Ensembl Rhesus macaque

Example Data Points

This release of Rhesus macaque data is unassembled, so there are no chromosomes available to browse. Use BLAST and SSAHA to locate data.

A few example data points :

• Gene: ENSMMUG00000000222
• Scaffold: Scaffold 544

About the Rhesus macaque genome

Assembly

Mmul_0.1 is a preliminary assembly of the rhesus monkey, Macaca mulatta, using whole genome shotgun (WGS) reads from small and medium insert clones.

The release was produced by assembling whole genome shotgun reads with the Atlas genome assembly system at the Baylor College of Medicine Human Genome Sequencing Center. Several WGS libraries, with inserts of 2-4 kb and 10 kb were used to produce the data. Highly repeated sequences and sequences from BAC clones were omitted.

This is a draft sequence and may contain errors so users should exercise caution. Typical errors in draft genome sequences include misassemblies of repeated sequences, collapses of repeated regions, and unmerged overlaps (e.g. due to polymorphisms) creating artificial duplications. However base accuracy in contigs (contiguous blocks of sequence) is usually very high with most errors near the ends of contigs. [More about the assembly].

Annotation

The gene set for macaque was built using an modified version of the ensembl pipeline. The species-specific resources for macaque are relatively limited, so we decided to take a combined approach utilizing macaque's great similarity to human to aid our annotation efforts. The gene structures are mainly based on alignments to macaque protein data and also use projected human gene structures. Both macaque and human cDNAs were used to add UTR structures, and finally gene predictions based on Uniprot proteins were used to fill gaps in the annotation.

What's New in Ensembl 39

Macaca mulatta News

• Updated miRNA sets
  Micro-RNA data sets have been updated in a wide range of Ensembl species, including Chicken, Dog, Cow, Chimp, Macaque, Rat, Tetraodon, Fugu, Xenopus, and Ciona intestinalis.

General News

• Bug fixes
  In order to fix some problems with the store() method in Gene and Transcript, DBEntryAdaptor and AttributeAdaptor now require a gene/transcript/translation dbID rather than object as one of their arguments (please see POD for details).
• Multiple versions of genes
  The schema and API have been changed to allow multiple versions of genes, transcripts and exons, for better integration with Otter (the Ensembl-based database schema used as a backend for Havana).
  Read more...
• New MLAGAN groups
  A new 3-way MLAGAN Primate group has been created, containing Human, Chimp and macaque.
  Read more...
• Compara - whole genome alignments, syntenies and families
  

  Whome Genome Alignments.
  Read more...

More news...

Statistics