Daphnia magna (Jan 2019) water flea (SK v1.0) genome assembly
The files listed below are formatted for visualization in the Integrated Genome Browser, available from BioViz.org.
The file named D_magna_Jan_2019.2bit contains sequence data from ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/003/990/815/GCA_003990815.1_ASM399081v1/GCA_003990815.1_ASM399081v1_genomic.fna.gz. To convert a .2bit to fasta, use twoBitToFa. The file genome.txt lists sequences and their sizes and was made from D_magna_Jan_2019.2bit sequence file using twoBitInfo. Both twoBitInfo and twoBitToFa are available from http://hgdownload.cse.ucsc.edu/admin/exe/.
The file named D_magna_Jan_2019.bed.gz contains gene models obtained from http://rotifer.skku.edu:8080/Dm_genome_v1.0.gff. Files with extension .gz were compressed and indexed using bgzip and tabix tools from htslib.org.
Data associated with paper: The genome of the freshwater water flea Daphnia magna: A potential use for freshwater molecular ecotoxicology
Name | Last modified | Size | Description | |
---|---|---|---|---|
Parent Directory | - | |||
annots.xml | 2023-06-16 14:01 | 472 | Annotation and data file list | |
D_magna_Jan_2019.bed.gz | 2023-06-16 14:01 | 840K | Annotation or junction file | |
genome.txt | 2023-06-16 14:01 | 81K | Chromosome lengths and assembly information | |
D_magna_Jan_2019.2bit | 2023-06-16 14:01 | 35M | Sequence data in blat 2bit format | |
D_magna_Jan_2019.bed.gz.tbi | 2023-06-16 14:01 | 29K | Tabix index file |