Hello guys,
Always appreciate your active contributions to this website.
I wish I get to a place where I can help others through this web site, too.
The dataset I am interested in is a multiple sequence alignments of exons for some number of mammalians.
The closest thing I can get from UCSC web site is alignments of CDS sequences over 29 mammalians (in alignment folder on Downloads page of the site).
But what I want to have is the alignments that not only contain CDS sequences, but they also should contain UTRs, both 5-end and 3-end.
I checked on the other directory on the same path (maf folder), but they maintain the whole-genome sequence alignment with only a small subset of species, and the involved species are changing by region. So this is not the data set I am looking for.
Do you know where I can obtain this kind of data set in UCSC Genome browser, and if there's not, do you know why?
I mean, in the alignment folder, they maintain a nicely composed alignments of CDS sequences over 29 mammalians (it is 29 mammalians all the time, unlike the case of maf folder). If they can do this, I cannot see any reason there shouldn't be exon alignments for the species.
Always appreciate your active contributions to this website.
I wish I get to a place where I can help others through this web site, too.
The dataset I am interested in is a multiple sequence alignments of exons for some number of mammalians.
The closest thing I can get from UCSC web site is alignments of CDS sequences over 29 mammalians (in alignment folder on Downloads page of the site).
But what I want to have is the alignments that not only contain CDS sequences, but they also should contain UTRs, both 5-end and 3-end.
I checked on the other directory on the same path (maf folder), but they maintain the whole-genome sequence alignment with only a small subset of species, and the involved species are changing by region. So this is not the data set I am looking for.
Do you know where I can obtain this kind of data set in UCSC Genome browser, and if there's not, do you know why?
I mean, in the alignment folder, they maintain a nicely composed alignments of CDS sequences over 29 mammalians (it is 29 mammalians all the time, unlike the case of maf folder). If they can do this, I cannot see any reason there shouldn't be exon alignments for the species.
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