Ensembl Honeybee

 

Explore the Honeybee genome

What's New in Ensembl 35

  • Biotype standardisation in Honeybee

    The biotype for Honeybee has been changed to 'protein_coding' in the gene table, to match the standard biotypes for other Ensembl species.
    Read more...

  • Compara database

    The compara orthology build has been updated to include the new Opossum genome, and chimp dnafrag names have been changed to take account of the re-numbering of the Chimp chromosomes (see Chimp news for more information).
    Read more...

  • Variation database

    All variation databases now include the new consequence_type 'REGULATORY_REGION'.

  • Genes on Featureview

    Features which have accompanying Gene locations, e.g. some AffyProbes, now display a table of gene names and descriptions at the top of the view page. See an example....

  • New species - Opossum
    Ensembl is pleased to announce the completion of the genebuild for the grey short-tailed opossum, Monodelphis domestica, based on assembly 2.0 from the Broad Institute.
    Read more...

More news...

Example Data Points

For this release we have chosen to display the data using Groups (or contigs).Use the BLAST button in the menu, left, to locate data, or enter the Group (e.g. Group6) and basepairs to jump to, or scaffold (e.g. Group6.9) and basepairs to jump to.

A few example data points :

Jump directly to sequence position

Region:
From (bp):
To (bp):

About the Honeybee genome

Assembly

Bzzz, bzz! This site presents an annotation of release 2.0 of the honeybee genome assembly [January 2005].

The honeybee genome sequence was determined by whole genome shotgun at the Human Genome Sequencing Center at Baylor College of Medicine.

Annotation

The data comprises:

  • Repeats which have been identified with:
    • RepeatMasker using the Drosophila melanogaster repeat library
    • RepeatMasker, with repeat consensi provided using an ab initio analysis kindly performed by Damian Keefe of the EBI's ENCODE project using the RECON repeat-finding package
    • Repeat sequences identified by the ab initio analysis which were not found by the RepeatMasker's drosophila library
  • Low complexity sequence identified with Dust.
  • Ab initio gene predictions - which have been generated with Genscan and FGenesH
  • Blast features - showing similarities to entries in Uniprot from a sensitive search against the genome.
  • Gene predictions - These are grouped by confidence, and generated from a combination of evidence sources: honeybee-specific peptides, homology to Uniprot, and honeybee-specific ESTs. Lower confidence predictions are generated with homology to Uniprot only.

Statistics

Assembly: Amel 2.0, Jan 2005
Genebuild: Ensembl, May 2005
Database version: 35.2c
Gene predictions : 13,448
Genscan gene predictions: 20,998
Gene exons: 136,802
Gene transcripts: 27,755
Base Pairs: 228,567,597
Golden Path Length: 224,720,104
Most common InterPro domains: Top 40 Top 500

Links

A number of other sites are also displaying honeybee data or predictions. Notable sites are:

 

© 2008 WTSI / EBI. Ensembl is available to download for public use - please see the code licence for details.

                
Ensembl v35 - Nov 2005
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