Where to download human alpha satellite from centromeric regions

Question

[Biomonika (Noolean)]

Hello, I am trying to find where to download human alpha satellite sequence. So far I have only been able to find one from 1987 paper: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC306152/pdf/nar00260-0438.pdf

I know that Karen H. Miga incorporated her Centromere Reference Models into GRCh38, so downloading her predicted sequences of centromeres would also be helpful - if you can point me where to download those. However, alpha satellite (or multiple since they are variable) would be the best.

Answer 1

[jotan]

Have you tried RepBase?

[Biomonika (Noolean)]

Thanks, I downloaded RepBase20.10.fasta.tar.gz and tried to search for "alpha" and "satellite" with no success.

[jotan]

I'm not sure what that file shows but it looks like a random mix of repeats from different organisms. It could be just an update file without original data.

Try going to http://www.girinst.org/repbase/update/browse.php

Then select "Satellite" under the Repeat Class drop-down menu

Then select "Homo Sapien" under the Taxon drop-down menu.

This will give you an option to browse or download all human satellite and/or primate satellite sequences.