Hi Weimin, Sscrof9.2 is the only version available in the Genome Browser; the other versions you mention are not available to BLAT your sequences against. The following Ensembl and NCBI sites should provide you with more information on differences between the assembly versions: http://uswest.ensembl.org/Sus_scrofa/Info/Index http://www.ncbi.nlm.nih.gov/genome/guide/pig/
Please contact us again at [email protected] if you have any further questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 10/9/2011 7:39 AM, dongdong zhaoweiming wrote: > Hi, > > I want to BLAT my assembly transcripts with pig genome to see the position in > the genome.However, the present version of the pig genome is Sscrofa9.2 in > UCSC, Sscrofa9.64 in ensembl and Sscrofa10 in NCBI > ftp://ftp.ncbi.nih.gov/genomes/Sus_scrofa/. Could you tell me which version > should I select and any important difference among the result if I BLAT my > transcripts with each of version genome. > Thanks a lot! > weimin zhao > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
