All entries for October 2009

October 02, 2009

Pre–release of Agaricus bisporus var. bisporus (H97) v1.0 genome assembly

gbrowser_h97_20091002.jpg

The JGI have announced the pre-release (or ‘internal’ release) of the Agaricus bisporus var. bisporus (H97) 8.50x  genome assembly following automated annotation.

The H97 v1.0 genome browser is now available for community annotation inputs.

In order to access the browser and make annotations, users will need to register with the JGI and the project team will need to approve the request.
If you are interested in joining the annotation effort please contact the Agaricus genome team.

Summary of A. bisporus var. bisporus H97 v1 assembly:
Genome Size: 
30.3 Mbp
Total number of Scaffolds: 27
Total number of EST clusters:           
79,271
Total number of trimmed ESTs:
1,140,141
JGI predicted 10,387 genes with the following average properties:
Gene length (bp):                       
1771.79
Transcript length (bp):
1413.32
Protein length (aa): 426.20
Exons per gene: 6.10
Exon length (bp):
232.25
Intron length (bp): 
71.72
Genes were predicted by the following methods:
EST-derived:                          
3070 (29.6%)
Homology-based:                   
4242 (40.8%)
ab initio:                              
3075 (29.6%)
Genes were validated by the following evidence:
nr protein alignments:               
8638 (83%)
Pfam alignments: 
5357 (52%)
Completeness (5'M-3'*): 9376 (90%)

                 

H97 JGI Project status http://bit.ly/9h4nS | Community annotation plans agaricusgenomeseqactivities_8

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