Public Sigenae Contig Browser Trout

 

About the Oncorhynchus mykiss contigs database

Trout

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 57.0 of 24-Mar-2009
  • RefSeq Protein Release 34 of 6-March-2009
  • Pfam Release 23.0 of 20-Jul-2008
  • Sigenae Trout Contigs V7
  • RefSeq RNA Release 34 of 6-March-2009
  • 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 #8
  • UniGene Fugu Build #7
  • UniGene Human Build #218
  • UniGene KilliFish Build #8
  • UniGene Medaka Build #25
  • UniGene Salmon Build #23
  • UniGene Trout Build #29
  • UniGene ZebraFish Build #115
  • Ensembl Fugu Transcripts FUGU4 53
  • Ensembl Human Transcripts NCBI36 53
  • Ensembl Medaka Transcripts MEDAKA1 53
  • Ensembl Tetraodon Transcripts TETRAODON8 53
  • Ensembl ZebraFish Transcripts ZFISH7 53

Statistics

Assembly:pom7, April 2009
Number of base pairs:71,000,014
Number of sequences:283,221
Total number of contigs:85,129
Number of singlets:52,655
Polymorphism:April 2009
Number of putative SNPs:10,938
Number of contigs including SNP:4,124


Example Data Points

Jump directly to the example entry points:

Contig:CA341846.p.om.7
Clone:tcaa0001.a.18[AGENAE_TroutGeneric2(GEO:GPL3650)]
SNP:snp_BX083702_19

 

© 2009 INRA / WTSI / EBI.

                
Based on Ensembl release 40 - Aug 2006