Browse the Oncorhynchus mykiss contigs database
About the Oncorhynchus mykiss contigs database
Assembly
The Trout EST contig browser is an
INRA project
aimed to produce
and maintain an automatic annotation of Trout EST libraries.
Currently, this is a preliminary portal for the annotation of Trout Agenae ESTs.
Please refer to the
Agenae Project's Webpage for more details on the Trout Agenae ESTs Project.
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 Trout 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 7.0
- 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: | pom8, Mar 2011 |
| Number of base pairs (Contigs): | 202,306,557 |
| Number of sequences (EST/mRNA): | 4,860,159 |
| Total number of contigs: | 242,187 |
| Number of singlets: | 22,373 |
| Polymorphism: | Mar 2011 |
| Number of putative SNPs: | 40,453 |
| Number of contigs including SNP: | 16,745 |
Example Data Points
Jump directly to the example entry points:
Based on Ensembl release 40 - Aug 2006
