Citrus reticulata genome v1.0

Analysis NameCitrus reticulata genome v1.0
Methodwhole genome shotgun sequencing, Illumina (Assembly with Platanus and GapCloser)
SourceHuazhong Ag. Univ.
Date performed2018-07-09


About the assembly

For this genome, please cite Wang et al, Genome of wild mandarin and domestication history of mandarin.  This data was downloaded from the Citrus sinensis Annotation Project website.  This data is also on NCBI under BioProject PRJNA388397, listed BioSample cultivar designation is Mangshan (sample = MSYJ).  Manuscript states accession WM01 was sequenced.

Assembly metrics

Assembly size 347 Mb
Number of scaffolds 90,139
N50 1,585,532 bp
Predicted transcripts 42,653
Annotated genes 28,833
Assembly BUSCO score (embryophyta_odb10) 98.5%
Annotation BUSCO score (embryophyta_odb10) 95.2%

To download the genome assembly and annotation files, please visit the CGD data repository.

Homology Analysis:

The protein homolog searches were performed using BLAST (e-value cutoff of 1e-6) and the Swissprot and TrEMBL protein databases by the Main Bioinformatics Lab.  Results were parsed into an Excel format.