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Targeting Vector Backbone Assay

Article ID: 97
Last updated: 30 Sep, 2010
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Primers are designed to amplify sequences present only in the vector backbone. If a correct homologous recombination has occurred then no product should be amplified. If a product is detected it strongly suggests an incorrect targeting event or a multiple insertion event.
Not all vector primers will be present in all backbones – please refer to the tables below on which primers to use. 
Please note that the absence of a product does not necessarily prove that the targeting is correct and this test should be used in conjunction with others
Primer
Sequence
VF1_F
CTCCTTTCGCTTTCTTCCCT
VF1_R
GCGAAAAACCGTCTATCAGG
VF2_F
TTGATTTGGGTGATGGTTCA
VF2_R
GAAATCGGCAACATCCCTTA
VF4_F
GTAGCTGACATTCATCCGGG
VF4_R
CTTTTCTACGGGGTCTGACG
VF5_F
CGAACGACCTACACCGAACT
VF5_R
AAAGATACCAGGCGTTTCCC
VF6_F
CAGCATGCCTGCTATTGTCT
VF6_R
TAGTTGCCAGCCATCTGTTG
VF7_F
GTGGCGCTTTCTCATAGCTC
VF7_R
GCCTACATACCTCGCTCTGC
VF8_F
ATAATACCGCGCCACATAGC
VF8_R
TTTGCCTTCCTGTTTTTGCT
 
Vector
VF1_F
VF1_R
VF2_F
VF2_R
VF4_F
VF4_R
VF5_F
VF5_R
VF6_F
VF6_R
VF7_F
VF7_R
VF8_F
VF8_R
L3L4_pZero_DTA_kan
y
y
n
n
y
y
y
y
n
n
 n
 n
 n
y
y
y
y
y
y
y
y
n
n
 n
 n
 n
 n
n
n
n
n
n
y
y
y
y
y
 n
 n
 n
n
n
n
n
n
y
y
y
y
y
 n
 n
n
n
n
n
n
n
n
n
n
n
n
y
y
y
y
 

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Loss of Wild Type Allele (LOA) qPCR     Neo SR-PCR