Slight off-topic question: I'm looking for files with cytobands for chromosomes of assembled non-human genomes. Usually these files look like
band hs1 p36.33 p36.33 0 2300000 gneg
band hs1 p36.32 p36.32 2300000 5300000 gpos25
band hs1 p36.31 p36.31 5300000 7100000 gneg
band hs1 p36.23 p36.23 7100000 9200000 gpos25
band hs1 p36.22 p36.22 9200000 12600000 gneg
band hs1 p36.21 p36.21 12600000 16100000 gpos50
band hs1 p36.13 p36.13 16100000 20300000 gneg
band hs1 p36.12 p36.12 20300000 23800000 gpos25
...
I specifically need chimp (Pan troglodytes), but to have some other species would be interesting too. I checked most common resources, but my searches were fruitless.
TIA
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written
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Paulo Nuin
I believe the karyotype table in the Ensembl MySQL database contains the information that you are looking for. You should thus be able to retrieve it for all genomes included in Ensembl, e.g. chimp.
The GMOD wiki even has a Perl script for extracting this data.
It works really well, but unfortunately there's no cytoband information for chimpanzee. I will keep trying.
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