Table 1 P. patens genome annotation releases
Rensing et al. | Lang et al. | V1.6 | ||
|---|---|---|---|---|
(01/2008) V1.1 | (10/2008) V1.2 | cosmoss.org | ||
genome size (Mb) | 480 | 480 | 480 | |
scaffolds | 2,106 | 1,995 | 1,985 | |
protein-coding genes | 35,938 | 27,966 (-7,972) | 32,275 (+4,309) | |
protein-coding genes with EST support | 12,593 | 19,119 (+6,523) | 26,722 (+7,603) | |
protein-coding transcripts | 35,938 | 27,966 (-7,972) | 38,357* (+10,391) | |
annotated as alternatively spliced | - | - | 3,500 | |
genes with UTRs | 4,517 | 4,515 (-2) | 15,757* (+11,242) | |
either UTR | genes | 8,418 | 8,381 (-37) | 16,010 (+7,629)21,464* |
transcripts | ||||
gene density (kb per gene) | 13.4 | 17.2 | 14.9* | |
exons / gene | 4.9 | 5.4 | 5.0* | |
mean exon length (bp) | 246 | 234 | 275* | |
mean intron length (bp) | 311 | 277 | 278* | |
Gene structures altered since previous release: | ||||
Models updated | - | 22,307 | ||
Models identical | 27,966 | 1,582 | ||
Models added | - | 8,387 | ||
Loci added with plant homologs | - | 1,338 | ||
Models added with Pfam domain | 2,196 | |||
Loci added with Pfam domain | 1,456 | |||
Models filtered out | 7,972 | 4,077 | ||
miRNA families | 99 | 108& | ||
miRNAs | 220 | 229& | ||
tRNA genes | 432 | 432 | ||
rDNA regions | 798 | 798 | ||
snRNAs | 213 | 213 | ||
Eukaryotic type signal recognition particle RNA (SRP) | 6 | 6 | ||