Assembly files for the Malus x domestica genome v1.0 pseudo haplotypes are available in both GFF and FASTA format below.
For more information on the files available below, please see the description provided on the psuedo hapolotype assembly details page.
|Primary haplotype pseudomolecules (FASTA file)||Malus_x_domestica.v1.0-primary.pseudo.fa.gz|
|Primary haplotype pseudomolecules (GFF file)||Malus_x_domestica.v1.0-primary.pseudo.gff3.gz|
|Primary haplotype scaffold alignments (GFF file)||Malus_x_domestica.v1.0-primary.scaffolds.gff3.gz|
|Primary haplotype scaffold sequences (FASTA file)||Malus_x_domestica.v1.0-primary.scaffolds.fa.gz|
|Primary haplotype contig alignments (GFF file)||Malus_x_domestica.v1.0-primary.contigs.gff3.gz|
|Repeat Masked pseudomolecules (FASTA file)||Malus_x_domestica.v1.0-primary_masked.fa.gz|
The gene predictions for the pseudo haplotype assemblies are the same consensus set from the original assembly, but have been mapped to the pseudomolecules of the haplotypes.
5' and 3' UTR regions are currently not available for gene models
|Consensus gene model CDSs (FASTA)||Malus_x_domestica.v1.0-primary.CDS.fa.gz|
|Consensus gene model proteins (FASTA)||Malus_x_domestica.v1.0-primary.protein.fa.gz|
|Consensus gene model mRNA (FASTA)||Malus_x_domestica.v1.0-primary.mRNA.fa.gz|
|Consensus gene models (transcripts) (GFF3)||Malus_x_domestica.v1.0-primary.transcripts.gff3.gz|
Repeats were predicted for the original v1.0 combined assembly using read depth information from the genome assembly contigs. The FASTA file of repeats was then used as a repeat library for RepeatMasker which was used to predict repeats on the v1.0 primary haplotype assembly.
|Predicted repeats aligned to chromosomes (GFF file)||Malus_x_domestica.v1.0-primary.repeats.gff3.gz|
|Predicted repeats aligned to chromsomes (FASTA file)||Malus_x_domestica.v1.0-primary.repeats.fa.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.