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Explore the Tetraodon nigroviridis genome

Search Ensembl Tetraodon nigroviridis

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e.g. chromosome 19 or 12:10000..200000 or Q59FM4.1

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About the Tetraodon genome

Assembly

Tetraodon

The Tetraodon genome project is a collaboration between Genoscope and the Broad Institute (MIT). This Ensembl website presents sequence data and analyses provided by the two institutes and annotation produced using our Genebuild system..

The project was supported by the Consortium National de Recherche en Genomique and the National Human Genome Research Institute.

The genome assembly was performed using Arachne (Jaffe D.B. et. al. 2003. Gen. Res. 13, 91-96). This site presents version 8 of the assembly.

Annotation

The majority of genes were annotated using a modified version of the standard Ensembl pipeline. This involved aligning protein, cDNA and EST sequences using exonerate and genewise to build gene models with UTRs and also using comparative analyses to find structures that the inital analysis missed.

The annotation also includes 87 manually curated structures of a number of HOX and Cytokine genes.

What's New in Ensembl 50

Tetraodon nigroviridis News

  • New Tetraodon Build
    A new Tetraodon database has been released in Ensembl 50. The core database contains a standard Ensembl build, whilst the otherfeatures database contains the data that was previously released on Ensembl Pre.
  • New variation databases
    Ensembl 50 includes a new orangutan variation database, with SNPs called by Ensembl using ssaha2/pileup from reference assembly reads, plus remapping of SNPs to the new assemblies for tetraodon and cow.
    Read more...
  • Non-coding genes
    These have been updated for most species, including an miRNA update and HGNC names where possible.

General News

  • Canonical Transcripts

    Canonical transcripts have been defined for all genes in the core databases.
    Read more...

  • SSAHA
    From release 50 we will no longer be providing SSAHA sequence search. If you wish to run your own SSAHA sequence search you can download the files to generate the search hashes from our FTP site.

More news...

Statistics

Assembly: TETRAODON 8.0, Mar 2007
Genebuild: Ensembl, Nov 2007
Database version: 50.8
Known protein-coding genes: 99
Projected protein-coding genes: 13,772
Novel protein-coding genes: 5,731
Pseudogenes: 147
RNA genes: 498
Genscan gene predictions: 23,832
Gene exons: 220,724
Gene transcripts: 23,289
SNPs: 903,588
Base Pairs: 342,419,788
Golden Path Length: 358,618,246
Most common InterPro domains: Top 40 Top 500

How the statistics are calculated

 

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GermOnline based on Ensembl release 50 - Jul 2008
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