Table 1.

Sequences of coding strand (complement not shown) of the double-stranded blunt-ended oligonucleotide DNA used in EMSA and calculated values for the consensus

The putative Sycrp1 core binding consensus is indicated in bold type. ORF identifiers of genes demonstrating both sequence-specific binding and sycrp1-dependent transcriptional regulation are in bold underlined type. values <3.1 are in bold type. The value of was calculated by strict summation of position values given by the position-specific scoring matrix in Omagari et al. (2008), except that G and C substitution ΔG values at positions 9 and 14 were switched to accurately reflect the authors' intent.

Gene	Sequence
slr1667 (target of Sycrp1)	ATACACAACAGTTGTGATCTGGGTCACAACCATTGAGTGA	0.34*†
Rndm. (negative control)	AAGCCGTAAGACCTAATGTAGAAGTGCTCCAGAAGCTCAC	19.89
slr1991 cya1	AGGCTCCCTGATGGGGACAGCGGTCACGGACCTTTACTTT	5.85‡
sll0065 ilvN	TTCCCTAACTCTAGTGAGGAATTTTGCAAAATGCAAGCTT	8.04‡
slr0194 rpiA	AACCGGAACTGTTCTGATAATGTTCGCACTGTAGAGATTT	9.01‡
slr1351murF/sll1247 hyp.	GCACCCATGGGAGGTGATCTAGATCACAGATAAAAATTGC	0.67*†‡§
slr1575 hyp.	GCGGAGACAAAATGGGAAATCACTCACGCCTCGTCTCAAT	7.35‡
sll1708 narL/slr1805 hik16	CGGCACCCTTACCGTGATAGTAATCACCGATGAAGTACAA	3.07*†‡§
sll0682 pstA	GGCAGAACTGATTGTGAACAAAGTCAAAGCTAAATATTAG	7.85‡
sll0041 cheD	GACATTACCTGGTGTGAAACGGATCAAATTCAATCTCCCC	6.84‡
slr1200 livH	CAATGGCAACAATGTGATAATCCCCACACCTGCCCCCACG	4.12‡
sll1874at103,chlAII	CCTTCCACTGCTTGTGAGAATAATCACAGGCAGTTTTTTT	2.62*†‡§
slr1279 ndhC	CGGGCACCGAAATGTGAATCGTTTCAGAATTGGATTATTG	3.49‡
slr0442 hyp./sll1520 recN	TGGTTGGAGGGCTGTGATCCAGATCACATACGTGGGTTAA	0.00*†§
sll1268 hyp.	TCACCCAATAGTTGTGATCTAGATCACAGAGGGCCACGGC	0.00*†§

*Sycrp1 binding sequences proposed by Xu & Su (2009).

†Oligonucleotide sequences demonstrating sequence-specific His–Sycrp1 binding in this work.

‡Sycrp1 binding sequences proposed by Ochoa de Alda & Houmard (2000).

§Sycrp1 binding sequences proposed by Omagari et al. (2008) to demonstrate His–Sycrp1 binding.