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Table 1 Full-length and near full-length HML-2 proviruses

From: Identification, characterization, and comparative genomic distribution of the HERV-K (HML-2) group of human endogenous retroviruses

Locus

Alias

Chr

Orientation

Start

End

Oldest

Common

Ancestora

Estimated

Agef

Polymorphic

Alleles

ORFs

References

1p36.21b

K(OLDAL023753),

K6,

K76

1

(+)

13458305

13467826

Orangutan

22.47-40.68

 

gag

Reus et al.,

2001

1p31.1

K4, K116, ERVK-

1

1

(+)

75842771

75849143

Human

Specific

< 2

Provirus

gag

Hughes and

Coffin, 2001

1q21.3

 

1

(-)

150605284

150608361

Orangutan

N/A

  

This Study

1q22

K102, K(C1b),

K50a, ERVK-7

1

(-)

155596457

155605636

Human

Specific

< 2

  

Barbulescu et

al., 1999

1q23.3

K110, K18,

K(C1a), ERVK-18

1

(+)

160660575

160669806

Gorillab

7.81-14.14

  

Barbulescu et

al., 199

1q24.1

K12

1

(-)

166574603

166580258

Rhesus

14.17-25.65

  

Romano et al.,

2006

1q32.2

 

1

(-)

207808457

207812636

Orangutan

N/A

  

This Study

2q21.1

 

2

(-)

130719538

130722209

Human

Specific

N/A

  

This Study

3p25.3

K11, ERVK-2

3

(-)

9889346

9896236

Orangutan

12.13-21.96*

  

Hughes and

Coffin, 2001

3p12.3

 

3

(+)

75600465

75609150

Chimpanzee

N/A

  

This Study

3q12.3

K(II), ERVK-5

3

(+)

101410737

101419859

Gorillab

5.51-9.98

  

Sugimoto et al.,

2001

3q13.2

K106, K(C3),

K68, ERVK-3

3

(-)

112743479

112752282

Human

Specific

< 2

Provirus,

soloLTR

gag

Barbulescu et

al., 1999

3q21.2

K(I), ERVK-4

3

(+)

125609302

125618416

Human

Specific

4.8-8.69

  

Sugimoto et al.,

2001

3q24

ERVK-13

3

(-)

148281477

148285396

Human

Specific

N/A

 

gag

This Study

3q27.2

K50b, K117,

ERVK-11

3

(-)

185280336

185289515

Human

Specific

< 2

 

gag, pol

Hughes and

Coffin, 2001

4p16.3a

 

4

(+)

234989

239459

Rhesus

N/A

  

This Study

4p16.1a

K17b

4

(+)

9123515

9133075

Chimpanzee

16.84-30.49

  

Romano et al.,

2006

4q13.2

 

4

(+)

69463709

69469223

Orangutan

17.09-30.95

 

env

This Study

4q32.1

 

4

(+)

161579938

161582360

Chimpanzee

N/A

  

This Study

4q32.3

K5, ERVK-12

4

(+)

165916840

165924068

Orangutan

9.24-16.73

  

Hughes and

Coffin, 2001

4q35.2

 

4

(-)

191027414

191034701

Human

Specific

13.07-23.67

  

This Study

5p13.3

K104, K50d

5

(-)

30487114

30496205

Human

Specific

6.32-11.44

  

Barbulescu et

al., 1999

5p12

 

5

(-)

46000159

46010002

Orangutan

13.39-24.24

  

This Study

5q33.3

K107/K10,

K(C5), ERVK-10

5

(-)

156084717

156093896

Human

Specific

< 2

 

gag, pol

Ono et al., 1986

6p22.1

K(OLDAL121932),

K69,

K20

6

(+)

28650367

28660735

Orangutan

19.55-35.4

  

Reus et al.,

2001

6p21.1

K(OLDAL035587),

KOLD35587

6

(-)

42861409

42871367

Rhesus

9.83-17.81

  

Reus et al.,

2001

6q14.1

K109, K(C6),

ERVK-9

6

(-)

78427019

78436083

Human

Specific

< 2

Provirus,

soloLTR

gag, env

Barbulescu et

al., 1999

6q25.1

 

6

(+)

151180749

151183574

Rhesus

N/A

 

env

This Study

7p22.1a

K108L, K

(HML.2-HOM),

K(C7), ERVK-6

7

(-)

4622057

4631528

Human

Specific

< 2

Provirus,

Tandem

Repeat,

SoloLTR

pol, env

Barbulescu et

al., 1999

7p22.1b

K108R, ERVK-6

7

(-)

4630561

4640031

Human

Specific

< 2

Provirus,

Tandem

Repeat,

SoloLTR

pol, env

Barbulescu et

al., 1999

7q22.2

ERVK-14

7

(-)

104388369

104393266

Human

Specific

N/A

 

gag

This Study

7q34

K(OLDAC004979),

ERVK-15

7

(-)

141450926

141455903

Orangutan

N/A

 

gag

Reus et al.,

2001

8p23.1a

K115, ERVK-8

8

(-)

7355397

7364859

Human

Specific

4.87-8.82*

Provirus

gag, pol, env

Turner et al.,

2001

8p23.1b

K27

8

(+)

