Arabidopsis lyrata (Apr 2011) version 1.0 (Aryl1) genome assembly
The files listed below are formatted for visualization in the Integrated Genome Browser, available from BioViz.org.
The gene model annotation file (A_lyrata_Apr_2011.bed.gz) was made from GFF and gene information files from Phytozome.
The file named annotation.gtf.gz is from iPlant. It has been sorted, compressed with bgzip, and indexed using tabix for faster loading into IGB.
The file named A_lyrata_Apr_2011.2bit contains sequence data. It was made from fasta file from iPlant/Ensembl. To convert it back to fasta, use twoBitToFa.
The file genome.txt lists sequences and their sizes and was made from the 2bit sequence file using twoBitInfo.You can get twoBitInfo, twoBitToFa, faToTwoBit, and related programs from http://hgdownload.cse.ucsc.edu/admin/exe/.
For more information about the sequence and annotation files, see the repository named Alyrata hosted at BitBucket. Also see this Biostars post.
![[ICO]](/styling/icons/blank.svg){kind=icon} | Name | Last modified | Size | Description |
|---|---|---|---|---|
![[PARENTDIR]](/styling/icons/glyphicon-circle-arrow-up.svg){kind=icon} | Parent Directory | - | ||
![[ ]](/styling/icons/glyphicon-file.svg){kind=icon} | A_lyrata_Apr_2011.2bit | 2023-06-16 14:26 | 49M | Sequence data in blat 2bit format |
![[ ]](/icons/compressed.gif){kind=icon} | A_lyrata_Apr_2011.bed.gz | 2023-06-16 14:26 | 1.8M | Annotation or junction file |
| A_lyrata_Apr_2011.bed.gz.tbi | 2023-06-16 14:26 | 105K | Tabix index file |
| annotation.gtf.gz | 2023-06-16 14:26 | 5.0M | |
| annotation.gtf.gz.tbi | 2023-06-16 14:26 | 111K | Tabix index file |
| annots.xml | 2023-06-16 14:26 | 801 | Annotation and data file list |
| genome.txt | 2023-06-16 14:26 | 12K | Chromosome lengths and assembly information |