Innate immunity in ocular Chlamydia trachomatis infection: contribution of IL8 and CSF2 gene variants to risk of trachomatous scarring in Gambians

Table 4 list of haplotype tagging SNPs on chromosome 5q genotyped in 373 case-control pairs.

SNP position in haplotype A or B	SNP id^a	Chromosome position	Database id	SNP genomic location	COMMON allele (minor allele)	Allele frequency
1A	IL3_2069783	131471923	rs2069783	5'UTR	T(c)	0.18
2A	IL3_31480	131472548	rs31480	5'UTR	G(a)	0.05
3A	IL3_40401	131472694	rs40401	exon	C(t)	0.45
4A	IL3_31481	131473418	rs31481	intron	G(a)	0.14
5A	CSF2_27348	131483355	rs27348	3'UTR	T(a)	0.39
6A	CSF2_2069614	131483817	rs2069614	3'UTR	T(c)	0.45
7A	CSF2_27438	131489471	rs27438	3'UTR	A(g)	0.23
8A	CSF2_2069632	131489516	rs2069632	3'UTR	C(t)	0.27
1B	IL13_46457	132072180	rs20541	exon	C(t)	0.14
2B	IL13_46578	132072059	rs1295686	splice site	A(g)	0.27
3B	IL13_49612	132069025	rs1800925	5'UTR	G(a)	0.40
4B	IL4-589	132085370	rs2243250	5'UTR	T(c)	0.27
5B	IL4+33	132085926	rs2070874	exon	C(t)	0.49
6B	IL4_2243251	132086003	rs2243251	5'UTR	T(c)	0.19
7B	IL4_2227284	132088941	rs2227284	intron	A(c)	0.05
8B	IL4_2243270	132090325	rs2243270	intron	C(t)	0.27

SNPs given in bold were selected for typing in the complete sample set of 651 case-control pairs
^aSNPs given in bold were selected for typing in the complete sample set of 651 case-control pairs.

ISSN: 1471-2350