Hi Vinay, Does NCBI's list of 24000 genes also contain the RefSeq Gnomon predictions (indicated by XM* and XR* acessions)? We don't include these due to a lack of a publication on the algorithm and, in our experience, these predictions have poor specificity. Additionally, we only display RefSeq genes that make it through our alignment process. More information about our alignment process can be found on the RefSeq description page here: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=panTro2&g=refGene.
I hope this information is helpful. Please feel free to contact the mail list again if you require further assistance. Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group On 11/22/10 8:14 AM, Mittal, Vinay K wrote: > Hi, > I was trying to download panTro2 (March 2006 assembly) genes using the "Table > browser". It gives me around 1300 genes only but for the same asembly RefSeq > (NCBI) reports around 24000 genes. I was wondering why there is this huge > difference between the number of genes for the same assembly. > > Thanks. > > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
