Cottongen

-- G. davidsonii D3d-8 CRI v1.0 CDs (41,471)

Human-Readable Name	-- G. davidsonii D3d-8 CRI v1.0 CDs (41,471)
Database Path	/mainlab/web/temp/db/cottongen/G.davidsonii_D3d_CRI_v1.0.transcripts.fasta
Database Type	nucleotide
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

Human-Readable Name	-- G. davidsonii D3d-8 CRI v1.0 proteins (41,471)
Database Path	/mainlab/web/temp/db/cottongen/G.davidsonii_D3d_CRI_v1.0.pep.faa
Database Type	protein
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

Human-Readable Name	G. davidsonii D3d-8 CRI v1.0 Genome (13 chrom. and 14 scaffolds)
Database Path	/mainlab/web/temp/db/cottongen/G.davidsonii_D3d_CRI_v1.0_genome.fasta
Database Type	nucleotide
FASTA Header Format	default
External Database	JBrowse for D3d_CRI_v1.0
RegEx	/^(\S+).*/
Link-out Type	jbrowse

Human-Readable Name	G. aridum D4 ISU v1.0 Genome (13 chrom. and 2,289 scaffolds)
Database Path	/mainlab/web/temp/db/cottongen/G.aridum_D4_ISU_v1.0_genome.fasta
Database Type	nucleotide
FASTA Header Format	default
External Database	JBrowse for D4_ISU_v1.0
RegEx	/^(\S+).*/
Link-out Type	jbrowse

Human-Readable Name	-- G. aridum D4 ISU v1.0 CDs (29,559)
Database Path	/mainlab/web/temp/db/cottongen/G.aridum_D4_ISU_v1.0.transcripts.fasta
Database Type	nucleotide
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

Human-Readable Name	-- G. aridum D4 ISU v1.0 proteins (29,559)
Database Path	/mainlab/web/temp/db/cottongen/G.aridum_D4_ISU_v1.0.pep.faa
Database Type	protein
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

New Gossypium thurberi (D1-5) and Gossypium davidsonii (D3D-8) genome and annotation data (Yang, et al. 2021) available.

To view and download Gossypium thurberi (D1-5) genome data, go to: https://www.cottongen.org/species/Gossypium_thurberi/CRI_D1-5

Genome comparison view added in MapViewer. It provides:

1. Marker correspondence view between genetic map and genome scaffold/chromosome, linking to JBrowse

2. Dot plot and Correspondence Matrix for genome comparison when genome enabled in the control panel

3. Downloadable table for marker correspondence with genetic maps and genomes

PhyloGenes contains gene family data for 40 plant species and 10 non-plant model organisms.
Example gene page (click Accession name to view gene family tree)

Human-Readable Name	Transposable Element G.raimodii Sequences (14,332)
Database Path	/mainlab/web/temp/db/cottongen/JAAS_GrTE_14332.fasta
Database Type	nucleotide