Other D-genomes

Table Contents (Click to view)

Assembly - by genome sequencing project
Annotation - by genome sequencing project
CottonGen Annotation

	Sequencing Institute and Genome
Assembly- by sequencing project	D1-35	D1-5	D21-6	D22	D3D-27	D3D-8	D3K-57	D4-185	D6-5	D7-157	D8-8	D9-4	D10-3	D11-1
FASTA Files
* Chromosomes + Scaffolds	13	13+11	13+1,349	13+2,572	13+314,782	13+14	13+316,806	13+382,310	13+344,886	13+380,345	13+290,385	13+470,369	13	13+332,944
Annotation - by sequencing project	D1-35	D1-5	D21-6	D22	D3D-27	D3D-8	D3K-57	D4-185	D6-5	D7-157	D8-8	D9-4	D10-3	D11-1
FASTA Files
* Predicted coding sequences	31,520	41,316	25,464	31,153	34,870	41,471	34,902	29,559	24,986	30,295	32,895	28,512	38,871	35,775
* Predicted protein sequences	31,520	41,316	25,464	31,153	34,870	41,471	34,902	29,559	24,986	30,295	32,895	28,512	38,871	35,775
* Predicted gene sequences													39,692
GFF3 \| EXCEL \| TXT
* Predicted gene alignments
* Predicted gene with exon alignments	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP	FTP
Annotation - by CottonGen Team	D1-35	D1-5	D21-6	D22	D3D-27	D3D-8	D3K-57	D4-185	D6-5	D7-157	D8-8	D9-4	D10-3	D11-1
GFF3 \| EXCEL \| TXT files
* Functional
- GO assignments from InterProScan	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- IPR assignments from InterProScan	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- Genes in KEGG Pathways	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- Genes mapped to KEGG orthologs	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
* Marker Alignments
- CottonGen RFLP-RAD markers (v. 11/18)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- CottonGen SSR markers (v.11/18)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- CottonGen SNP markers (v. 11/18)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- CottonGen InDel markers (v.11/18)	FTP	FTP		FTP		FTP			FTP	FTP	FTP	FTP	FTP	FTP
* Protein Homologies
- Arabidopsis thaliana Araport11	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- NCBI nr-all (v. m/yy = 5/18)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- Uniprot swissprot-all (v.1/19)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- Uniprot trembl-all (v.1/19)	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
* Unigene & Transcript Alignments
- G. arboreum CottonGen RefTrans v1	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- G. barbadense CottonGen RefTrans v1	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- G. hirsutum CottonGen RefTrans v1	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP
- G. raimondii CottonGen RefTrans v1	FTP	FTP	FTP	FTP		FTP		FTP	FTP	FTP	FTP	FTP	FTP	FTP

Search form