Panda assembly and gene annotation


ailMel1 (GCA_000004335.1) is an assembly of the giant panda, sequenced using a three-year-old female panda at China's Chengdu breeding center. The genome sequencing and assembly are provided by the Bejing Genomics Institute (BGI).

The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 size of the scaffolds is 1.3Mb. The total length of all scaffolds is 2.3Gb, for a genome size estimated to be 2.4Gb.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000004335.1

Gene annotation

The gene set for panda was built using the Ensembl pipeline. Gene models are based on genewise alignments of mammal proteins as well as genetically distance proteins from other species, including most vertebrate proteins from Uniprot. Additionally, dog and human proteins were aligned using exonerate.

Potentially missing predictions and partial gene predictions were identified by examining the orthologs, which were then used to build new gene models.

More information

General information about this species can be found in Wikipedia.



AssemblyailMel1, INSDC Assembly GCA_000004335.1, Jul 2009
Database version82.1
Base Pairs2,245,312,831
Golden Path Length2,299,509,015
Genebuild byEnsembl
Genebuild methodFull genebuild
Genebuild startedJan 2010
Genebuild releasedOct 2010
Genebuild last updated/patchedDec 2011

Gene counts

Coding genes19,343
Non coding genes3,141
Small non coding genes2,783
Misc non coding genes358
Gene transcripts25,055


Genscan gene predictions52,637