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Assembly - by genome sequencing project
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Annotation - by genome sequencing project
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| Sequencing Institute and Genome | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Assembly- by sequencing project | D5_BGI | D5_JGI | D5_NSF | D5_ISU | D5_HAU | D5lz_HAU | D5_T2T_PKUnew | ||||
| FASTA Files | |||||||||||
| * Chromosomes + Scaffolds | 13+4434 13+4434.md5 |
13+1020 13+1020.md5 |
13 13.md5 |
13+94504 13+94504.md5 |
13+274 13+274.md5 |
13+274 13+274.md5 |
13 | ||||
| GFF3 | EXCEL | TXT Files | |||||||||||
| * Chromosomes + Scaffolds | 13+4434 13+4434.md5 |
13+1020 13+1020.md5 |
13 | 13+274 13+274.md5 |
13 | ||||||
| Annotation - by sequencing project | D5_BGI | D5_JGI | D5_NSF | D5_ISU | D5_HAU | D5lz_HAU | D5_T2T_PKUnew | ||||
| FASTA Files | |||||||||||
| * Predicted coding sequences | 40,976 | 77,267 | 41.030 | 26,065 | 40,820 | 50,451 | 53,167 | ||||
| * Predicted protein sequences | 40,976 | 77,267 | 41,030 | 26,065 | 40,820 | 50,451 | 53,167 | ||||
| * Predicted gene sequences | 37,505 | 51,120 | |||||||||
| GFF3 | EXCEL | TXT Files | |||||||||||
| * Predicted gene alignments | FTP | FTP | |||||||||
| * Predicted gene with exon alignments | FTP | FTP | FTP | FTP | FTP | FTP | |||||
| Annotation - by CottonGen Team | D5_BGI | D5_JGI | D5_NSF | D5_ISU | D5_HAU | D5lz_HAU | D5_T2T_PKUnew | ||||
| GFF3 | EXCEL | TXT files | |||||||||||
| * Functional | |||||||||||
| - GO from InterProScan | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - IPR from InterProScan | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - Genes in KEGG Pathways | FTP | FTP | FTP | FTP | FTP | FTP | |||||
| - Genes mapped to KEGG orthologs | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| * Marker Alignments | |||||||||||
| - RFLP-RAD (v. 11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - SSR (v.11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - SNP (v. 11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - InDel (v.11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| * Protein Homologies | |||||||||||
| - Arabidopsis thaliana Araport11 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - NCBI nr-all (m/yy = 5/18) | FTP | FTP | FTP | FTP | FTP | FTP (9/21) | |||||
| - Uniprot swissprot-all (1/19) | FTP | FTP | FTP | FTP | FTP | FTP (9/21) | FTP | ||||
| - Uniprot trembl-all (1/19) | FTP | FTP | FTP | FTP | FTP | FTP (9/21) | FTP | ||||
| * Unigene & Transcript Alignments | |||||||||||
| - G.arboreum RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - G.barbadense RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - G.hirsutum RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| - G.raimondii RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||