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Info • Gonapodya prolifera v1.0

Status

Version 1.0 (December 2011) This draft assembly was produced using Illumina sequencing data. This assembly is believed to originate from a diploid organism. In the browser, FilteredModels1 represents the (partially) diploid gene set. Scaffolds that were present in duplicate were identified using the results of a self-self whole genome VISTA analysis, displayed in the synteny browser. Gene models present on the smallest of a duplicated scaffold pair were removed from FilteredModels1, resulting in the putatively haploid gene set FilteredModels3.

Summary statistics for the Gonapodya prolifera JEL478 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 48.79
Sequencing read coverage depth ?
# of contigs 1154
# of scaffolds 352
# of scaffolds >= 2Kbp 294
Scaffold N50 42
Scaffold L50 (Mbp) 0.35
# of gaps 401
% of scaffold length in gaps 1.0%
Three largest Scaffolds (Mbp) 1.57, 1.49, 1.04


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other EST_contigs 39496 37454 94.8%


Gene Models FilteredModels3
length (bp) of: average median
gene 1818 1541
transcript 1388 1147
exon 249 157
intron 96 70
description:
protein length (aa) 414 334
exons per gene 5.58 5
# of gene models 13902


Collaborators

  • Mary Berbee, University of British Columbia, Canada
  • Joey Spatafora, Oregon State University, USA
  • Igor Grigoriev, DOE Joint Genome Institute

Genome Reference(s)

Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.