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  • About Giant Panda

    The giant panda, who takes bamboo as its main dietary and often behave in a kindly style, is a much loved animal all over the world and is considered a symbol of China, as illustrated by its being one of the mascots for the 2008 Olympics in Beijing. However, it is also one of the world's most endangered species, a flagship species for conservation. The latest molecular censusing research using fecal samples and nine microsatellite loci shows that the estimated number of wild pandas is about 2,500?3,000, confined to fragmented mountain habitats in Western China because of ecological and anthropogenic pressure.

    On October 11th, 2008, Beijing Genomics Institute at Shenzhen (BGI-Shenzhen) announced the completion of first draft genome sequence of a female giant panda named Jingjing, who is 3 years old and chosen from the Chengdu and Wolong breeding centers, using the next-generateion sequencing technology (Illumina GA) and the self-developed short reads assembly method.

    We set up this database to present the entire panda genome sequence, as well as the annotation information such as gene structure and functions, non-coding RNAs and repeat elements. The polymorphism information detected in the diploid genome, such as SNPs, Indels, and Structural variations (SV) were also presented. We illustrated the panda genome data in a MapView, which is powered by Google Web Toolkit . A new module was developed to browse large-scale short reads alignment. This module enabled users track detailed divergences between consensus and sequencing reads.

    As the first fully sequenced Ursidae and the second Carnivore animal besides dog, the whole genome sequence and annotation data will provide an unparalleled amount of information to aid in understanding the genetic and biological underpinnings of this unique species, and contribute much to the disease control and conservation efforts for this endangered species.

    Assembly statistics (version: AilMel 1.0)
      Number Size (bp)
    Contig total 200,603 2,245,302,481
    Contig N50 16,105 39,886
    Contig N90 58,757 9,848
    Scaffold total 81,469 2,299,498,912
    Scaffod N50 521 1,281,781
    Scaffod N90 1,867 312,670
    Annotation statistics (version: AilMel 1.0)
      Number Size (bp)
    Genes 21,001 31,052,448
    ncRNAs 1,448 137,352
    Repbase TEs 3,104,061 779,790,576
    SNP 2,682,349 2,682,349
    Indel(1-6bp) 267,958 451,943
    SV(>100bp) 4,379 1,320,687

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