Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0) genome assembly

The files listed below are formatted for visualization in the Integrated Genome Browser, available from BioViz.org.

Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome Bioinformatics Table Browser. Each file is named for its corresponding table in the UCSC Genome database. See the annots.xml meta-data file in this directory for details.

Files with extension .gz were compressed and indexed using bgzip and tabix tools from htslib.org.

The file named G_gallus_Nov_2011.2bit contains sequence data and is from the UCSC Genome Bioinformatics Web site. To convert a .2bit to fasta, use twoBitToFa. The file genome.txt lists sequences and their sizes and was made from G_gallus_Nov_2011.2bit sequence file using twoBitInfo.

Both twoBitInfo and twoBitToFa are available from http://hgdownload.cse.ucsc.edu/admin/exe/.

	Name	Last modified	Size	Description
	Parent Directory		-
	G_gallus_Nov_2011_all_est.psl.gz	2023-06-16 13:15	35M	PSL (alignments) blat output file
	G_gallus_Nov_2011_all_est.psl.gz.tbi	2023-06-16 13:15	413K	Tabix index file
	G_gallus_Nov_2011_all_mrna.psl.gz	2023-06-16 13:15	1.8M	PSL (alignments) blat output file
	G_gallus_Nov_2011_all_mrna.psl.gz.tbi	2023-06-16 13:15	146K	Tabix index file
	G_gallus_Nov_2011_refGene.bed.gz	2023-06-16 13:15	481K	Data from UCSC refGene table
	G_gallus_Nov_2011_refGene.bed.gz.tbi	2023-06-16 13:15	53K	Tabix index file
	annots.xml	2025-03-11 10:01	1.2K	Annotation and data file list
	genome.txt	2023-06-16 13:15	379K	Chromosome lengths and assembly information