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Moss Genome

Genome Release

The haploid genome of Physcomitrella patens ssp patens

v.1.1 (March 2007)

http://genome.jgi-psf.org/Physcomitrella


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 length2.4 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%)