Status
Assembly v1 (May 2014) is a minimal draft assembly of Illumina gDNA reads. A total of 2310 scaffolds and 36.1 Mbp were assembled using first Velvet and then AllPathsLG.
Summary statistics for the Rhizopogon vinicolor
AM-OR11-026 v1.0 release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 36.10 |
Sequencing read coverage depth | 153.7x |
# of contigs | 3018 |
# of scaffolds | 2310 |
# of scaffolds >= 2Kbp | 1633 |
Scaffold N50 | 218 |
Scaffold L50 (Mbp) | 0.04 |
# of gaps | 708 |
% of scaffold length in gaps | 2.3% |
Three largest Scaffolds (Mbp) | 0.56, 0.30, 0.26 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
Other | JGI_RNA_contigs | 41449 | 35478 | 85.6% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1595 | 1297 |
transcript | 1274 | 1030 |
exon | 228 | 143 |
intron | 72 | 55 |
description: | ||
protein length (aa) | 362 | 282 |
exons per gene | 5.58 | 4 |
# of gene models | 14469 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Mujic AB, Kuo A, Tritt A, Lipzen A, Chen C, Johnson J, Sharma A, Barry K, Grigoriev IV, Spatafora JW
Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus.
G3 (Bethesda). 2017 Jun 7;7(6):1775-1789. doi: 10.1534/g3.117.039396
Mujic AB, Kuo A, Tritt A, Lipzen A, Chen C, Johnson J, Sharma A, Barry K, Grigoriev IV, Spatafora JW
Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus.
G3 (Bethesda). 2017 Jun 7;7(6):1775-1789. doi: 10.1534/g3.117.039396
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.