UCSC Genome Bioinformatics
Genome Browser
Blat
Table Browser
Gene Sorter
In Silico PCR
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Galaxy
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  About the UCSC Genome Bioinformatics Site

Welcome to the UCSC Genome Browser website. This site contains the reference sequence and working draft assemblies for a large collection of genomes. It also provides portals to ENCODE data at UCSC (2003 to 2012) and to the Neandertal project. Download or purchase the Genome Browser source code, or the Genome Browser in a Box (GBiB) at our online store.

We encourage you to explore these sequences with our tools. The Genome Browser zooms and scrolls over chromosomes, showing the work of annotators worldwide. The Gene Sorter shows expression, homology and other information on groups of genes that can be related in many ways. Blat quickly maps your sequence to the genome. The Table Browser provides convenient access to the underlying database. VisiGene lets you browse through a large collection of in situ mouse and frog images to examine expression patterns. Genome Graphs allows you to upload and display genome-wide data sets.

The UCSC Genome Browser is developed and maintained by the Genome Bioinformatics Group, a cross-departmental team within the UC Santa Cruz Genomics Institute at the University of California Santa Cruz (UCSC). If you have feedback or questions concerning the tools or data on this website, feel free to contact us on our public mailing list.

The Genome Browser project team relies on public funding to support our work. Donations are welcome -- we have many more ideas than our funding supports! If you have ideas, drop a comment in our suggestion box.

Give to the UCSC Genome Browser

  NewsFollow @GenomeBrowser on Twitter Genome Browser Facebook page

To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the genome-announce mailing list. Please see our blog for posts about Genome Browser tools, features, projects and more.


26 June 2015 - New Bonobo (panPan1) Assembly Now Available in the Genome Browser

We are pleased to announce the release of a Genome Browser for the May 2012 assembly of bonobo, Pan paniscus (Max-Planck Institute panpan1, UCSC version panPan1). The assembly was provided by the Max-Planck Institute for Evolutionary Anthropology. There are 10,867 scaffolds with a total size of 2,869,190,071 bases.

Bulk downloads of the sequence and annotation data are available via the Genome Browser FTP server or the Downloads page. These data have specific conditions for use. The bonobo (panPan1) browser annotation tracks were generated by UCSC and collaborators worldwide. See the Credits page for a detailed list of the organizations and individuals who contributed to this release.


12 June 2015 - Data Integrator

Have you ever wished that the Table Browser could associate your custom track items with some other track, while retaining the item names from both? We have released a new tool that can do just that, and more: the Data Integrator.

Using the Data Integrator you can select up to five tracks, including custom tracks and hub tracks, and output tab-separated text that contains all the fields from both the first track and the overlapping items from the other track(s). If you need only a subset of the fields from your selected tracks, the Data Integrator allows you to choose which fields to include in the output. You can also query your current Genome Browser position, search for positions of items such as genes, SNPs, etc. by name, query over a set of up to 1000 positions, and even retrieve genome-wide data (subject to data size). The Data Integrator output can be viewed in your web browser window or downloaded to an optionally gzip-compressed file. Look for "Data Integrator" in the Genome Browser Tools menu (top blue bar) if you'd like to try it out.

For more information about the Data Integrator's capabilities and usage, see the user's guide: http://genome.ucsc.edu/goldenPath/help/hgIntegratorHelp.html. As always, we welcome questions and feedback on our public mailing list: genome@soe.ucsc.edu

Thanks to Angie Hinrichs and Matthew Speir for all of their work on this feature.


28 May 2015 - New UCSC Genes Track Released for GRCm38/mm10: We're happy to announce the release of an updated UCSC Genes track for the GRCm38/mm10 mouse Genome Browser. Read more.

15 May 2015 - Work for Us! New Job Openings on the UCSC Genome Browser Project: The UCSC Genome Browser project team is looking for two talented people to join our engineering staff based in Santa Cruz, CA. Read more.


  Conditions of Use

The Genome Browser software, sequence and annotation data are freely available for use with these conditions. A license is required for commercial use of the software. For assistance with questions or problems regarding the UCSC Genome Browser software, database, genome assemblies, or release cycles, click here.

Program-driven use of this software is limited to a maximum of one hit every 15 seconds and no more than 5,000 hits per day.

The UCSC Genome Browser was created by the Genome Bioinformatics Group of UC Santa Cruz. Software Copyright (c) The Regents of the University of California. All rights reserved.