Analysis of the Macaca mulatta transcriptome and the sequence divergence between Macaca and human

Charles L Magness¹, P Campion Fellin¹, Matthew J Thomas², Marcus J Korth², Michael B Agy³, Sean C Proll², Matthew Fitzgibbon², Christina A Scherer¹, Douglas G Miner¹, Michael G Katze²^,3 and Shawn P Iadonato¹

¹Illumigen Biosciences Inc., Suite 450, 2203 Airport Way South, Seattle, WA 98134, USA

²Department of Microbiology, University of Washington, Seattle, WA 98195-8070, USA

³Washington National Primate Research Center, University of Washington, Seattle, WA 98195-8070, USA

author email corresponding author email

Genome Biology 2005, 6:R60doi:10.1186/gb-2005-6-7-r60


Published:	30 June 2005

Subject areas: Genome studies, Evolution, Model organisms

Additional files

Additional File 1:

Chimpanzee versus human sequence identity. Chimpanzee cDNA and EST sequences in GenBank were compared to human RefSeqs to provide a dataset comparable to the macaque-human results described herein. Due to the paucity of expressed chimpanzee sequence data in GenBank, the analysis could only be performed for 134 human-chimp pairs. Data for sequence identity between chimpanzee and human for these genes are noted in the table. Macaque-human identities are also reported for the same genes where available.

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Additional File 2:

Distribution of coding and noncoding sequence similarity between chimpanzee and human. A histogram showing the degree of nucleotide sequence similarity between chimpanzee and human for coding (blue) and noncoding (3' UTR, yellow) transcribed sequence. EST and cDNA sequences (N = 134, Additional data file 1) were selected that cross a well defined stop codon and that provide concurrent sampling of 150bp of sequence both proximal and distal to the stop. The best human match for each chimpanzee sequence was identified and compared using MegaBlast.

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