Status
The genome sequence and gene models of Coccidioides posadasii C735 delta SOWgp were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on Nov 1, 2019. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds, and 5) unsupported short models. This resulted in the removal of 105 models from C. posadasii and the generation of the FilteredModels1 gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.
Summary statistics for the Coccidioides posadasii C735
delta SOWgp release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 26.94 |
Sequencing read coverage depth | 8x |
# of contigs | 54 |
# of scaffolds | 54 |
# of scaffolds >= 2Kbp | 54 |
Scaffold N50 | 4 |
Scaffold L50 (Mbp) | 2.38 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 5.40, 4.39, 3.09 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 2056 | 1730 |
transcript | 1866 | 1543 |
exon | 568 | 331 |
intron | 85 | 68 |
description: | ||
protein length (aa) | 521 | 437 |
exons per gene | 3.28 | 3 |
# of gene models | 7124 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW
Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.
Genome Res. 2009 Oct;19(10):1722-31. doi: 10.1101/gr.087551.108
Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW
Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.
Genome Res. 2009 Oct;19(10):1722-31. doi: 10.1101/gr.087551.108
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Eurotiomycetes
Funding
This project was not sequenced at the JGI.