TABLE 1.

Primers used for amplification of different HIV-1 regions

Amplified region	Inner or outer region	Primer name	Primer sequence (5′-3′)	Positionb	Sense or antisense	Reference
Gag-PR	Outer	KVL064	GTTGTGTGACTCTGGTAACTAGAGATCCCTCAGA	570-603	Sense	49
	Outer	KVL065	TCCTAATTGAACYTCCCARAARTCYTGAGTTC	2797-2828	Antisense	49
	Inner	KVL066	TCTCTAGCAGTGGCGCCCGAACAG	626-649	Sense	49
	Inner	KVL067	GGCCATTGTTTAACYTTTGGDCCATCC	2597-2623	Antisense	49
PRa	Outer	KVL064	GTTGTGTGACTCTGGTAACTAGAGATCCCTCAGA	570-603	Sense	49
	Outer	KVL065	TCCTAATTGAACYTCCCARAARTCYTGAGTTC	2797-2828	Antisense	49
	Inner	AV75	TGTACTGAGAGACAGGCTAATTTTTTAGGG	2065-2094	Sense
	Inner	KVL067	GGCCATTGTTTAACYTTTGGDCCATCC	2597-2623	Antisense	49
RT	Outer	AV190-1	GCTACAYTAGAAGAAATGATGACAGCAT	1810-1838	Sense	42
	Outer	CR1	GATTCTACTACTCCTTGACTTTGGGGATTGTAGGGAA	4687-4651	Antisense	42
	Inner	KVL098	GGAAGCTCTATTAGAYACAGGAGCAGAT	2312-2339	Sense
	Inner	KVL099	CTGGACTACAGTCTACTTGTCCATG	4380-4404	Antisense
IN	Outer	KVL068	AGGAGCAGAAACTTWCTATGTAGATGG	3854-3880	Sense	50
	Outer	KVL069	TTCTTCCTGCCATAGGARATGCCTAAG	5955-5981	Antisense	50
	Inner	KVL070	TTCRGGATYAGAAGTAAAYATAGTAACAG	4013-4041	Sense	50
	Inner	KVL084	TCCTGTATGCARACCCCAATATG	5243-5265	Antisense	50
env	Outer	EnvA	GCCTTAGGCATCTCCTATGGCAGGAAGAA	5953-5981	Sense	14
	Outer	KVL009	GCCAATCAGGGAAGWAGCCTTGTGT	9135-9159	Antisense	47
	Inner	EnvB	AGAAAGAGCAGAAGACAGTGGCAATGA	6198-6224	Sense	14
	Inner	HIV-8726-R	TTGTACTACTTCTATAACCCTATCTGT	8690-8716	Antisense

^aThe inner PCR for amplification of PR can also be performed on the RT outer PCR product.

^bPositions according to pNL4.3 sequence (GenBank accession no. AF324493).