The conserved function of Pbcas4 as a competitive endogenous RNA. (a) Genome browser view of the transmap annotation (blue track) for the human breast carcinoma amplified sequence 4 (BCAS4) unitary pseudogene in mouse, pbcas4. The tBLASTn alignment available from UCSC between the BCAS4 peptide and the mouse genome is in grey. The full length transcript in N2A (green) is transcribed from chr2:167,998,005-167,998,447 (mm9) and aligns to the 3' UTR region of the human BCAS4 gene The mammalian conservation track on the bottom (UCSC genome browser) shows the degree of placental mammal base pair conservation (20 species). (b) Knock-down of Pbcas4 expression leads to down-regulation of protein-coding genes that have conserved human and mouse MREs for miR-185/882 and miR-665 families. The percentage of genes that have a conserved (mouse and human) MRE for either miR-185/882 or miR-665 (Y-axis) is 33% and 58% for genes up- and down-regulated, respectively, upon Pbcas4 knockdown.
Marques et al. Genome Biology 2012 13:R102 doi:10.1186/gb-2012-13-11-r102