First insights into the molecular basis association between promoter polymorphisms of the IL1B gene and Helicobacter pylori infection in the Sudanese population: computational approach

Table 3 Summary of the in silico predicted TFBSs for the [−368_ + 10] region

Transcription factor	Position^a		SNP in binding site	Software
Transcription factor	Start	End	SNP in binding site	AliBaba2.1	Alggen Promo	Tfsitescan	TF-Binding	GPMiner
GR	− 345	− 327	rs140623868 NG_008851.1:g.4666 A > T^b	X	X	X	X
NF-kappaB	−297	− 288		X	X	X	X
c-Myb	− 269	− 260	rs769027934		X	X	X
Oct-1	− 233	− 225		X		X	X
GATA-1	− 227	− 214	rs749558279	X	X	X	X	X
GR	− 207	− 202			X	X	X
GATA-1	−164	−155	rs866837107 NG_008851.1:g.4844 G > C^b	X	X	X
Sp1	− 149	− 132	rs74579367	X		X
AP-2	− 148	− 137				X	X
MAZ	− 147	−137			X	X		X
NF-Y	− 126	−114			X	X	X
NF-AT	− 116	− 105			X			X
Spi-1/PU.1	−115	−97		X		X
STAT1	− 108	− 101			X		X	X
IRF	− 106	−99			X	X
C/EBPalpha	−94	−83			X		X	X
NF-kappaB	−70	− 61	rs4986962	X			X
HSTF/HSF	−69	−60		X			X
C/EBP	−67	−58		X			X
Spi-1/PU.1	−50	−39		X		X
TBP	−31	−25	rs1143627^b		X		X	X
c-Myb	−14	−5			X		X	X
NF-1	−13	−4		X	X		X
GATA-1	−7	6	rs529869449		X	X	X	X

^aPositions are given relative to the translational IL1B start codon (transcript NM_000576.3)
^bSNPs observed in this study

ISSN: 1471-2180