Multigene family isoform profiling from blood cell lineages

BMC Genomics

Table 1 Sub-family centred primer design.

hKir	Degenerate primer sequence
1.0	FWD 5'-GCAAGTGACCATTGGATATGGA-3' REV 5'-GCACTGTGCCATCTAAAAA CAC-3'
2.0	FWD 5'-GVCAGACVWCCATMGGCTAYGG-3' REV 5'-GMACCATRCCYTCMAGDAT GAC-3'
3.0	FWD 5'-GVGARRCMACCATYGGBTAYGG-3' REV 5'-GCACMATBCCYTCKAGRAT RAC-3'
4.0	FWD 5'-GCCARACMACCATTGGCTATGG-3' REV 5'-GCACWGTSSCAYTKAGGAK SASCAC-3'
5.0	FWD 5'-GCAAACCACCATAGGATATGGT-3 REV 5'-GACCAGTATAGATAAATGT CAC-3'
6.0	FWD 5'-GYCAAGTKACYATTGGSTTTGG-3' REV 5'-GMACCACKCCTTCCAGRAT RAC-3'
7.0	FWD 5'-GCAACTCACAATTGGTTATGGT-3' REV 5'-GCTGCATTGCTGAAAGGAA TAC-3'

Degenerate base key: B, C or G or T; D, A or G or T; K, G or T; M, A or C; R, A or G; S, C or G; V, A or C or G; W, A or T; Y, C or T. Degenerate, 'sub-family centred' PCR primers were designed with the regions of homology, G(F/Y)G and ILE, towards the 3' ends of the forward (FWD) and reverse (REV) primers respectively (bold). A non-homologous 5' G residue was added to each primer to facilitate potential fluorescent end-labelling of the PCR product.

ISSN: 1471-2164