Browse the Crassostrea gigas contigs database
About the Crassostrea gigas contigs database
Assembly
The Oyster EST contig browser aims to produce and maintain an automatic annotation of Oyster EST libraries.
This database
GigasDatabase was initiated within the frame of the
AquaFirst European
project, it now gathers EST sequences produced by a
Marine Genomics Europe project
(GOCE-CT-2004-505403) and a
Genoscope project.
GigasDatabase is regularly updated in the context of the ANR project "Gametogenes" (ANR-08-GENM-041).
Annotation
Contigs were annotated searching sequence homologies against following databases:
- UniProtKB/Swiss-Prot Release 2011_03 of 08-Mar-2011
- RefSeq Protein Index Blast of 09-Jan-2011
- Pfam Release 24.0 of Jul-2009
- Sigenae Oyster Contigs V8
- RefSeq RNA Index Blast of 09-Jan-2011
- TIGR Fugu FGI 3.0
- TIGR Medaka OlGI 8.0
- TIGR Salmon AsGI 5.0
- TIGR Trout RtGI 8.0
- TIGR ZebraFish ZGI 18.0
- UniGene FatheadMinnow Build #11
- UniGene Fugu Build #8
- UniGene Human Build #229
- UniGene KilliFish Build #9
- UniGene Medaka Build #29
- UniGene Salmon Build #28
- UniGene Trout Build #31
- UniGene ZebraFish Build #123
- Ensembl Fugu Transcripts FUGU4 61
- Ensembl Human Transcripts GRCh37 61
- Ensembl Medaka Transcripts MEDAKA1 61
- Ensembl Tetraodon Transcripts TETRAODON8 61
- Ensembl ZebraFish Transcripts Zv9 61
Statistics
| Assembly: | pcg8, Mar 2011 |
| Number of base pairs (Contigs): | 67,875,621 |
| Number of sequences (EST/mRNA): | 1,013,570 |
| Total number of contigs: | 82,312 |
| Number of singlets: | 20,148 |
| Polymorphism: | Mar 2011 |
| Number of putative SNPs: | 29,493 |
| Number of contigs including SNP: | 10,392 |
Example Data Points
Jump directly to the example entry points:
Based on Ensembl release 40 - Aug 2006
