Poncirus trifoliata genome v1.3.1 (JGI)

Analysis NamePoncirus trifoliata genome v1.3.1 (JGI)
MethodPacbio, Illumina HiSeq2500, Hi-C (Assembly with Falcon)
SourceJGI-Phytozome, Poncirus trifoliata v1.3.1 (DPI 50-7)
Date performed2020-11-04


About the assembly

For this genome, please cite Peng et al. 2020. A Chromosome-scale Reference Genome of Trifoliate Orange (Poncirus trifoliata) Provides Insights into Disease Resistance, Cold Tolerance and Genome Evolution in Citrus.  The original data can be found on the JGI Phytozome website.  Please see the links to the left to download assembly and analysis files, view the PathwayCyc, and view the genome in JBrowse.

Assembly size  265 Mb
Number of scaffolds 152
N50 27,685,527 bp
Predicted transcripts 33,229
Annotated genes 25,537
Assembly BUSCO score (embryophyta_odb10) 98.4%
Annotation BUSCO score (embryophyta_odb10) 98.8%

Below are links to data files related to this genome assembly.  These files can also be accessed and downloaded from the CGD data repository.  This page has links to the files that are most commonly downloaded.  The CGD data repository has more files available.

JGI Genome Assembly, P. trifoliata v1.3.1

To download all the original genome assembly and annotation files, please visit the JGI Phytozome website.  The files below have been modified by CGD.

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.