Table 1.
P. patensgenome 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 | ||
*including splice variants &data from the miRBase registry, release 18 [59].