
| Xq11.1 | X | (+) | 61959549 | 61962054 | Unknownb | N/A | env | This Study | |
| Xq12 | X | (-) | 65684132 | 65686184 | Human Specificc | N/A | This Study | ||
| Xq28a | K63 | X | (+) | 153817163 | 153819562 | Human Specificd | N/A | gag | Macfarlane and Simmonds, 2004 |
| Xq28b | K63 | X | (-) | 153836675 | 153844015 | Orangutan | 14.65-26.52 | gag | Macfarlane and Simmonds, 2004 |
| Yq11.23a | Y | (-) | 26397837 | 26401035 | Chimpanzeee | N/A | This Study | ||
| Yq11.23b | Y | (+) | 27561402 | 27564601 | Chimpanzeee | N/A | This Study | ||
aRefers to most distant species with shared provirus. Determined by searching for provirus at the corresponding locus by BLAT
searching flanking sequence in the chimpanzee, orangutan, and rhesus publicly available genomes on the UCSC genome browser.
bRegion is flanked by satellite DNA, no good match found in non-human primate genomes.
cNo good match found in non-human primate genomes.
dProvirus is a product of a duplication event post human/chimpanzee split.
eProvirus is a product of a duplication event post chimpanzee/orangutan split.
fFrom Hughes and Coffin, 2001.
gAges based upon molecular clock calculations from Hughes and Coffin, 2005. N/A indicates unpaired LTRs or LTRs lacking sufficient sequence to determine age. Asterisk denotes age listed is for a recombinant provirus.