Status
The genome sequence and gene prediction of Colletotrichum orbiculare 104-T have not been determined by the Joint Genome Institute (JGI), but were provided by Ken Shirasu at the RIKEN Center for Sustainable Resource Science. In order to allow comparative analyses with other fungal genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. Please note that this copy of the genome is not maintained by Ken Shirasu and is therefore not automatically updated. JGI tools were used to automatically annotate predicted proteins.
Summary statistics for the Colletotrichum orbiculare
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 90.09 |
| Sequencing read coverage depth | |
| # of contigs | 7981 |
| # of scaffolds | 3370 |
| # of scaffolds >= 2Kbp | 526 |
| Scaffold N50 | 59 |
| Scaffold L50 (Mbp) | 0.42 |
| # of gaps | 4611 |
| % of scaffold length in gaps | 2.9% |
| Three largest Scaffolds (Mbp) | 2.15, 2.12, 1.71 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1617 | 1371 |
| transcript | 1416 | 1194 |
| exon | 469 | 250 |
| intron | 101 | 64 |
| description: | ||
| protein length (aa) | 472 | 398 |
| exons per gene | 3.02 | 2 |
| # of gene models | 13348 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Gan P, Ikeda K, Irieda H, Narusaka M, O'Connell RJ, Narusaka Y, Takano Y, Kubo Y, Shirasu K
Comparative genomic and transcriptomic analyses reveal the hemibiotrophic stage shift of Colletotrichum fungi.
New Phytol. 2013 Mar;197(4):1236-1249. doi: 10.1111/nph.12085
Gan P, Ikeda K, Irieda H, Narusaka M, O'Connell RJ, Narusaka Y, Takano Y, Kubo Y, Shirasu K
Comparative genomic and transcriptomic analyses reveal the hemibiotrophic stage shift of Colletotrichum fungi.
New Phytol. 2013 Mar;197(4):1236-1249. doi: 10.1111/nph.12085
Funding
This project was not sequenced at the JGI.