8054700

8055725

Chimpanzee

16.09-29.13

  

Hughes and

Coffin, 2001

8p23.1c

 

8

(-)

12073970

12083497

Chimpanzee

15-27.17

  

Hughes and

Coffin, 2001

8p23.1d

KOLD130352

8

(-)

12316492

12326007

Human

Specifice

15.22-27.56

  

Hughes and

Coffin, 2001

8q11.1

K70, K43

8

(-)

47175650

47183661

Unknownd

23.46-42.48

  

Romano et al.,

2006

8q24.3a

 

8

(-)

140472149

140475236

Human

Specific

N/A

  

This Study

9q34.11

K31

9

(+)

131612515

131619736

Orangutan

12.43-22.51

  

Hughes and

Coffin, 2001

9q34.3

K30

9

(-)

139674766

139684228

Orangutan

15.46-28

  

Hughes and

Coffin, 2001

10p14

K(C11a), K33,

ERVK-16

10

(-)

6867109

6874635

Gorillab

7.36-13.32

  

Costas et al.,

2001

10p12.1

K103, K(C10)

10

(+)

27182399

27183380

Human

Specific

1.61-2.91

Provirus,

SoloLTR

gag, pol

Barbulescu et

al., 1999

10q24.2

ERVK-17, c10_B

10

(-)

101580569

101587716

Human

Specific

N/A

 

gag

Macfarlane and

Simmonds,

2004

11p15.4

K7

11

(-)

3468656

3478209

Human

Specifice

15.44-27.95

  

Romano et al.,

2006

11q12.1

 

11

(+)

58767448

58773196

Chimpanzee

N/A

 

env

This Study

11q12.3

K(OLDAC004127)

11

(-)

62135963

62150563

Gibbonc

19.46-35.24*

 

pol

Reus et al.,

2001

11q22.1

K(C11c), K36,

K118, ERVK-25

11

(+)

101565794

101575259

Human

Specific

< 2

Provirus,

SoloLTR

pol

Costas et al.,

2001

11q23.3

K(C11b), K37,

ERVK-20

11

(-)

118591724

118600883

Gorillab

13.35-24.18

 

gag

Costas et al.,

2001

12p11.1

K50e

12

(-)

34772555

34782217

Chimpanzee

39.23-71.02

  

Romano et al.,

2006

12q13.2

 

12

(+)

55727215

55728183

Human

Specific

< 2

Provirus,

SoloLTR

gag, pol

Belshaw et al.,

2005

12q14.1

K(C12), K41,

K119, ERVK-21

12

(-)

58721242

58730698

Human

Specific

< 2

SoloLTR

gag, pol, env

Costas et al.,

2001

12q24.11

 

12

(+)

111007843

111009325

Human

Specific

N/A

  

Medstrand and

Mager, 1998

16p11.2

 

16

(+)

34231474

34234142

Unknownd

N/A

  

This Study

19p13.3

ERVK-22

19

(+)

385095

387637

Orangutanc

N/A

  

This Study

19p12a

K52

19

(+)

20387400

20397512

Orangutanc

29.71-53.79*

  

Hughes and

Coffin, 2001

19p12b

K113

19

(-)

21841536

21841542

Human

Specific

< 2

Provirus

gag, pol, env

Turner et al.,

2001

19p12c

K51

19

(+)

22757824

22764561

Orangutanc

12.96-23.47*

  

Hughes and

Coffin, 2001

19q11

K(C19), ERVK-

19

19

(-)

28128498

28137361

Human

Specific

N/A

Internal

Polymorphis

m

gag, env

Tonjes et al.,

1999

19q13.12a

 

19

(-)

36063207

36067434

Orangutan

N/A

  

This Study

19q13.12b

K(OLDAC012309),

KOLD12309

19

(-)

37597549

37607066

Gibbonc

22.87-41.42*

  

Reus et al.,

2001

19q13.42

LTR13

19

(+)

53862348

53868044

Orangutan

N/A

 

env

This Study

20q11.22

K(OLDAL136419),

K59

20

(+)

32714750

32724384

Rhesus

15.74-28.5

  

Hughes and

Coffin, 2001

21q21.1

K60, ERVK-23

21

(-)

19933916

19941962

Human

Specific

3.46-6.27

  

Kurdyukov et

al., 2001

22q11.21

K101, K(C22),

ERVK-24

22

(+)

18926187

18935307

Human

Specific

1.84-3.34

  

Barbulescu et

al., 1999

U219

K105

Unknown

(+)

175210

176178

Gorillab

8.74-15.82

Provirus,

SoloLTR

 

Barbulescu et

al., 1999

Yp11.2

 

Y

(-)

6826441

6833384

Chimpanzee

N/A

  

This Study

  1. aRefers to most distant species with shared provirus. Determined by searching for provirus at the corresponding locus by BLAT searching flanking
  2. sequence in the chimpanzee, orangutan, and rhesus publicly available genomes on the UCSC genome browser.
  3. bFrom Macfarlane and Simmons, 2004.
  4. cFrom Hughes and Coffin, 2001
  5. dProvirus flanking sequence does not have a non-human primate orthologous location.
  6. eProvirus is a product of a duplication event post-human/chimpanzee split.
  7. fAges 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 is listed for a recombinant provirus.