Cyclic stretch increases splicing noise rate in cultured human fibroblasts

BMC Research Notes

Table 2 Primers used to detect skip and wildtype transcripts.

Name	Exon	Sequence 5'-3'	P	AT
AATF S3 H	2-4	CCAGGATCGTCTGCACTG	96	59.5
AATF S3 R	4	AACATCTGGTTGAGGAAGCTG	96	59.5
AATF WT H	2	GACACGGACAAAAGGTATTGC	122	59.5
AATF WT R	3	TCTCCAGACCCTTCCTCATC	122	59.5
MAP3K11 S9 H1	8-10	CCAGCACTCAATGGAGGC	149	59.5
MAP3K11 S9 R	10	AAGCTCCAGGGATCAATGC	149	59.5
MAP3K11 WT H	7	GGAGGACTCAAGCAATGGAG	120	59.5
MAP3K11 WT R	8	AGGTACCATGTGGCTTCGTC	120	59.5
NF1 S38 H	37-39	AGACACCAAAGTTTCTATTAAAGTCAGCT	62	60
NF1 S38 R	39	GGTACAAGTTAAGGCACACAGAAGATTA	62	60
NF1 S39 H	38-40	TCTGACCCGAGTTTACGGTATTG	72	60
NF1 S39 R	40	AGATTTGACAGCCATGGAGTCAT	72	60
NF1 WT H	38	GCAGTTCTGACCCGAGTTTACG	99	60
NF1 WT R	39	ATGTCTCTAGTAACTGGCCCTCGAT	99	60
PCGF2 S10 H1	9-11	CCCAGCAAGTACAAGAACGG	139	60
PCGF2 S10 R1	11	CGCTGACTGACTCACACTCG	139	60
PCGF2 WT H	9	AAGTTTCTCCGCAACAAGATG	100	60
PCGF2 WT R	10	CGATGTCCATGAGGGTGTAG	100	60
POLR2A S23 H	22-24	GAGAACAAGATGCAAGAGGTGTAC	88	59.5
POLR2A S23 R	24	CCTTGAATTCCCCATCCTC	88	59.5
POLR2A WT H	22	GTTTTGGTGACGACTTGAACTG	145	59.5
POLR2A WT R	23	CGCAGGAAGACATCATCATC	145	59.5
RABAC1 S4 H	3	CGTCCCCTATGTTGCTGGTG	107	63
RABAC1 S4 R2	3-5	CACCAGGGTGGCTCCAAAG	107	63
RABAC1 WT H1	2	GCAACTATGTGTTCGTGTTCCTG	148	61
RABAC1 WT R1	3-4	TCTCGGCCAAAGAGCACA	148	61

Primers for detection of erroneously spliced (S) and wildtype (WT) AATF, MAP3K11, NF1, PCGF2, POLR2A and RABAC1 transcripts respectively, their position related to the exons (Exon), sequence, length of the amplified product (P in bp) and annealing temperature (AT in °C). The applied concentrations in qPCR were 200 nM.

ISSN: 1756-0500