Genome and gene annotation data

Satsuma mandarin cv. Miyagawa-Wase Kishu-derived haploid genome (CUNphKi r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

Satsuma mandarin cv. Miyagawa-Wase Kunenbo-derived haploid genome (CUNphKu r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

Pairs of Kishu- and Kunenbo-derived alleles in the CUNphKi and CUNphKu genomes

• AllelePairs_CUNphKi-Ku_r2.0.tsv.gz

Kishu mandarin haploid 1 genome (CKIhap1 r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

Kishu mandarin haploid 2 genome (CKIhap2 r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

Kunenbo haploid 1 genome (CKUhap1 r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

Kunenbo haploid 2 genome (CKUhap2 r2.0)

• Genome assembly(repeat masked, FASTA)
  
  
• Gene annotation (all transcripts, GFF3)
• Gene functional annotation (all transcripts, TSV)
• Nucleotide transcript sequences (all transcripts, FASTA)
• Nucleotide CDS sequences (all transcripts, FASTA)
• Protein sequences (all transcripts, FASTA)
  
  
• Gene annotation (only primary transcripts, GFF3)
• Gene functional annotation (only primary transcripts, TSV)
• Nucleotide transcript sequences (only primary transcripts, FASTA)
• Nucleotide CDS sequences (only primary transcripts, FASTA)
• Protein sequences (only primary transcripts, FASTA)

C. unshiu (v1.0)

• Genome assembly (.fa.gz)
• Genome annotation (.gff3.gz)
• Genome annotation (only Note, GO, InterPro and BLAST) (.tsv.gz)
• Nucleotide exon sequences (.fa.gz)
• Nucleotide CDS sequences (.fa.gz)
• Protein sequences (.fa.gz)
• DNA marker information (.gff.gz)

P. trifoliata (v1.0)

• Genome assembly (.fa.gz)
• Genome annotation (.gff3.gz)
• Genome annotation (only Note, GO, InterPro and BLAST) (.tsv.gz)
• Nucleotide exon sequences (.fa.gz)
• Nucleotide CDS sequences (.fa.gz)
• Protein sequences (.fa.gz)

C. clementina (only MEGANTE annotation on JGI v1.0)

• Genome annotation by MEGANTE (only scaffold 1-9) (.gff3.gz)
• Genome annotation (only Note, GO, InterPro and BLAST) (.tsv.gz)
• Nucleotide exon sequences (.fa.gz)
• Nucleotide CDS sequences (.fa.gz)
• Protein sequences (.fa.gz)

Other data presented in our paper

• Gene groups among C. clementina, C. unshiu and P. trifoliata