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Table 4 Primers used during real-time PCR analysesa

From: Allele-specific regulation of FGFR2 expression is cell type-dependent and may increase breast cancer risk through a paracrine stimulus involving FGF10

Gene and (GeneID)b

Sequence ID

Primer

Primer sequence (5' to 3')

Product length

Distance from poly(A) tailc

Exon-exon boundary

FGF2

NM_002006.4

F

ACCTGCAGACTGCTTTTTGCCCA

91 bp

1,731 bp

No

(2247)

 

R

GGTGCCACGTGAGAGCAGAGC

   

FGF7

NM_002009.3

F

CTCAACGGCAAGTTTCCCTCCCTTTTC

80 bp

1,701 bp

No

(2252)

 

R

GCCTTCCAGGATTTGCTGGCCC

   

FGF10

NM_004465.1

F

TCTTCTTCCTCCTCCTTCTCCTCTCC

148 bp

325 bp

No

(2255)

 

R

TCCCGCTGACCTTCCCGTTCTTCTC

   

FGFR2 d

NM_000141.4

F

GTCAGTGAGAACAGTAACAACAAG

192 bp

3,368 bp

Yes

(2263)

 

R

GTAGCCTCCAATGCGATGC

   

GADPH

NM_002046.3

F

TTCCAGGAGCGAGATCCCT

175 bp

805 bp

Yes

(2597)

 

R

CACCCATGACGAACATGGG

   

HMBS

NM_000190.3

F

CTGGTAACGGCAATGCGGCT

338 bp

1010 bp

Yes

(3145)

 

R

GCAGATGGCTCCGATGGTGA

   

HNRPM

NM_005968.3

F

GAGGCCATGCTCCTGGG

85 bp

440 bp

Yes

(4670)

 

R

TTTAGCATCTTCCATGTGAAATCG

   

HPRT1

NM_000194.2

F

TGACACTGGCAAAACAATGCA

94 bp

742 bp

Yes

(3251)

 

R

GGTCCTTTTCACCAGCAAGCT

   

SRPR

NM_003139.2

F

CATTGCTTTTGCACGTAACCAA

70 bp

1,308 bp

Yes

(6734)

 

R

ATTGTCTTGCATGCGGCC

   

TBP

NM_003194.3

F

CACGAACCACGGCACTGATT

89 bp

905 bp

Yes

(6908)

 

R

TTTTCTTGCTGCCAGTCTGGAC

   
  1. aFGF: fibroblast growth factor gene; FGFR: fibroblast growth factor receptor gene; GAPDH: glyceraldehyde 3-phosphate dehydrogenase gene; HMBS: hydroxymethylbilane synthase gene; HNRPM: heterogeneous nuclear ribonucleoprotein M gene; HPRT1: hypoxanthine phosphoribosyltransferase 1 gene; SRPR: signal recognition particle receptor gene; TBP: TATA box binding protein gene; F: forward primer; R: reverse primer; bp: base pair. For each gene, the forward and reverse primer sequences, the length of the resulting PCR product (using cDNA as template) and the distance from the poly(A) tail are shown, as is the information about whether the PCR product includes an exon-exon boundary. bGeneID from EntrezGene accessed 2 June 2010. cDistance from 3' end of the PCR product to 5' beginning of the poly(A) tail. dPrimer set for FGFR2 is in a region of FGFR2 that is present in both FGFR2 IIIb and FGFR2 IIIc.