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 |