Download Data

Unless otherwise noted, all files are in FASTA format and compressed with gzip. NOTE: Masked regions are represented with lowercase characters; gaps in the assembly are represented with Ns.

Assembly v2.0 (October 2002)

Unmasked Assembly: ciona050324.unmasked.fasta.gz

Masked Assembly: ciona.allmasked.gz

Annotation

"FilteredModels" is the filtered set of models representing the best gene model for each locus.

Proteins (Filtered Models): FM1.aa.fasta.gz

Transcripts (Filtered Models): FM1.na.fasta.gz

Repeats Library

This repeats library is a combined set of a publicly available Ciona intestinalis repeats library from RepBase with additional repeat sequences identified at the JGI.

Repeats: CionaRepeats.fasta.gz

ESTs

ESTs: Cintestinalis_ESTs.fasta.gz

EST cluster consensi: Cintestinals_EST_clusters.fasta.gz

Assembly v1.95 (October 2002)

Assembled scaffolds (unmasked): ciona.021113.fasta.gz

Assembly v1.0 (April 2002)

Assembled scaffolds (unmasked): ciona.fasta.gz

Assembled scaffolds (masked): ciona.rm.fasta.gz

Additional fragments (phrap assembly of unplaced reads): ciona.phrp.fasta.gz

Repeat sequences withheld from assembly: ciona.rpts.fasta.gz

Annotation

Predicted transcripts: ciona.mrna.fasta.gz

Predicted peptides: ciona.prot.fasta.gz

Predicted UTR: ciona_utr.fasta.gz

Genes: ciona_genes.gff.gz

Raw Shotgun Data

JGI BAC-ends and quality value files (~120 Kbp library insert size)

Los Alamos National Labs BAC-ends and quality value files (~120 Kbp library insert size):

Los Alamos National Labs cosmid-ends and quality value files (~36 Kbp library insert size):

Comments/Questions
DOE Joint Genome Institute © 2008