Comprehensive discovery of all common sequences that are absent in the reference genome would require sequencing of a large number of individual genomes that are representative of the human population.
We then retained all "common" sequences that were found in multiple copies within or among individuals, as their co-occurrence suggest that they are natural, rather than artificial polymorphisms (See Additional file 1 for details).
In addition, these primers also contain 15 20 nucleotide common sequences that contain sites for restriction enzymes for cloning of the PCR products into the YTH screen vectors (pGADT7 and pGBKT7) and the mammalian expression vectors (pCMV-HA and pCMV-Myc) (Supporting Information Table S1).
CCAAT boxes are common sequences that are found in the 5' untranslated regions of many eukaryotic genes [ 32].
We first compared twelve finished P. aeruginosa genomes to identify common sequences that are defined as the core genome of this bacterium.
Collectively, our findings suggest that even though they are now located on different chromosomes, a large subset of ancestral PAR genes might share a common sequence or factor that was conserved upon translocation from the pseudoautosomal region on the X chromosome to their current autosomal locations in the mouse genome.
The different LAD primers shared a common sequence in the 5′ half, that is, UP primer.
ETS is one of the largest transcription factor families and has a highly conserved DNA-binding domain that recognizes a common sequence motif, 5'-(C/A) GGA (A/T) -3' [ 14], which is widely distributed in the PARP1 promoter [ 15].
*Motifs correspond to conserved D760, D845, H986/H798 of Arabidopsis AGO1 All the 5 RDR genes present in the rice genome were found to encode proteins that share a common sequence motif corresponding to the catalytic β' subunit of DNA-dependent RNA polymerases [ 17].
The fact that a common sequence motif was found in all domains undergoing inactivation is indicative of this sequence being a probable part of the targeting mechanism of the inactivation machinery that is responsible for epigenetic modifications that are the requirement of inactivation.
