Table 2.

PrimerBank mouse primer pair design and validation

Mouse primer pairs or genes	Number of mouse genes/primer pairs validated	Percentage (%) of total primer pairs
Total number of primer pairs	26 855	100
Total number of genes represented	27 684	–
Total number of genes not represented	1165	–
Primer pairs with no redundancy	23 700	88.2
Primer pairs with two target genes	2534	9.4
Primer pairs with >2 target genes	621	2.3
Total number of successful primer pairs based on all validation criteria	17 483	65.1
Total number of successful primer pairs based on agarose gel electrophoresis	22 189	82.6
Total number of successful primer pairs based on BLAST analysis	19 453	72.4
Total number of failed primer pairs by QPCR (due to no amplification)	1745	6.5

A total of 26 855 primer pairs were synthesized, which correspond to a higher number of 27 684 mouse gene targets since some of these primer pairs amplify the same sequence from two genes or gene isoforms. Primers were not designed for another 1165 mouse genes, mainly because of low sequence quality. The average mouse gene has 1293 bp; however, the average length for these genes is 435 bp and most are ‘unknown’ or RIKEN sequences.