Yeastlink is a comprehensive platform for exploring the genomics of Yarrowia lipolytica, a non-conventional yeast widely used in biotechnology. This project aims to provide researchers with tools to search, visualize, and analyze genomic data across multiple strains, including W29, CLIB122, and DSM3286.
Use the search bar above to find genes by their YALI1, YALI0, YALI2, or KEGG IDs, or common name, or gene description. You can also retrieve sequences for chromosomes, genes, CDS regions, upstream/downstream regions, and introns using the sequence retrieval tool available on the gene details page.
Explore the genome using our integrated JBrowse 2 viewer, which provides detailed visualizations of gene locations and annotations. In W29, RNA-seq tracks are available.
API formats for sequence retrieval (W29/CLIB122/DSM3286 &
ChrA/B/C/D/E/F: only one of these options is allowed):
(1) To retrieve the sequence of a chromosomal region:
chromosome-W29/CLIB122/DSM3286-ChrA/B/C/D/E/F:1000..5000
Example: chromosome-W29-ChrA:1000..5000
(2) To retrieve the sequence of a gene region:
a. gene-W29/CLIB122/DSM3286-YALI1_B16544g
This will render the
gene sequence including exon and intron.
b. gene-W29/CLIB122/DSM3286-YALI1_B16544g:-1000..-1
This will render the upstream (promoter) sequence of a gene.
c. gene-W29/CLIB122/DSM3286-YALI1_B16544g:1..1000
This will render the sequence of a gene from ATG to the 1000th base.
d. gene-W29/CLIB122/DSM3286-YALI1_B16544g:-1000..1000
This will work as well. It will render two or three parts (promoter,
gene, and terminator) of sequences including the promoter region and the
gene region.
(3) To retrieve the coding sequence (CDS) of a gene:
CDS-W29/CLIB122/DSM3286-YALI1_B16544g
(4) To retrieve the upstream sequence of a gene:
upstream-W29/CLIB122/DSM3286-YALI1_B16544g:-1000..-1
This function overlaps with 2b
(5) To retrieve the downstream sequence of a gene:
downstream-W29/CLIB122/DSM3286-YALI1_B16544g:1..300
This will render the terminator sequence of a gene.
(6) To retrieve the sequence of the intron(s) in a gene:
intron-W29/CLIB122/DSM3286-YALI1_B16544g