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

[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[   ]annots.xml2023-06-16 14:01 472 Annotation and data file list
[   ]D_magna_Jan_2019.bed.gz2023-06-16 14:01 840KAnnotation or junction file
[TXT]genome.txt2023-06-16 14:01 81KChromosome lengths and assembly information
[   ]D_magna_Jan_2019.2bit2023-06-16 14:01 35MSequence data in blat 2bit format
[   ]D_magna_Jan_2019.bed.gz.tbi2023-06-16 14:01 29KTabix index file
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