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Table 1 Genomes and ESTs used in the analysis

From: Cross-kingdom patterns of alternative splicing and splice recognition

Genome name Kingdom Reference ESTs
Danio rerio Animal Assembly Zv6, Sanger Institute [66] Genbank 06/15/07
Takifugu rubripes Animal [67] Genbank 06/22/07
Branchistoma floridae Animal JGI [60] (v1.0) Genbank 06/22/07
Ciona savignyi Animal Broad Institute [58] (ci1.0) Genbank 06/15/07
Ciona intestinalis Animal [68] Genbank 06/15/07
Nematostella vectensis Animal [69] Genbank 06/22/07
Strongylocentrotus purpuratus Animal [70] Genbank 06/27/07
Drosophila melanogaster Animal [71] Genbank 06/15/07
Aedes aegypti Animal [72] Vectorbase [61,73]
Anopheles gambiae. Animal [74] Vectorbase [61,73]
Apis mellifera Animal [75] Genbank 06/18/07
Caenorhabditis elegans Animal [76] Genbank 02/1/07
Schistosoma mansoni Animal TIGR/JCVI [59] Genbank 06/22/07
Rhizopus oryzae Fungi Broad Institute [58] Genbank 06/15/07 + Broad Institute [58]
Cryptococcus neoformans JEC21 Fungi [15] Genbank 06/19/07
Ustilago maydis Fungi [77] Genbank 06/15/07
Schizosaccharomyces pombe Fungi [78] Genbank 01/14/08
Saccharomyces cerevisiae Fungi [79] Genbank 01/14/08
Neurospora crassa Fungi [80] Genbank 06/15/07
Magnaporthe grisea 70-15 Fungi [81] Genbank 06/15/07
Stagnospora nodorum Fungi Broad Institute [58] Genbank 06/15/07
Aspergillus flavus NRRL3357 Fungi TIGR/JCVI [59], GenBank AAIH00000000 Genbank 06/15/07
Aspergillus nidulans Fungi [82] Genbank 06/15/07
Histoplasma capsulatum Fungi Broad Institute [58] Genbank 06/15/07
Coccidioides posadasii Fungi TIGR/JCVI [59] Genbank 06/15/07
Coccidioides immitis RS Fungi Broad Institute [58] Genbank 06/15/07
Sclerotinia sclerotiorum 1980 Fungi Broad Institute [58] Genbank 06/15/07 + Broad Institute [58]
Dictyostelium discoideum Protist [83] Genbank 06/15/07
Populus trichocarpa Plant [84] Genbank 06/18/07
Arabidopsis thaliana Plant [85] Genbank 06/16/07
Oryza sativa Plant [86] Genbank 06/15/07
Physcomitrella patens Plant JGI [60] (v1.1) Genbank 06/28/07
Chlamydomonas reinhardtii Plant JGI [60] (v3.0) Genbank 06/18/07
Ostreococcus lucimarinus Plant [87] JGI [60]
Phytophthora infestans Protist Broad Institute [58] (C Nusbaum, personal communication) Genbank 06/15/07
Phytophthora sojae Protist [88] Genbank 06/15/07
Plasmodium yoelii Protist [89] Genbank 06/15/07
Plasmodium falciparum 3D7 Protist [90] Genbank 06/19/07
Paramecium tetraurelia Protist [91] Genbank 06/15/07
Tetrahymena thermophila Protist [92] Genbank 06/19/07
Entamoeba hystolitica Protist [4] Genbank 06/18/07
Phaeodactylum tricornutum Protist JGI [60] Genbank 06/28/07