Click on a chromosome for a closer view
This site provides a data set based on the March
2006 Pan_troglodytes-2.1 6x shotgun assembly from the Chimpanzee Sequencing
Consortium headed by the GSC (St. Louis) and The Broad Institute (MIT).
The chimpanzee 2.1 assembly is a merge of the initial 4X made in collaboration with the Broad Institute at MIT and Harvard and an additional (2X) whole genome coverage from the WUGSC (St. Louis) utilizing a combination of whole genome plasmid reads as well as fosmid and BAC end sequences.
This release of the assembly has the following properties:
As of Release 35 we have changed the chimpanzee chromosome numbering to match the new primate standard proposed by E.H. McConkey (Cytogenetics and Genome Research, 105:157-158) and endorsed by the International Chimpanzee Genome Consortium.
The genome was aligned to human NCBI36 by UCSC using BLASTz. These alignments were used to transfer human ensembl gene structures (Human Build 36f) to chimpanzee. 92% of the chimp-specific proteins were aligned to the chimp genome in a first layer of annotation. The 8% missing correspond to fragments or proteins that contain stop codons in the assembled genome
A number of minor changes have been made to the core databases.
Read more...
Ensembl release 50 will occur in July (rather than in April as originally scheduled).
Read more...
| Assembly: | CHIMP2.1, Mar 2006 |
| Genebuild: | Ensembl, May 2007 |
| Database version: | 49.21h |
| Known protein-coding genes: | 2,577 |
| Projected protein-coding genes: | 16,858 |
| Novel protein-coding genes: | 1,108 |
| Pseudogenes: | 872 |
| RNA genes: | 4,240 |
| Genscan gene predictions: | 126,540 |
| Gene exons: | 239,022 |
| Gene transcripts: | 34,009 |
| SNPs: | 1,520,077 |
| Base Pairs: | 2,928,563,828 |
| Golden Path Length: | 3,350,417,645 |
| Most common InterPro domains: | Top 40 Top 500 |
© 2008 WTSI / EBI. Ensembl is available to download for public use - please see the code licence for details.
