User:Torsten Waldminghaus/Primer

• All primers are in concentrations of 100pmol/μL

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Name	Sequence	Characteristics	Primer number
GFPrv	ctgatttaatctgtatcaggc	The following primers are for the mutagenesis of GFP to introduce GATC sites as silent mutation (GFPrv, GFPfw, GFPmut1fw, GFPmut2rv, GFPmut3fw, GFPmut4rv, GFPmut5fw, GFPmut6fw, GFPmut7fw, GFPmut8fw, GFPmut9fw) Tm 55 (salt adjusted)[1]	1
GFPfw	CTCTCTACTGTTTCTCCATAC	Tm 57	2
GFPmut1fw	caaacaaaagaatggGatcaaagctaac	5’-phosph. HPLC Tm 62 [without mutated nucleotide]	3
GFPmut2rv	caatgttgtggcgGatCttgaagttag	5’-phosph. HPLC Tm 63 [without mutated nucleotide]	4
GFPmut3fw	caactagcagaTcattatcaacaaaatac	5’-phosph. HPLC Tm 63 [without mutated nucleotide]	5
GFPmut4rv	gccatcgccGatCggagtattttg	5’-phosph. HPLC Tm 62 [without mutated nucleotide]	6
GFPmut5fw	cgaaaagcgtgaTcacatggtcc	5’-phosph. HPLC Tm 64 [without mutated nucleotide]	7
GFPmut6fw	ctgctgctgggatCacacatggc	5’-phosph. HPLC Tm 66 [without mutated nucleotide]	8
GFPmut7fw	GTTATCCGGACCATATGAAACGGC	5’-phosph. HPLC	9
GFPmut8fw	CATTGAAGATGGGTCCGTTCAACTAG	5’-phosph. HPLC	10
GFPmut9fw	CCTTTCGAAAGACCCCAACGAAAAG	5’-phosph. HPLC	11
GATC19DNAfw	GCCCGCGGATCCGCCCGCC	oligo for methylation experiment from A. Humeny et al. 2003	12
GATC19DNArv	GGCGGGCGGATCCGCGGGC	oligo for methylation experiment from A. Humeny et al. 2003	13
MseIlong	AGTGGGATTCCGCATGCTAGT		14
MseIshortnewNo	TAACTAGCATGC	Not phosphorilated	15
MseIshortnew	TAACTAGCATGC	5'modified with phosphate	16
bet-fw	GTCGACCCACAGGAACTGAT	To distinguish DY330 (with lambda phage) from other E. coli strains use primers for bet as part of the recombination machinery of lambda	17
bet-rev	GGCTGACGTTCTGCAGTGTA	To distinguish DY330 (with lambda phage) from other E. coli strains use primers for bet as part of the recombination machinery of lambda	18
Cut-test_fw	TAATAGGCATGCTAGCAGCTG AGCGTAGCTAGCGATGCAACGAC GGTGATCAGCGTCGATGCAGCCG AAACGATGACTGTCACATAGCTG ATGCTTTGCT		19
Cut_test_rv	TAAGCAAAGCATCAGCTATGT GACAGTCATCGTTTCGGCTGCAT CGACGAAGATCACCGTCGTTGCA TCGCTAGCTACGCTCAGCTGCTA GCATGCCTAT		20
Cut-test-meth_fw	TAATAGGCATGCTAGCAGCTG AGCGTAGCTAGCGATGCAACGAC GGTGATCAGCGTCGATGCAGCCG AAACGATGACTGTCACATAGCTG ATGCTTTGCT	modified at position 49 with N6-methyl-dA	21
Cut_test-meth_rv	TAAGCAAAGCATCAGCTATGT GACAGTCATCGTTTCGGCTGCAT CGACGAAGATCACCGTCGTTGCA TCGCTAGCTACGCTCAGCTGCTA GCATGCCTAT	modified at position 53 with N6-methyl-dA	22
gatRfw	cgctttctcgaacaaaaagg		23
gatRrv	atgaatcgagaacggcaatc		24
yoeAfw	actgcaaccgcaacttcttc		25
yoeArv	cactacctcaacacgctcca		26
ter-check-fw	tcgtactggtgatggaacga	For checking the insertion of GATC cluster near terC with outside primers	27
ter-check-rv	aggattcacgcgataagtgg		28
T7fw	GAAATTAATACGACTCACTATAGGG		29
ORIrvT7	CACCGATCATTCACAGTTAATGATCC TTTCCAGGTTGTTGATCTTA AAAGCCGGATCCTTGCCC TATAGTGAGTCGTATTAATTTC		30
ORIfwT7	CAAGGATCCGGCTTTTAAGATCAACA ACCTGGAAAGGATCATTAAC TGTGAATGATCGGTGCCC TATAGTGAGTCGTATTAATTTC		31
ORIfwBIO	CAAGGATCCGGCTTTTAAGATCAACA ACCTGGAAAGGATCATTAAC TGTGAATGATCGGTG	5'-biotin labeled	32
ORIrv	CACCGATCATTCACAGTTAATGATCC TTTCCAGGTTGTTGATCTTA AAAGCCGGATCCTTG		33
PE1	CAAGCAGAAGACGGCATACGAGATCGGTCTCGGCATTCCTGCTGAACCGCTCTTCCGATCxT	Illumina oligo; x=Phosphorothioate linkage	34
SE1	CAAGCAGAAGACGGCATACGAGCTCTTCCGATCxT	Illumina oligo; x=Phosphorothioate linkage	35
SEPE2	AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCxT	Illumina oligo; x=Phosphorothioate linkage	36