Cascade genome assembled from PacBio long reads with FALCON-Unzip


         Download assembly     Masked, deduplicated assembly containing 8836 primary contigs (FASTA: 3.82Gb)


Repeats identified with RepeatMasker and LTRharvest


         Download repeat coordinates      (GFF: 451.80 Mb)


Cascade gene models predicted with Augustus


         Download transcript sequences      (FASTA: 57.64Mb)

         Download CDS      (FASTA: 37.07Mb)

         Download peptide sequences      (FASTA: 23.53Mb)


         RNA-seq aligned to primary contig assembly with HISAT2 and assembled into transcripts with StringTie


         Download merged StringTie transcripts from leaf, meristem, and stem     GFF3: 32.72Mb

         Download StringTie leaf transcripts     GFF3: 3.17Mb

         Download StringTie meristem transcripts     GFF3: 3.98Mb

         Download StringTie stem transcripts     GFF3: 3.77Mb


         Primary contigs aligned to UniProt proteins with blastp


         Download UniProt alignments     GFF3: 127.44Mb