Due to a planned NERSC power outage, JGI portals will be unavailable 6:00am PDT July 10 - 11:59pm PDT July 14. System Status updates available here.
Info • Porodaedalea niemelaei PN71-100-IP13 v1.0

Status

(May 2016) The Porodaedalea niemelaei PN71-100-IP13 genome was sequenced using PacBio technology, assembled with Falcon, improved with finisherSC, polished with Quiver, and annotated with the JGI annotation pipeline. The mitochondrial genome was assembled separately and is available in the downloads section.

The JGI annotation pipeline identified 4,576 gene models as possible diploid alleles, and excluded them from the filtered model/gene catalog set. These models are shown in the track "secondary_alleles", and are available from the download page.

Summary statistics for the Porodaedalea niemelaei PN71-100-IP13 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 53.34
Sequencing read coverage depth
# of contigs 951
# of scaffolds 951
# of scaffolds >= 2Kbp 945
Scaffold N50 91
Scaffold L50 (Mbp) 0.14
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.90, 0.90, 0.83


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 69443 47613 68.6%
Ests est.fasta 71946140 68034492 94.6%


Gene Models FilteredModels3
length (bp) of: average median
gene 1713 1462
transcript 1378 1155
exon 237 147
intron 72 60
description:
protein length (aa) 400 324
exons per gene 5.82 5
# of gene models 14467


Collaborators

Konstantin V. Krutovsky, Büsgen-Institute Georg-August-University of Göttingen, Germany

Joseph W. Spatafora, Oregon State University

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.