Genome Release
The haploid genome of Physcomitrella patens ssp patens
v.1.1 (March 2007)
Characteristics of Physcomitrella patens ssp patens:
~480 Mb // 27 pairs of chromosomes // 35,938 gene models // 8.1 X depth.
2,106 scaffolds (microbial contaminants removed)
19,136 contigs (half of the assembly in 111 scaffolds)
Min scaffold = 1.3 Mb in length
Mean contig size = 72.5 kb.
| Gene length | 2.4 kb |
| Transcript length | 1.2 kb |
| Protein length | 363 aa |
| Exon frequency | 4.87 exons per gene |
| Exon length | 245 nt |
| Intron length | 310 nt |
| Gene density | 74.87 genes/Mbp scaffold |
The genes were predicted by the following methods:
| Total models | 35,938 |
| Known genes | 210 (1%) |
| Homology-based | 13,150 (37%) |
| ab initio | 22,578 (63%) |
The following evidence validated the genes:
| ESTs | 8,998 (25%) |
| Swissprot hit | 13,340 (37%) |
| Pfam hit | 13,613 (38%) |