Info • Arabidopsis lyrata
Please note that the latest data is available at Phytozome.
To view archival data, please see Arabidopsis lyrata v1.0.

Status

v1.0 (April 7, 2008): The Arabidopsis lyrata genome sequence assembly v1.0 was built with Arachne assembler from whole genome shotgun and paired end sequencing reads. A. lyrata community collaborators ordered and oriented the scaffolds on the A. lyrata genetic map and helped refine the assembly. The nuclear genome sequence from this draft assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses that included gene model tracks contributed by A. lyrata community collaborators.

Summary statistics for the A. lyrata v1.0 release:

Nuclear Genome Assembly
v1.0
Nuclear genome size (Mbp)
 206.7
Sequencing read coverage depth
8x
Reported # of contigs
 3,648
# of nuclear scaffolds
695
# of nuclear scaffolds >2 Kbp
675
Nuclear scaffold N/L50
4/24.5 Mbp
Three largest Scaffolds (Mbp)
 33.1
25.1
24.6

 

Gene Models1
v1.0
length (bp) of:
average
gene
2,080
transcript
1,192
exon
223
intron
207
description:

protein length (aa)
361
exons per gene
5.3

genes per Mb

158.5
# of gene models
32,670

[1] FilteredModels6 gene model track

Collaborators

  • US Department of Energy Joint Genome Institute (JGI)
  • Lab of Detlef Weigel

Links

Funding

This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02-05CH11231, Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344, and Los Alamos National Laboratory under contract No. DE-AC02-06NA25396.