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Table 1 HML-10 elements in the human genome

From: The intron-enriched HERV-K(HML-10) family suppresses apoptosis, an indicator of malignant transformation

No.

Chr.band

Coordinates (strand)

Structure

TSD

Integrated REs

Position

RefSeq genes (rel. orientation)

RefSeq genes ± 10,000 bp

1

1p36.13

chr1:19926886-19932710 (-)

Provirus

WWAAAT

-

Intergenic

-

PLA2G2E

2

1p35.3

chr1:29156730-29157306 (-)

LTR

GTTAC

-

Intronic

SFRS4 (s)

-

3

1q22

chr1:155691832-155699521 (-)

Provirus

ATTAAG

AluSp; MER11B

Intronic

DAP3 (as)

YY1AP1

4

1q23.1

chr1:158534566-158535143 (+)

LTR

GTCCAA

-

Intergenic

-

-

5

1q32.3

chr1:213045116-213046160 (-)

LTRa

TAGTGG

-

Intergenic

-

RPS6KC1

6

2p11.2

chr2:86245199-86245755 (+)

LTR

TATAC

-

Intronic

REEP1 (as)

-

7

2q37.3

chr2:238659222-238659778 (+)

LTR

not found

-

Intergenic

-

-

8

2q37.3

chr2:240556198-240556747 (+)

LTR

not found

-

Intronic

ANKMY1 (as)

DUSP28

9

3p14.2

chr3:58724279-58724839 (+)

LTR

CAGCAG

-

Intergenic

-

-

10

3q12.2

chr3:101089113-101089658 (+)

LTR

AGGCAC

-

Intergenic

-

-

11

3q21.3

chr3:128828801-128835173 (+)

LTR

TGCAT

AluY; LTR7B; HERVH

Intergenic

-

-

12

3q24

chr3:146283898-146284161 (-)

LTRb

not found

-

Intergenic

-

-

13

4p16.3

chr4:1709255-1710065 (+)

LTR

ATGGGG

AluY

Intronic

SLBP (as)

TMEM129

14

4p16.1

chr4:8441728-8442282 (-)

LTR

YYTTTA

-

Intronic

TRMT (as)

ACOX3

15

4q31.21

chr4:143777776-143778330 (+)

LTR

TCARCC

-

Intergenic

-

-

16

5q14.1

chr5:78245022-78245575 (-)

LTR

TCYWCA

-

Intronic

AP3B1 (s)

-

17

5q14.1

chr5:78248004-78248093 (-)

LTRb

not found

-

Intronic

AP3B1 (s)

-

18

5q31.3

chr5:142088759-142089306 (-)

LTR

TTGGTG

-

Intergenic

--

-

19

6p24.1

chr6:12989575-12990131 (-)

LTR

GAAAAC

-

Intronic

PHACTR1 (as)

-

20

6p22.1

chr6:27187520-27196279 (+)

Provirus

AAGATM

3× AluY; AluYc; LTR13A

Intergenic

-

-

21

6p22.1

chr6:28607908-28608446 (+)

LTR

CATGTT

-

Intergenic

-

-

22

6p21.33

chr6:31984691-31991052 (-) chr6:32017429-32023790 (-)

Provirus

TGTCTG

TGTCTG

-

Intronic

C4A/C4B (as)

CYP21A1P; STK19; TNXB

23

6p21.32

chr6:32512829-32513385 (+)

LTR

GGGGRG

-

Intergenic

-

HLA-DRB5

24

6q21

chr6:114011436-114018365 (+)

LTR

CCCTAT

LTR7B; HERVH

Intergenic

-

-

25

6q22.31

chr6:122504844-122512093 (-)

Provirus

GGACAT

3× AluY

Intronic

PKIB (as)

-

26

7q36.2

chr7:154936774-154937317 (-)

LTR

ACTCCA

-

Intronic

PAXIP1 (as)

PAXIP1-AS2

27

8p22

chr8:17915846-17916036 (-)

LTRb

CCCMTA

-

Intergenic

-

PCM1

28

8p21.3

chr8:22985089-22985644 (-)

LTR

CCTCYY

-

Intergenic

-

RHOBTB2

29

8q11.1

chr8:46533684-46534254 (+)

LTR

CATTTC

-

Intergenic

-

-

30

8q21.13

chr8:82206225-82206776 (+)

LTR

CASCCK

-

Intergenic

-

-

31

9p13.3

chr9:34539821-34540365 (-)

LTR

GGCATG

-

Intergenic

-

-

32

9q22.1

chr9:87984145-87984721 (-)

LTR

TATGGC

-

Intergenic

-

CDK20

33

9q22.31

chr9:92523403-92523958 (-)

LTR

WATTGT

-

Intronic

CENPP (as); ECM2 (s)

-

34

9q31.3

chr9:109072071-109072632 (+)

LTR

CMAAAG

-

Intronic

TMEM245 (as)

-

35

9q34.11

chr9:129101280-129101834 (+)

LTR

GGGGAA

-

Intronic

CRAT (as)

