Skip to main content

Table 2 Genomic distribution of retroviral integration sites

From: Key determinants of target DNA recognition by retroviral intasomes

Library

Unique sites

Within Refseq genes (%)

Within 5 kb (+/− 2.5 kb) of CpG (%)

Within 5 kb (+/− 2.5 kb) of TSS (%)

Average gene density per Mb (+/− 0.5 Mb) of integration sites

PFV

2,924

1,180 (40.4)

450 (15.4)

425 (14.5)

10.8

PFV (in vitro)

22,117

10,506 (47.5)

1,349 (6.1)

1,150 (5.2)

10.3

MoMLV

53,463

30,865 (57.7)

15,157 (28.4)

14,870 (27.8)

15.4

PERV

1,668

936 (56.1)

811 (48.6)

676 (40.5)

23.4

XMRV

5,487

3,086 (56.2)

1,022 (18.6)

1,100 (20.1)

14.5

EIAV

1,172

689 (58.8)

70 (6.0)

69 (5.9)

12.1

HIV-1

335,968

250,552 (74.6)

18,871 (5.6)

13,882 (4.1)

19.9

Rev-A

834

460 (55.2)

216 (25.9)

216 (25.9)

15.7

SIV

168

142 (84.5)

4 (2.4)

3 (1.8)

17.8

ASLV

916

320 (54.7)

55 (9.4)

44 (7.5)

11.3

HERV-K

1,071

541 (50.5)

131 (12.2)

108 (10.1)

17.8

HTLV-1

6,820

3148 (49.8)

523 (8.3)

467 (7.4)

10.7

MMTV

178,574

72,035 (40.3)

7,131 (4.0)

6,957 (3.9)

8.3

MRC

282,824

129,287 (45.7)

12,914 (4.6)

13,942 (4.9)

9.2