Citrus medica genome v1.0

Overview
Analysis NameCitrus medica genome v1.0
Methodwhole genome shotgun, Illumina (Assembly with SOAPdenovo and QUAKE)
SourceHuazhong Ag. Univ.
Date performed2017-04-10

 

About the assembly

For this genome, please cite Wang et al, Genomic analyses of primitive, wild and cultivated citrus provide insights into asexual reproduction.  This data was downloaded from the Citrus sinensis Annotation Project website.  Please see the links to the left to view the genome in JBrowse.  This data is also on NCBI under BioProject PRJNA320023, listed BioSample cultivar designation is XZ.

Assembly metrics

Assembly size 406 Mb
Number of scaffolds 32,732
N50 369,527 bp
Predicted transcripts 47,506
Annotated genes 32,579
Assembly BUSCO score (embryophyta_odb10)  
Annotation BUSCO score (embryophyta_odb10) 95.5%
Properties
Additional information about this analysis:
Property NameValue
JBrowse URLhttps://www.citrusgenomedb.org/jbrowse/index.html?data=data%2FCmedica_Hzau_v1.0&loc=
Analysis Typewhole_genome
Download

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.