TABLE 2.
Characterization of HERV-K(OLD) proviral elements
| Accession no. | Chromosomal location | Position in sequence entrya | Identified Alu element | Age in Myr of the Alu subfamily (SD)b | LTR subgroupc | % Divergence between 5′ and 3′ LTRd (estimated integration date in Myre) |
|---|---|---|---|---|---|---|
| AC004979 | 7q31.3–q32 | 4543–9556 (−) | −8/−23 | |||
| AC012309 | 19 | 19871–29390 (−) | −8/−23 | 7.72 (29.7) | ||
| AL121932 | 6 | 77077–85952 (+) | −8/−23 (solLTR −8/+23) | |||
| AC004034 | 16 | 18813–21376 (+) | +8/+23 | |||
| AL035587 | 6p12.3–21.2 | 47775–57733 (+) | AluY in gag | 19 (12) | +8/+23 | 3.61 (13.9) |
| AL023753 | 1p36.11–36.31 | 10026–15846 (+) | +8/+23 | |||
| AP000345 | 22q11.2 | 58296–67462 (+) | AluY in env | 19 (12) | +8/+23 | |
| AL136419 | 14 | 110721–116801 (−) | +8/+23 | |||
| AL031668 | 20q11.21–11.23 | 19015–28651 (−) | 2 × AluY in 5′ LTR | 19 (12) | +8/+23 | 5.83 (22.4) |
| AluY in gag | 19 (12) | |||||
| AC004127(htgs) | 11 | 34788–49392 (+) | AluYb8 in 5′ LTR | 3 (3) | −8/−23 | 6.57 (25.3) |
| AluSg in pol/env | 31 (12) | |||||
| AluY in pseudogene | 19 (12) |
a
+ and −, designates orientation in sequence entry
b
Average age of Alu subfamilies in Myr as estimated from divergence values; standard deviations are given in parentheses (9).
c
See Fig. 2.
d
Divergence values are corrected for revertant and superimposed changes according to the method of Kimura (10).
e
The average mutation rate for the evolution of LTRs of 0.13%/Myr was used for the calculation of the integration time by the formula T = D/(2 × 0.13), with D being the divergence value (12).