Table 2.

Alu Ya5a2 PCR Primers, Chromosomal Locations, and PCR Product Sizes

Name		5′ Primer sequence (5′–3′)		3′ Primer sequence (5′A–3′)		A.T.	Chromosome	Product size
Name		5′ Primer sequence (5′–3′)		3′ Primer sequence (5′A–3′)		A.T.	Chromosome	filled	empty
Ya5NBC206	TCCTTAGCTATCTCACAAGCTACAT	ACACATTTCCTTCAAGAGGTCAAAG	60°C	4	734	424
Ya5NBC207	CAGTTTTATACACTGGCCTGTTTTC	TTGTAGGAGAAAGAGGGGAAATACT	50°C	6	443	122
Ya5NBC208	AATACCTTGTACATCTTCACCCCTA	TCTCTCTGCTGCACAGTTTGTT	50°C	14	441	115
Ya5NBC240	CAGGAGATAAATATGTTCGGAGAGT	TAACTGGGACAGTGAGTTTTACCTG	55°C	9	505	202
Ya5NBC241	GGTTCCAATAGAGAGCAACAGAA	ACCTTAAGCTTTCCCCCAGA	55°C	15	392	66
Ya5NBC242	AACAAAATTCCCTTTCCTCCA	GGCAATCTGACCTTGGGTAA	55°C	7	503	192
Ya5NBC7	TGATGGATATTTGGGTTGGTTC	GGACTGTAAACTAGTTCAACCATTGTG	60°C	7	522	216
Ya5NBC205	ACATGAAGGGCCGACTGTAT	TGCTGCTGCATTATCAACTG	50°C	21	435	81
Ya5NBC209	GTCTATGGGAAGATGAAGAATAGGA	GATGGAGTCACTCATGTGAAAAGTA	55°C	14	447	116
Ya5NBC239	CAGCTGAGAACTGTCACAAATAGAA	ATCAATGACTGACTTGTGCTGAGT	55°C	9	531	198
Ya5NBC243	CCATGATTCGTCATTCACCA	AGGAGACCTGCCAATGAATG	60°C	21	406	86
Ya5NBC220	AAATCAAGCTGCCATACCTCA	GAAACCATCCTTCACAGTGG	60°C	1	463	141
Ya5NBC235	CCCAAGGCACTTGCTGTTA	CCCTTCGAGAAAGAGGAAGG	50°C	2	391	76
Ya5NBC244	CCTATGGCTGAAACTTCTGAAACT	ATATCTTGGTCCACTAGACAAGCAC	60°C	18	453	130
Ya5NBC237	CCCATGGAGGGTCTTTCCTA	CTGGAAACCATCCTTCACAGT	60°C	1	410	88

↵Amplification of each locus required 2.5 min at 94°C initial denaturing, and 32 cycles for 1 min 94°C, 1-min annealing temperature (A.T.) and 1-min elongation at 72°C. A final extension time of 10 min at 72°C was also used.
↵Chromosomal location determined from accession information or by PCR analysis of NIGMS monochromosomal hybrid cell line DNA samples.
↵Empty product sizes calculated by removing the Alu element and one direct repeat from the filled sites that were identified.
↵Alu Ya5a2 element of the FGFR2 gene.

Potential Gene Conversion and Source Genes for Recently Integrated Alu Elements