Browse the Crassostrea gigas contigs database
About the Crassostrea gigas contigs database
Assembly
The Oyster EST contig browser is an
AquaFirst project
aimed to produce
and maintain an automatic annotation of Oyster EST libraries.
Currently, this is a preliminary portal for the annotation of Oyster AquaFirst ESTs.
Please refer to the
AquaFirst Project's Webpage for more details on the AquaFirst Project.
Annotation
Contigs were annotated searching sequence homologies against following databases:
- UniProtKB/Swiss-Prot Release 56.3 of 14-Oct-2008
- RefSeq Protein Release 31 of 30-August-2008
- Pfam Release 23.0 of 20-Jul-2008
- Sigenae Oyster Contigs V4
- RefSeq RNA Release 31 of 30-August-2008
- TIGR Fugu FGI 3.0
- TIGR Medaka OlGI 7.0
- TIGR Salmon AsGI 4.0
- TIGR Trout RtGI 7.0
- TIGR ZebraFish ZGI 17.0
- UniGene FatheadMinnow Build #7
- UniGene Fugu Build #6
- UniGene Human Build #215
- UniGene KilliFish Build #7
- UniGene Salmon Build #20
- UniGene Trout Build #28
- UniGene ZebraFish Build #114
- Ensembl Fugu Transcripts FUGU4 50
- Ensembl Human Transcripts NCBI36 50
- Ensembl Medaka Transcripts MEDAKA1 50
- Ensembl Tetraodon Transcripts TETRAODON8 50
- Ensembl ZebraFish Transcripts ZFISH7 50
Statistics
| Assembly: | pcg4, October 2008 |
| Number of base pairs: | 11,133,322 |
| Number of sequences: | 29,271 |
| Total number of contigs: | 17,769 |
| Number of singlets: | 13,342 |
| Polymorphism: | October 2008 |
| Number of putative SNPs: | 373 |
| Number of contigs including SNP: | 160 |
Example Data Points
Jump directly to the example entry points:
Based on Ensembl release 40 - Aug 2006
