Hi, I am tying to obtain the CDS Fasta Alignments between zebrafish and human for all zebrafish Refseq genes. Is there a way to tell how many genes in zebrafish have CDS Fasta Alignments? I want to make sure my browser did not time out and that I have the complete file, but I can't find information on how many zebrafish genes should be expected in this file.
From the file I have from UCSC Table Browser, I have ~ 13,748 unique zebrafish genes. I got this from downloading the CDS Fasta Alignments through the DanRer6 Table Browser, grepping DanRer header lines, extracting only the zebrafish Refseq IDs, sort -> uniq and outputting the count of unique genes. This (13,780) is a much smaller number than ~24,020 zebrafish genes presented by Ensembl. Could others please help with where I could find the expected number of zebrafish genes for the current zebrafish build on the UCSC Genome Browser site for zebrafish, and the expected number of zebrafish genes with CDS Fasta Alignment to human? Thank you, Deb _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
