Strongylocentrotus purpuratus (Purple sea urchin, Spur 01) (Spur_5.0)

Strongylocentrotus purpuratus (Purple sea urchin, Spur 01) Assembly and Gene Annotation

About Strongylocentrotus purpuratus

The purple sea urchin, Strongylocentrotus purpuratus, belongs to the echinoderma, a sister phylum to the chordates. As well as having an important phylogenetic placement, it also has an invaluable ecological role in the marine system and is a model organism for cell and development biology.

Picture credit (Creative Commons BY 3.0): Kirt L. Onthank 2008

Assembly

The genome sequencing project is a joint effort between the Sea Urchin Genome Facility at the Center for Computational Regulatory Genomics, Beckman Institute, Caltech, and the National Human Genome Research Institute of the National Institutes of Health (NHGRI - NIH). The sequencing was done at the Baylor College of Medicine, Houston, Texas.

Ensembl Metazoa uses assembly version Spur_5.0.

Annotation

The annotations in Ensembl Metazoa is the NCBI Strongylocentrotus purpuratus Annotation Release 102.

Protein domains were annotated with the Ensembl Genomes protein feature pipeline.

References

  1. The genome of the sea urchin Strongylocentrotus purpuratus.
    Sea Urchin Genome Sequencing Consortium, Sodergren E, Weinstock GM, Davidson EH, Cameron RA, Gibbs RA, Angerer RC, Angerer LM, Arnone MI, Burgess DR et al. 2006. Science. 314:941-952.
  2. Shedding genomic light on Aristotle's lantern.
    Sodergren E, Shen Y, Song X, Zhang L, Gibbs RA, Weinstock GM. 2006. Developmental Biology. 300:2-8.
  3. SpBase: the sea urchin genome database and web site.
    Cameron RA, Samanta M, Yuan A, He D, Davidson E. 2009. Nucleic Acids Research. 37:D750-4.

Statistics

Summary

AssemblySpur_5.0, INSDC Assembly GCA_000002235.4,
Database version112.5
Golden Path Length921,855,793
Genebuild byNCBI
Genebuild methodImport
Data sourceBaylor College of Medicine

Gene counts

Coding genes27,486
Non coding genes5,486
Small non coding genes1,913
Long non coding genes3,573
Pseudogenes556
Gene transcripts45,798