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 57.7 of 01-Sep-2009
- RefSeq Protein Release 34 of 6-March-2009
- Pfam Release 23.0 of 20-Jul-2008
- Sigenae Oyster Contigs V6
- RefSeq RNA Release 34 of 6-March-2009
- TIGR Fugu FGI 3.0
- TIGR Medaka OlGI 8.0
- TIGR Salmon AsGI 4.0
- TIGR Trout RtGI 7.0
- TIGR ZebraFish ZGI 17.0
- UniGene FatheadMinnow Build #8
- UniGene Fugu Build #7
- UniGene Human Build #219
- UniGene KilliFish Build #8
- UniGene Medaka Build #26
- UniGene Salmon Build #23
- UniGene Trout Build #30
- UniGene ZebraFish Build #116
- Ensembl Fugu Transcripts FUGU4 55
- Ensembl Human Transcripts GRCh37 55
- Ensembl Medaka Transcripts MEDAKA1 55
- Ensembl Tetraodon Transcripts TETRAODON8 55
- Ensembl ZebraFish Transcripts Zv8 55
Statistics
| Assembly: | pcg6, September 2009 |
| Number of base pairs: | 24,247,683 |
| Number of sequences: | 56,268 |
| Total number of contigs: | 31,952 |
| Number of singlets: | 24,634 |
| Polymorphism: | September 2009 |
| Number of putative SNPs: | 1,370 |
| Number of contigs including SNP: | 500 |
Example Data Points
Jump directly to the example entry points:
Based on Ensembl release 40 - Aug 2006
