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Shotgun Assembly Sequences: Genome (WGS) and Transcriptome (TSA)


AABS00000000.1 Ciona intestinalis

# of Contigs: 2,501
# of Proteins: 0
Total length: 116,731,843 bp
BioProject: PRJNA166
BioSample: SAMN02769623
Keywords: WGS
Organism: Ciona intestinalisshow lineagehide lineage
/mol_type = genomic genomic
WGS: AABS01000001:AABS01002501
The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins : Science 298 (5601), 2157-2167 (2002) – show 87 authorshide authors
Dehal,P., Satou,Y., Campbell,R.K., Chapman,J., Degnan,B., De Tomaso,A., Davidson,B., Di Gregorio,A., Gelpke,M., Goodstein,D.M., Harafuji,N., Hastings,K.E., Ho,I., Hotta,K., Huang,W., Kawashima,T., Lemaire,P., Martinez,D., Meinertzhagen,I.A., Necula,S., Nonaka,M., Putnam,N., Rash,S., Saiga,H., Satake,M., Terry,A., Yamada,L., Wang,H.G., Awazu,S., Azumi,K., Boore,J., Branno,M., Chin-Bow,S., DeSantis,R., Doyle,S., Francino,P., Keys,D.N., Haga,S., Hayashi,H., Hino,K., Imai,K.S., Inaba,K., Kano,S., Kobayashi,K., Kobayashi,M., Lee,B.I., Makabe,K.W., Manohar,C., Matassi,G., Medina,M., Mochizuki,Y., Mount,S., Morishita,T., Miura,S., Nakayama,A., Nishizaka,S., Nomoto,H., Ohta,F., Oishi,K., Rigoutsos,I., Sano,M., Sasaki,A., Sasakura,Y., Shoguchi,E., Shin-i,T., Spagnuolo,A., Stainier,D., Suzuki,M.M., Tassy,O., Takatori,N., Tokuoka,M., Yagi,K., Yoshizaki,F., Wada,S., Zhang,C., Hyatt,P.D., Larimer,F., Detter,C., Doggett,N., Glavina,T., Hawkins,T., Richardson,P., Lucas,S., Kohara,Y., Levine,M., Satoh,N., Rokhsar,D.S.
Submitted (26-NOV-2002) Production Sequencing Facility, DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA – DOE Joint Genome Institute

The Ciona intestinalis whole genome shotgun (WGS) project has the project accession AABS00000000. This version of the project (01) has the accession number AABS01000000, and consists of sequences AABS01000001-AABS01002501.

This record contains the initial draft assembly of the Ciona intestinalis genome as described in Dehal et al. Science 2002. The sequence spans 116.7 million base pairs of an estimated 153-159 million base pair genome, with the unassembled sequence comprising predominantly repetitive sequence, as described in Dehal et al. 95% of known genes are recovered in this draft sequence; we estimate one gene-disrupting misassembly per 75 genes (560 kilobases). Strings of N's in this record represent gaps between contigs, and the length of each string corresponds to the estimated size of the gap based on spanning clones. Gaps with an expected size less than 50 bp are represented by a string of 50 N's. In some cases small gaps may represent unresolved overlaps from the contigs flanking the gap. The sequence is a mosaic of two haplotypes found in a single individual selected for sequencing from Half Moon Bay California. While no quality scores are available for this assembly, we estimate the indel rate at better than one per 16 kilobases (Dehal et al.). Sequences near gaps are likely to be lower quality. This draft sequence will be updated as additional data are incorporated into the assembly.

GenBank:AABS01.1.gbff.gz 47.6 Mb
FASTA:AABS01.1.fsa_nt.gz 32.9 Mb
ASN.1:AABS01.1.bbs.gz 26.9 Mb