Hi, I performed RIP-Seq analysis on Mouse Embryonic Fibroblast cells. I aligned my reads against the mouse genome (mm9). Three of the highly upregulated regions in my data each matches a certain chromosome and ChrM.
ChrI 24,618,377 - 24,623,019 and ChrM 6398 - 11039 are 100% identical Chr2 22,442,815 - 22,445,697 and ChrM 4798 - 7692 are 98% identical Chr13 852,661,71 - 852,669,91 and ChrM 12576 - 13395 are 95.4% identical Is this right or there is a kind of mistake in the mouse genome assembly. Can you please let me know what do you think about these particular regions as my project's direction depends on your answer. thanks, Osama Youssef Postdoctoral Fellow Bass' Lab Biochemistry Department School of Medicine University of Utah _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
