Malus x domestica WA 38 Genome v1.0 Assembly & Annotation

Overview
Analysis NameMalus x domestica WA 38 Genome v1.0 Assembly & Annotation
MethodHifiasm (v0.16.1)
SourceOmni-C data; PacBio HiFi long reads
Date performed2024-04-11

Manuscript:  Zhang, H., Eaker, A., Ko, I., Haney, S., Khuu, N., Ryan, K., Appleby, A., Hoffmann, B., Landis, H., Pierro, K., Willsea, N., Hargarten, H., Yocca, A., Harkess, A., Honaas, L., Ficklin S., A Phased, Chromosome-scale Genome Assembly for Malus domestica, ‘WA 38’. (Available on BioRxiv. DOI: 10.1101/2024.01.10.574953.)

Assembly

The Malus x domestica WA 38 Genome v1.0 assembly files are available in FASTA format.

Downloads

Chromosomes (haplome A) (FASTA file) Malus_x_domestica_WA_38_HAP1_v1.0.a1.fasta.gz
Chromosomes (haplome B) (FASTA file) Malus_x_domestica_WA_38_HAP2_v1.0.a1.fasta.gz
Chromosomes (haplome A) (softmasked FASTA file) Malus_x_domestica_WA_38_HAP1_v1.0.a1.softmasked.fasta.gz
Chromosomes (haplome B) (softmasked FASTA file) Malus_x_domestica_WA_38_HAP2_v1.0.a1.softmasked.fasta.gz
Chromosomes (haplome A) (Xmasked FASTA file) Malus_x_domestica_WA_38_HAP1_v1.0.a1.Xmasked.fasta.gz
Chromosomes (haplome B) (Xmasked FASTA file) Malus_x_domestica_WA_38_HAP2_v1.0.a1.Xmasked.fasta.gz
Chromosomes (haplome A) (Repeat FASTA file) Malus_x_domestica_WA_38_HAP1_v1.0.a1.repeat.fasta.gz
Chromosomes (haplome B) (Repeat FASTA file) Malus_x_domestica_WA_38_HAP2_v1.0.a1.repeat.fasta.gz
Chromosomes (haplome A) (TE FASTA file) Malus_x_domestica_WA_38_HAP1_v1.0.a1.EDTA.TElib.fasta.gz
Chromosomes (haplome B) (TE FASTA file) Malus_x_domestica_WA_38_HAP2_v1.0.a1.EDTA.TElib.fasta.gz
Gene Predictions

The Malus x domestica WA 38 v1.0.a1 genome gene prediction file are available in GFF3 and FASTA format.

Downloads

Genes (haplome A) (GFF3 file) WA_38_HAP1_v1.0.a1.genes.gff3.gz
Genes (haplome A) (GFF3 file) WA_38_HAP2_v1.0.a1.genes.gff3.gz
Gene sequences (haplome A) (FASTA file) WA_38_HAP1_v1.0.a1.gene.fna.gz
Gene sequences (haplome B) (FASTA file) WA_38_HAP2_v1.0.a1.gene.fna.gz
Protein sequences (haplome A) (FASTA file) WA_38_HAP1_v1.0.a1.protein.faa.gz
Protein sequences (haplome B) (FASTA file) WA_38_HAP2_v1.0.a1.protein.faa.gz
mRNA sequences (haplome A) (FASTA file) WA_38_HAP1_v1.0.a1.mRNA.fna.gz
mRNA sequences (haplome B) (FASTA file) WA_38_HAP2_v1.0.a1.mRNA.fna.gz
CDS sequences (haplome A) (FASTA file) WA_38_HAP1_v1.0.a1.cds.fna.gz
CDS sequences (haplome B) (FASTA file) WA_38_HAP2_v1.0.a1.cds.fna.gz