Info • Rhodocollybia butyracea AH 40177 v1.0

Status

(Apr 2016) The Rhodocollybia butyracea AH 40177 genome was sequenced using PacBio technology, assembled with Falcon, improved with finisherSC, polished with Quiver, and annotated using the JGI annotation pipeline.

The JGI annotation pipeline identified 7,086 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 Rhodocollybia butyracea AH 40177 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 96.28
Sequencing read coverage depth
# of contigs 1482
# of scaffolds 1482
# of scaffolds >= 2Kbp 1474
Scaffold N50 150
Scaffold L50 (Mbp) 0.16
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.54, 1.17, 1.10


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 50467 46863 92.9%
Ests est.fasta 177286871 170582804 96.2%


Gene Models FilteredModels2
length (bp) of: average median
gene 1548 1300
transcript 1231 1017
exon 219 138
intron 71 56
description:
protein length (aa) 365 292
exons per gene 5.62 4
# of gene models 22870


Collaborators

José María Barrasa, Universidad de Alcalá, Spain

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.