Comparative Genomics of Herpesviridae Family to Look for Potential Signatures of Human Infecting Strains
Table 3
List of count of putative regulatory cis-elements predicted in the genomes of HHVs; for abbreviations of HHVs, refer to Table 1. HHV-1: HHV-1_17, HHV-2: HHV-2_HG52, HHV-3: HHV-3_Dumas, HHV-4: HHV-4, HHV-4_2: HHV-4_AG876, HHV-5: HHV-5_Merlin, HHV-6A: HHV-6A, HHV-6B: HHV-6B_Z29, HHV-7: HHV-7_RK, and HHV-8: HHV-8_GK18.
CE/TFBS
TF/DBRP or DBRD
Number in HHV-
1
2
3
4
4_2
5
6A
6B
7
8
Total
AP-1
TF in Fos and Jun subfam.
25
24
0
9
8
9
5
4
0
22
106
CCAAT box
TF NF-Y
26
11
8
24
24
7
7
7
4
25
143
CRE
ATF/CREB TF fam.
17
18
8
32
33
32
2
1
0
4
147
E2F
E2F proteins
18
8
4
1
1
7
7
5
2
9
62
ERE
Estrogen receptor
4
20
0
7
6
13
0
7
2
10
69
Ets
Ets TF
41
76
10
28
32
19
49
28
30
20
333
GATA
GATA TF
17
31
8
12
10
13
11
7
1
8
118
LSF
LSF TF
13
19
2
21
20
5
0
4
5
24
113
Mef-2
Myocyte EF 2
57
72
5
43
41
20
7
7
1
21
274
Myc
bHLH and bHLHzip proteins
13
9
4
1
3
11
15
3
0
4
63
Myf
bHLH and bHLHzip proteins
9
24
0
5
4
21
47
38
30
4
182
NF1
NF1 TF
15
29
4
8
8
26
5
5
3
24
127
Sp1
TF in the SP/KLF (kruppel-like factor) fam.
89
61
35
57
53
19
4
13
4
22
357
SRF
Serum response factor
41
44
4
3
6
10
0
1
1
20
130
TATA box
TBP (TATA binding protein), a component of TFIID
75
79
20
25
27
35
7
14
20
34
336
Tef
Transcription EF
7
10
2
18
17
12
0
5
2
5
78
Total
467
535
114
294
293
259
166
149
105
256
2638
ATF: activating transcription factor, CE: cis-elements, CREB: cAMP response element binding, DBRD: DNA binding regulatory domain, DBRP: DNA binding regulatory protein, enhancer factor: EF, family: fam., subfamily: subfam., TF: transcription factor, and TFBS: transcription factor binding Site.
