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Table 6 Restriction mapping of 3.56 Kb DYZ1 sequence from DU145, LNCaP and the reference sequence AC068123.5 by virtual digest using Restriction Mapper Version 3 software

From: Fate of the human Y chromosome linked genes and loci in prostate cancer cell lines DU145 and LNCaP

Serial No. Restriction enzyme Sequence Sight Length Overhung Frequency of cut sites
AC068123.5 DU145 LNCaP
1 BsaBI GATNNNNATC 6 blunt 1 0 0
2 Cac8I GCNNGC 4 blunt 1 1 1
3 NlaIV GGNNCC 4 blunt 1 0 0
4 BamHI GGATCC 6 5’ 1 0 0
5 BseYI CCCAGC 6 5’ 1 1 1
6 Bsp1407I TGTACA 6 5’ 1 1 1
7 BspHI TCATGA 6 5’ 1 1 1
8 ClaI ATCGAT 6 5’ 1 1 1
9 DdeI CTNAG 4 5’ 1 1 1
10 EcoRI GAATTC 6 5’ 1 1 1
11 EcoRII CCWGG 5 5’ 1 0 0
12 MaeII ACGT 4 5’ 1 1 0
13 MaeIII GTNAC 4 5’ 1 1 0
14 VspI ATTAAT 6 5’ 1 1 1
15 XhoII RGATCY 6 5’ 1 0 0
16 BseMII CTCAG 5 3’ 1 1 1
17 BsgI GTGCAG 6 3’ 1 1 1
18 BtsI GCAGTG 6 3’ 1 1 1
19 Eco57I CTGAAG 6 3’ 0 1 1
20 Eco57MI CTGRAG 6 3’ 1 2 2
21 GsuI CTGGAG 6 3’ 1 1 1
22 Hpy188I TCNGA 4 3’ 1 1 1
23 MnlI CCTC 4 3’ 1 1 1
24 PflMI CCANNNNNTGG 6 3’ 1 1 1
25 SduI GDGCHC 6 3’ 1 1 1
26 ScrFI CCNGG 4 5’ 2 1 1
27 ArsI GACNNNNNNTTYG 7 3’ 2 2 2
28 BdaI TGANNNNNNTCA 6 3’ 2 2 2
29 CspCI CAANNNNNGTGG 7 3’ 2 0 0
30 TspRI CASTG 5 3’ 2 2 2
31 DpnI GATC 4 blunt 3 2 2
32 ApoI RAATTY 6 5’ 3 3 3
33 AsuII TTCGAA 6 5’ 3 3 3
34 Eco31I GGTCTC 6 5’ 3 2 2
35 MaeI CTAG 4 5’ 3 3 4
36 MboI GATC 4 5’ 3 2 2
37 SfaNI GCATC 5 5’ 3 4 4
38 TatI WGTACW 6 5’ 3 3 3
39 SetI ASST 4 3’ 3 3 1
40 CviJI RGCY 4 blunt 4 4 4
41 MslI CAYNNNNRTG 6 blunt 4 4 4
42 FokI GGATG 5 5’ 4 2 2
43 AlfI GCANNNNNNTGC 6 3’ 4 4 4
44 RsaI GTAC 4 blunt 5 5 4
45 BccI CCATC 5 5’ 5 3 4
46 BsmAI GTCTC 5 5’ 5 5 4
47 MseI TTAA 4 5’ 5 6 6
48 BstXI CCANNNNNNTGG 6 3’ 5 5 4
49 MboII GAAGA 5 3’ 5 3 3
50 XmnI GAANNNNTTC 6 blunt 6 6 6
51 TstI CACNNNNNNTCC 6 3’ 6 4 4
52 NlaIII CATG 4 3’ 7 7 7
53 BcgI CGANNNNNNTGC 6 3’ 16 14 14
54 BsrDI GCAATG 6 3’ 16 14 14
55 BsrI ACTGG 5 3’ 17 19 18
56 TspGWI ACGGA 5 3’ 20 23 17
57 AgsI TTSAA 5 3’ 22 20 23
58 BsmI GAATGC 6 3’ 22 23 21
59 FaiI YATR 4 blunt 23 25 23
60 PleI GAGTC 5 5’ 23 21 21
61 TspDTI ATGAA 5 3’ 25 24 24
62 TspEI AATT 4 5’ 35 35 35
63 TfiI GAWTC 5 5’ 52 51 51
64 TaqI TCGA 4 5’ 66 62 62
65 HinfI GANTC 4 5’ 75 72 72
  1. The loss or gains of the restriction sites with respect to the reference sequence are highlighted in bold.