Cerasus x yedoensis Somei-Yoshino genome v1.0 cds

Human-Readable NameCerasus x yedoensis Somei-Yoshino genome v1.0 cds
Database NameCerasus_x_yedoensis-v1.0.cds.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseGDR
RegEx/^(\S+).*/
Link-out Typelink

Cerasus x yedoensis Somei-Yoshino genome v1.0 proteins

Human-Readable NameCerasus x yedoensis Somei-Yoshino genome v1.0 proteins
Database NameCerasus_x_yedoensis-v1.0.proteins.faa
Database Typeprotein
FASTA Header Formatdefault
External DatabaseJBrowse for Cerasus x yedoensis v1.0 genome
RegEx/^(\S+).*/
Link-out Typejbrowse

Cerasus x yedoensis Somei-Yoshino genome v1.0 chromosomes

Human-Readable NameCerasus x yedoensis Somei-Yoshino genome v1.0 chromosomes
Database NameCerasus_x_yedoensis-v1.0.pseudomolecule.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseJBrowse for Cerasus x yedoensis v1.0 genome
RegEx/^(\S+).*/
Link-out Typejbrowse

About the Assembly

The phased genome sequence of an interspecific hybrid, the flowering cherry ‘Somei-Yoshino’ (Cerasus × yedoensis) is reported. The sequence data were obtained by single-molecule real-time sequencing technology, split into two subsets based on genome information of the two probable ancestors, and assembled to obtain two haplotype phased genome sequences of the interspecific hybrid. The resultant genome assembly consisting of the two haplotype sequences spanned 690.1 Mb with 4,552 contigs and an N50 length of 1.0 Mb. We predicted 95,076 high-confidence genes, including 94.9% of the core euka... [more]

Resource Titles: 
Assembly
Gene Predictions
Downloads
Homology
Transcript Alignments
Functional Analysis
Resource Blocks: 

The Cerasus x yedoensis Genome v1.0 assembly files are available in FASTA format and GFF3 format.

Downloads

Pseudomolecule (FASTA file) cyedoensis-v1.0.fasta.gz
Repeats (FASTA file) cyedoensis-v1.0.repeats.gff.gz

 

The Cerasus x yedoensis v1.0 genome gene prediction files are available in FASTA and GFF3 formats.

Downloads

Protein sequences  (FASTA file) cyedoensis-v1.0.proteins.fasta.gz
CDS (FASTA file) cyedoensis-v1.0.CDs.fasta.gz
Genes (GFF3 file) cyedoensis-v1.0.genes.gff3.gz

 

All assembly and annotation files are available for download by selecting the desired data type in the right-hand "Resources" side bar.  Each data type page will provide a description of the available files and links do download.  Alternatively, you can use the FTP repository for bulk download.

Homology of the Cerasus x yedoensis genome v1.0 proteins was determined by pairwise sequence comparison using the blastp algorithm against various protein databases. An expectation value cutoff less than 1e-9 was used for the NCBI nr (Release 2018-05) and 1e-6  for the Arabidoposis proteins (TAIR10), UniProtKB/SwissProt (Release 2019-01), and UniProtKB/TrEMBL (Release 2019-01) databases. The best hit reports are available for download in Excel format. 

 

Protein Homologs

Cerasus x yedoensis v1.0 proteins with NCBI nr homologs (EXCEL file) Cyedoensis-v1.0_vs_nr.xlsx.gz
Cerasus x yedoensis v1.0 proteins with NCBI nr (FASTA file) Cyedoensis-v1.0_vs_nr_hit.fasta.gz
Cerasus x yedoensis v1.0 proteins without NCBI nr (FASTA file) Cyedoensis-v1.0_vs_nr_noHit.fasta.gz
Cerasus x yedoensis v1.0 proteins with arabidopsis (Araport11) homologs (EXCEL file) Cyedoensis-v1.0_vs_arabidopsis.xlsx.gz
Cerasus x yedoensis v1.0 proteins with arabidopsis (Araport11) (FASTA file) Cyedoensis-v1.0_vs_arabidopsis_hit.fasta.gz
Cerasus x yedoensis v1.0 proteins without arabidopsis (Araport11) (FASTA file) Cyedoensis-v1.0_vs_arabidopsis_noHit.fasta.gz
Cerasus x yedoensis v1.0 proteins with SwissProt homologs (EXCEL file) Cyedoensis-v1.0_vs_swissprot.xlsx.gz
Cerasus x yedoensis v1.0 proteins with SwissProt (FASTA file) Cyedoensis-v1.0_vs_swissprot_hit.fasta.gz
Cerasus x yedoensis v1.0 proteins without SwissProt (FASTA file) Cyedoensis-v1.0_vs_swissprot_noHit.fasta.gz
Cerasus x yedoensis v1.0 proteins with TrEMBL homologs (EXCEL file) Cyedoensis-v1.0_vs_trembl.xlsx.gz
Cerasus x yedoensis v1.0 proteins with TrEMBL (FASTA file) Cyedoensis-v1.0_vs_trembl_hit.fasta.gz
Cerasus x yedoensis v1.0 proteins without TrEMBL (FASTA file) Cyedoensis-v1.0_vs_trembl_noHit.fasta.gz

 

Contact

Prunus dulcis Lauranne genome v1.0.a1 genes

Human-Readable NamePrunus dulcis Lauranne genome v1.0.a1 genes
Database Namepdulcis_lauranne_v1.0.gene.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseGDR
RegEx/^(\S+).*/
Link-out Typelink