PPP2R4

36

9q34.13

chr9:132289026-132289571 (+)

LTR

CTCTYA

-

Intronic

SETX (as)

-

37

10p11.21

chr10:37685164-37685717 (+)

LTR

GAATC

-

Intergenic

-

-

38

11p11.2

chr11:43747422-43747974 (+)

LTR

GTTCTG

-

Intronic

HSD17B12 (s)

-

39

12p13.1

chr12:12810288-12810845 (-)

LTR

ATCTA

-

Intergenic

-

DDX47

40

12q24.33

chr12:132949015-132949570 (+)

LTR

GTATC

-

Intronic

ZNF605 (as)

-

41

13q13.3

chr13:37090225-37090778 (+)

LTR

CCTGTT

-

Intergenic

-

-

42

14q31.1

chr14:79706443-79707024 (+)

LTR

TTGGTC

-

Intronic

NRXN3 (s)

-

43

16p13.13

chr16:10785748-10785943 (+)

LTRb

not found

-

Intronic

FAM18A (as)

-

44

16p13.13

chr16:10788495-10789043 (-)

LTR

GAGAYC

-

Intronic

FAM18A (s)

-

45

17p13.1

chr17:8056835-8057031 (+)

LTRb

not found

-

Intergenic

-

ALOX15B

46

17p13.1

chr17:8082291-8082848 (+)

LTR

CCAGG

-

Intronic

ALOX12B (as)

MIR4314

47

17q11.2

chr17:32913177-32913734 (+)

LTR

GGTATR

-

Intergenic

-

-

48

19p13.3

chr19:2863773-2863865 (+)

LTRb

not found

-

Intergenic

-

ZNF555; ZNF556

49

19p13.2

chr19:7100429-7100974 (-)

LTR

GTCTC

-

Intergenic

-

-

50

19p12

chr19:21987441-21988020 (+)

LTR

ATAAYA

-

Intronic

ZNF208 (as)

-

51

19p12

chr19:23876577-23877146 (-)

LTR

CTCCCC

-

Intergenic

-

-

52

19q13.11

chr19:34595165-34595718 (-)

LTR

TGTAGG

-

Intergenic

-

SCGBL

53

19q13.12

chr19:36636542-36637090 (-)

LTR

not found

-

Intergenic

-

ZNF382; ZNF461

54

19q13.2

chr19:42667555-42668111 (-)

LTR

GTGTG

-

Intergenic

-

-

55

19q13.31

chr19:44283216-44283766 (-)

LTR

GTAAG

-

Intergenic

-

ZNF233; ZNF235

56

19q13.32

chr19:46030891-46031467 (+)

LTR

CAAGGT

-

Intergenic

-

IGFL4; PGLYRP1

57

19q13.41

chr19:51900477-51900716 (-)

LTRb

not found

-

Intronic

ZNF649 (s); ZNF619 (as)

ZNF649-AS1

58

19q13.41

chr19:52460866-52466497 (-)

Provirusb

AAAAC

-

Intronic

ZNF578 (as)

ZNF534

59

21q22.3

chr21:43698519-43699073 (+)

LTR

TTTAG

-

Intergenic

-

RRP1B

60

21q22.3

chr21:43738447-43739417 (+)

LTR

CTAAT

AluSx; AluY

Intronic

PDXK (as)

-

61

22q11.21

chr22:20818927-20819480 (-)

LTR

TAAGA

-

Intronic

PI4KA (s)

-

62

22q13.31

chr22:45188740-45189285 (+)

LTR

TGCAAC

-

Intergenic

-

NUP50; KIAA0930

63

Xp11.23

chrX:48047190-48047228 (-)

LTRb

not found

-

Intergenic

-

ZNF630-AS1

64

Xp11.22

chrX:51636506-51637062 (+)

LTR

GCTCTA

-

Intergenic

-

-

65

Xq22.2

chrX:103469871-103470407 (-)

LTR

GRGGAG

-

Intergenic

--

--

66

Xq22.3

chrX:107232277-107232369 (-)

LTRb

not found

-

Intronic

PIH1D3 (as)

-

67

Xq27.1

chrX:139517757-139518302 (+)

LTR

CTTAAG

-

Intergenic

-

-

68

Yq11.221

chrY:12993871-13001093 (-)

Provirus

TGSATT

AluY; LTR2B

Intergenic

-

-

69

Yq11.221

chrY:13333756-13334302 (+)

LTR

CRYAGC

-

Intronic

UTY (as)

-

70

Yq11.221

chrY:16492757-16493302 (+)

LTR

TCCAAR

-

Intergenic

-

-

  1. Chromosome bands and coordinates are according to the hg38 assembly [1] and RepeatMasker annotation [70]
  2. As, antisense orientation; s, sense orientation; TSD, target site duplication; adenotes a tandemly repeated LTR; bdenotes truncated elements.
  3. Ambiguous nucleotides are indicated as follows: K, G or T; M, A or C; S, C or G; R, A or G; W, A or T; Y, C or T