Skip to main content

Table 3 Genes with known function identified in breakpoint regions

From: Non random distribution of genomic features in breakpoint regions involved in chronic myeloid leukemia cases with variant t(9;22) or additional chromosomal rearrangements

Cytogenetic Band

Case

Molecular Breakpoint

Breakpoint region

Deleted region

Number of known genes

TSG/Oncogenes

1p34.2

2

RP11-318G20_RP11-632A13

chr1:40,270,704-40,309,712

 

1

 

1q32.1

1

RP11-1089F13_RP11-145I13

 

chr1:203,989,316-205,431,690

26

IKBKE, RASSF5, IL10, IL24

2q37.1

4

RP11-332L11_RP11-94I20

chr2:234,593,254-234,594,028

 

0

 

3p21.31

5

RP11-804H15_RP11-3B7

chr3:49,112,155-49,222,551

 

8

 

3p21.31

6

RP11-352L13_RP11-419G15

chr3:48,468,265-48,572,806

 

4

 

3p21.31

7

RP11-316 M24

chr3:48,859,939-48,965,972

 

4

 

4p16.2

11

4ptel_RP11-341O1

 

chr4:0-4,673,371

68

GAK

4p16.3

8

RP11-919N24

chr4:2,317,528-2,486,782

 

2

 

4q12

10

RP11-167A8_RP11-622J1

 

chr4:58,389,737-58,916,984

0

 

6p12.3

12

RP11-446F17_RP1-142O9

 

chr6: 46,562,151-46,812,151

14

 

6p21.31

13

RP11-666K4_RP11-652G7

chr6:36,174,067-36,267,130

chr6:46,715,042-49,457,682

2

 

6p22.1

41

RP11-635O11

chr6:27,960,335-28,145,568

 

5

 

6q14.1

14

RP11-1063N1_RP11-422O8

chr6:83,875,190-83,886,368

 

1

 

7p14.3

15

RP11-803J20_RP11-350H1

chr7:32,469,044-33,359,385

 

10

 

7q22.2

37

RP11-251G23

chr7:104,957,075-105,071,488

 

3

RINT1

8p12

38

RP11-346L1_RP11-113G10

chr8:37,687,186-37,715,876

 

1

 

9p22.3

46

RP11-307K19_RP11-518K17

chr9:15,455,865-15,456,627

 

1

 

9p24.1

50

RP11-1084A8

chr9:6,611,140-6,861,140

 

2

KDM4C

9q22.31

17

RP11-412A12

chr9:93,553,640-93,708,694

 

1

 

10p11.22

39

RP11-241I20

chr10:32,303,829-32,447,252

 

1

 

11p15.4

46

RP11-120E20

chr11:3,573,461-3,758,006

 

5

ART1, NUP98

11q12.1

50

RP11-624G17

chr11:56,953,550-57,164,109

 

10

 

11q13.1

19

RP11-665N17_RP11-821O7

 

chr11:64,481,470-65,571,636

57

FAU, SYVN1, RELA, CFL1, CST6

11q14.2

48

RP11-185J12_RP11-417F7

 

chr11: 85,874,712-124,646,245

297

TSG11, CADM1, FAT3, MLL, ATM, YAP1, ZBTB16, THY1, SDHD, ARHGEF12, BTG4, PPP2R1B, NOX4, POU2F3, TBRG1, TAGLN, CBL

11q21

20

RP11-8N17

chr11:95,755,457-95,909,884

 

2

 

12p13.32

43

RP11-319E16

chr12:5,163,930-5,344,301

 

0

 

12q13.13

41

RP11-199A1_RP11-714I16

chr12:50,423,209-50,425,214

 

1

 

12q13.2

22

RP11-559I11_RP11-973D8

chr12:54,583,954-54,618,511

 

2

 

12q23.3

21

RP11-643D8_RP11-711H11

chr12:103,271,502-103,364,761

 

0

 

12q24.21

24

RP11-812F13_RP11-379F8

chr12:114,705,782-115,018,181

 

1

 

12q24.31

23

RP11-197N18_RP11-338K17

 

chr12:121,978,125-122,877,008

19

 

13q14.12

25

RP11-106H11_RP11-24B19

 

chr13:45,658,774-50,678,660

33

RB1, ARL11, TRIM13, FAM10A4

14q11.2

18

RP11-749G5_RP11-298I3

chr14:22,375,744-22,435,254

 

3

 

14q24.2

27

RP11-667E7

chr14:71,230,541-71,415,068

 

1

 

14q32.31

49

RP11-350L3_RP11-114H15

 

chr14:101,273,490-101,716,645

 

HSP90AA1

15q22.2

27

RP11-74K1

chr15:58,530,516-58,531,032

 

1

 

15q24.1

40

RP11-247C2

chr15:72,158,366-72,251,969

 

3

 

15q24.1

49

RP11-247C2

chr15:72,158,366-72,251,969

 

3

 

15q24.3

28

RP11-20 M10

chr15:75,965,658-76,128,067

 

3

 

16p11.2

29

RP11-779B17

chr16:31,786,062-31,995,517

 

1

 

16q24.3

30

RP11-79A1

chr16:88,125,792-88,522,693

 

9

 

17p13.1

30

RP11-89D11

chr17:7,436,436-7,603,767

 

18

TP53

17p13.3

33

RP5-1029F21

chr17:343,377-440,727

 

1

VPS53

17q21.2

31

RP11-156A24

chr17:36,841,610-37,007,910

 

9

 

17q25.3

32

RP11-46E14

chr17:75,316,874-75,477,363

 

4

 

19q13.32

34

RP11-846 M4

chr19:51,889,293-52,103,962

 

6

 

20q13.33

42

RP4-591C20_RP11-266K16

chr20:62,100,354-62,267,316

 

9

 

21q22.13

35

RP11-777J19_RP11-105O24

 

chr21:37,641,259-37,872,927

1

 

Xq13.1

36

RP11-69L22_RP11-237F13

chrX:68,857,148-68,969,387

 

1

 
  1. The number of the genes with known function mapping in the breakpoint regions or located inside the deleted regions was reported for each case. Known oncogenes and TSGs have been identified according to the NCBI.