Where can I get the exact start and end positions for the centromere of a given chromosome?
I would like to know whether a gene I am studying falls within the region that it is usually considered as being the centromere. However, I am not sure whether this type of annotation really exists: who can define the exact boundaries of a centromere, and with which definition?
I have looked at the description of the UCSC track for Chimp, but it says that they have simply translated the positions of the centromeres in human. That is not very useful, because I need some experimental evidence to be sure that the centromere is really there in Chimp.
thanks, very useful answer! I didn't think about looking for repeats close to the gene. It is probably the best solution. And I will use the Syntheny!
If the result from repeat analysis is not so clear, jump 100 or 500 kbp toward the centromere and look there as well. Go 100 nad 500 kbp toward the near telomere as well and see if a trend develops.