These SGP predictions combine geneid predictions with tblastx comparison of the Human Genome against the Chicken genome.

SGP was run on the masked fasta sequences for the following chicken genome version:

golden_path_200402 (Feb 2004)

It was also using homology evidences (the SRs - similarity regions) from TBLASTX, in which a masked version of the previous mouse genome assembly was comparedagainst the following human assembly version: 


golden_path_200405 (from ncbi Human Genome build 35, hg17) 


Predictions were obtained per chromosome and output in the following formats:


chr1.sgp (geneid)

chr1.gff

chr1.gtf

chr1.cds (nucleotide sequence of predicted sequences)

chr1.prot (amino acid sequence of predicted protein sequences)

chr1_tbxsr.gff (gff output of geneid combined with tblastx) 


