DOI: 10.5281/zenodo.10802232
title: Two independent origins of XY sex chromosomes in Asparagus

description: File  Contents

Ahor_pb32m_HAP1_v1.0.chrY_regions.bed.gz  Y chromosome nonrecombining region coordinatesAhor_pb32m_HAP1_v1.0.EDTA.TEanno.gff3.gz  All TE annotations by EDTAAhor_pb32m_HAP1_v1.0.EDTA.TEintact.fa.gz  Intact TE sequences by EDTAAhor_pb32m_HAP1_v1.0.EDTA.TEintact.gff3.gz  Intact TE annotations by EDTAAhor_pb32m_HAP1_v1.0.entap_results.tsv  Reciprocal functional gene annotations by EnTAPAhor_pb32m_HAP1_v1.0.fa.gz  Haplotype assembly fasta fileAhor_pb32m_HAP1_v1.0.ISOFORMS.bed.gz  Filtered gene annotations - all isoformsAhor_pb32m_HAP1_v1.0.ISOFORMS.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - all isoformsAhor_pb32m_HAP1_v1.0.ISOFORMS.gff3.gz  Filtered gene annotations - all isoformsAhor_pb32m_HAP1_v1.0.ISOFORMS.peptides.fa.gz  Filtered gene annotations (protein sequences) - all isoformsAhor_pb32m_HAP1_v1.0.PRIMARY.bed.gz  Filtered gene annotations - longest isoforms onlyAhor_pb32m_HAP1_v1.0.PRIMARY.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - longest isoforms onlyAhor_pb32m_HAP1_v1.0.PRIMARY.gff3.gz  Filtered gene annotations - longest isoforms onlyAhor_pb32m_HAP1_v1.0.PRIMARY.peptides.fa.gz  Filtered gene annotations (protein sequences) - longest isoforms onlyAhor_pb32m_HAP1_v1.0.RM.TE.gff.gz  All TE annotations by RepeatMaskerAhor_pb32m_HAP2_v1.0.chrX_regions.bed.gz  X chromosome nonrecombining region coordinatesAhor_pb32m_HAP2_v1.0.EDTA.TEanno.gff3.gz  All TE annotations by EDTAAhor_pb32m_HAP2_v1.0.EDTA.TEintact.fa.gz  Intact TE sequences by EDTAAhor_pb32m_HAP2_v1.0.EDTA.TEintact.gff3.gz  Intact TE annotations by EDTAAhor_pb32m_HAP2_v1.0.entap_results.tsv  Reciprocal functional gene annotations by EnTAPAhor_pb32m_HAP2_v1.0.fa.gz  Haplotype assembly fasta fileAhor_pb32m_HAP2_v1.0.ISOFORMS.bed.gz  Filtered gene annotations - all isoformsAhor_pb32m_HAP2_v1.0.ISOFORMS.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - all isoformsAhor_pb32m_HAP2_v1.0.ISOFORMS.gff3.gz  Filtered gene annotations - all isoformsAhor_pb32m_HAP2_v1.0.ISOFORMS.peptides.fa.gz  Filtered gene annotations (protein sequences) - all isoformsAhor_pb32m_HAP2_v1.0.PRIMARY.bed.gz  Filtered gene annotations - longest isoforms onlyAhor_pb32m_HAP2_v1.0.PRIMARY.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - longest isoforms onlyAhor_pb32m_HAP2_v1.0.PRIMARY.gff3.gz  Filtered gene annotations - longest isoforms onlyAhor_pb32m_HAP2_v1.0.PRIMARY.peptides.fa.gz  Filtered gene annotations (protein sequences) - longest isoforms onlyAhor_pb32m_HAP2_v1.0.RM.TE.gff.gz  All TE annotations by RepeatMaskerAoff_pb81m_HAP1_v1.0.chrX_regions.bed.gz  X chromosome nonrecombining region coordinatesAoff_pb81m_HAP1_v1.0.EDTA.TEanno.gff3.gz  All TE annotations by EDTAAoff_pb81m_HAP1_v1.0.EDTA.TEintact.fa.gz  Intact TE sequences by EDTAAoff_pb81m_HAP1_v1.0.EDTA.TEintact.gff3.gz  Intact TE annotations by EDTAAoff_pb81m_HAP1_v1.0.entap_results.tsv  Reciprocal functional gene annotations by EnTAPAoff_pb81m_HAP1_v1.0.fa.gz  Haplotype assembly fasta fileAoff_pb81m_HAP1_v1.0.ISOFORMS.bed.gz  Filtered gene annotations - all isoformsAoff_pb81m_HAP1_v1.0.ISOFORMS.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - all isoformsAoff_pb81m_HAP1_v1.0.ISOFORMS.gff3.gz  Filtered gene annotations - all isoformsAoff_pb81m_HAP1_v1.0.ISOFORMS.peptides.fa.gz  Filtered gene annotations (protein sequences) - all isoformsAoff_pb81m_HAP1_v1.0.PRIMARY.bed.gz  Filtered gene annotations - longest isoforms onlyAoff_pb81m_HAP1_v1.0.PRIMARY.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - longest isoforms onlyAoff_pb81m_HAP1_v1.0.PRIMARY.gff3.gz  Filtered gene annotations - longest isoforms onlyAoff_pb81m_HAP1_v1.0.PRIMARY.peptides.fa.gz  Filtered gene annotations (protein sequences) - longest isoforms onlyAoff_pb81m_HAP1_v1.0.RM.TE.gff.gz  All TE annotations by RepeatMaskerAoff_pb81m_HAP2_v1.0.chrY_regions.bed.gz  Y chromosome nonrecombining region coordinatesAoff_pb81m_HAP2_v1.0.EDTA.TEanno.gff3.gz  All TE annotations by EDTAAoff_pb81m_HAP2_v1.0.EDTA.TEintact.fa.gz  Intact TE sequences by EDTAAoff_pb81m_HAP2_v1.0.EDTA.TEintact.gff3.gz  Intact TE annotations by EDTAAoff_pb81m_HAP2_v1.0.entap_results.tsv  Reciprocal functional gene annotations by EnTAPAoff_pb81m_HAP2_v1.0.fa.gz  Haplotype assembly fasta fileAoff_pb81m_HAP2_v1.0.ISOFORMS.bed.gz  Filtered gene annotations - all isoformsAoff_pb81m_HAP2_v1.0.ISOFORMS.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - all isoformsAoff_pb81m_HAP2_v1.0.ISOFORMS.gff3.gz  Filtered gene annotations - all isoformsAoff_pb81m_HAP2_v1.0.ISOFORMS.peptides.fa.gz  Filtered gene annotations (protein sequences) - all isoformsAoff_pb81m_HAP2_v1.0.PRIMARY.bed.gz  Filtered gene annotations - longest isoforms onlyAoff_pb81m_HAP2_v1.0.PRIMARY.CDS.fa.gz  Filtered gene annotations (protein coding nucleotides) - longest isoforms onlyAoff_pb81m_HAP2_v1.0.PRIMARY.gff3.gz  Filtered gene annotations - longest isoforms onlyAoff_pb81m_HAP2_v1.0.PRIMARY.peptides.fa.gz  Filtered gene annotations (protein sequences) - longest isoforms onlyAoff_pb81m_HAP2_v1.0.RM.TE.gff.gz  All TE annotations by RepeatMaskerAhorridus_MSY_CODEML.zip  CODEML M2a output for 11 MSY genes with evidence of positive selection in Asparagus horridus