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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 | A1_WHU | A1_USDA | A1_HAUnew | A1a_HAUnew | A2_BGI | A2_CRI | A2_WHU | A2_HAU | A2_HAU.2new | ||
| FASTA Files | |||||||||||
| * Chromosomes + Scaffolds | 13+719 13+719.md5 |
13 13.md5 |
13+651 | 12+600 | 13+75,581 13+75,581.md5 |
13+4,503 13+4,503.md5 |
13+1256 13+1256.md5 |
13+935 13+935.md5 |
13+933 13+933.md5 |
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| GFF3 | EXCEL | TXT Files | |||||||||||
| * Chromosomes + Scaffolds | 13+75,581 | 13+933 13+933.md5 |
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| Annotation - by sequencing project | A1_WHU | A1_USDA | A1_HAUnew | A1a_HAUnew | A2_BGI | A2_CRI | A2_WHU | A2_HAU | A2_HAU.2new | ||
| FASTA Files | |||||||||||
| * Predicted coding sequences | 43,952 | 39,100 | 41,949 | 41,647 | 40,134 | 40,960 | 43,278 | 41,778 | 49,176 49,176.md5 |
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| * Predicted protein sequences | 43,952 | 39,100 | 41,949 | 41,647 | 40,134 | 40,960 | 43,278 | 41,778 | 49,176 49,176.md5 |
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| * Predicted gene sequences | |||||||||||
| GFF3 | EXCEL | TXT Files | |||||||||||
| * Predicted gene alignments | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||||
| * Predicted gene with exon alignments | FTP | FTP | |||||||||
| Annotation - by CottonGen Team | A1_WHU | A1_USDA | A1_HAUnew | A1a_HAUnew | A2_BGI | A2_CRI | A2_WHU | A2_HAU | A2_HAU.2new | ||
| GFF3 | EXCEL | TXT files | |||||||||||
| * Functional | |||||||||||
| - GO from InterProScan | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | |||
| - IPR from InterProScan | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - Genes in KEGG Pathways | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - Genes mapped to KEGG orthologs | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| * Marker Alignments | |||||||||||
| - RFLP-RAD (v. 11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - SSR (v.11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - SNP (v. 11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - InDel (v.11/18) | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| * Protein Homologies | |||||||||||
| - Arabidopsis thaliana Araport11 | FTP | FTP | FTP | FTP | FTP | FTP(tair10) | FTP | FTP | FTP | ||
| - NCBI nr-all (m/yy = 5/18) | FTP | FTP (9/21) | FTP | FTP | FTP | FTP | FTP(9/21) | ||||
| - Uniprot swissprot-all (1/19) | FTP | FTP (9/21) | FTP | FTP | FTP | FTP | FTP | FTP | FTP(9/21) | ||
| - Uniprot trembl-all (1/19) | FTP | FTP(9/21) | FTP | FTP | FTP | FTP | FTP | FTP | FTP(9/21) | ||
| * Unigene & Transcript Alignments | |||||||||||
| - G.arboreum RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - G.barbadense RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - G.hirsutum RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||
| - G.raimondii RefTrans v1 | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | FTP | ||