JGI L. gigantea v1.0 Info

Status

v1.0 (July 24, 2007): This Lottia gigantea genome sequence was assembled using the JGI assembler, Jazz, constructed from whole genome shotgun and paired end sequencing reads. The nuclear genome sequence from the finished assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses, reported here as the Lotgi1 annotation.

Summary statistics for the 1.0 release (Lotgi1):

Nuclear Genome Assembly	Lotgi1
Nuclear genome size (Mbp)	359.5
Sequencing read coverage depth	8.87x
Reported # of contigs	20,146
# of nuclear scaffolds	4,475
# of nuclear scaffolds >2 Kbp	2,631
Nuclear scaffold N/L50	51/1.87 Mbp
Three largest Scaffolds (Mbp)	9.4 7.1 6.4

Gene Models	Lotgi1¹
length (bp) of:	average
gene	5,234
transcript	1,286
exon	213
intron	787
description:
protein length (aa)	378
exons per gene	6.0
# of gene models	23,851

[1] FilteredModels Version1.0 gene model track

ESTs	Data set	# sequences total	# mapped to genome	# not mapped to genome	% mapped to genome
EST clusters	EstClusters_naClusterCr705LottiaJgi20060727	38,599	35,832	2,767	93%
ESTs	Ests_naEstLottiaJgi20060727	252,091	231,940	20,151	92%

Collaborators

Funding

This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program and the by the University of California, Lawrence Livermore National Laboratory under Contract No. W-7405-Eng-48, Lawrence Berkeley National Laboratory under contract No. DE-AC03-76SF00098 and Los Alamos National Laboratory under contract No. W-7405-ENG-36.