UCSC Genome Bioinformatics
Genome Browser
Table Browser
In Silico PCR
Genome Graphs
Release Log
Custom Tracks
Cite Us
Contact Us

  About the UCSC Genome Browser in a Box

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.

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. The new release has 63,244 total transcripts, compared with 61,642 in the previous version. The total number of canonical genes has increased from 32,408 to 32,958. Comparing the new gene set with the previous version:

  • 59,119 transcripts did not change between versions.
  • 55 transcripts were not carried forward to the new version.
  • 2,308 transcripts are "compatible" with those in the previous set, meaning that the two transcripts show consistent splicing. In most cases, the old and new transcripts differ in the lengths of their UTRs.
  • 160 transcripts overlap with those in the previous set, but do not show consistent splicing (i.e., they contain overlapping introns with differing splice sites).

More details about the new UCSC Genes track can be found on the UCSC Genes track description page.

Many thanks to Brian Raney and Matthew Speir for their work on this track!

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.

The Software Engineer will work with a small engineering team to support and extend the UCSC Genome Browser database and software, while interfacing with Genome Browser collaborators and users worldwide. Our engineering work requires solid experience with C, UNIX and SQL. For application information and more details, see Job #150568 on the UCSC staff employment page.

The Quality and User Support Analyst will work with a small QA group that interacts closely with browser software developers and genomics researchers throughout the world. As a member of the QA team, you will participate in all aspects of quality assurance for genomics projects staffed by our group and provide technical support for the affiliated user communities. For application information and more details about the position, see Job #1505685 on the UCSC staff employment page.

If you'd like to apply for one of these positions, be sure to submit your application materials by May 25, 2015, for maximum consideration.

08 April 2015 - bigGenePred Format Now Supported in the Genome Browser: We are pleased to announce that the UCSC Genome Browser now supports data in bigGenePred format. Read more.

02 April 2015 - New Tarsier (tarSyr2) Assembly Now Available in the Genome Browser: We are pleased to announce the release of a Genome Browser for the September 2013 assembly of tarsier, Tarsius syrichta (WashU Tarsius_syrichta-2.0.1, UCSC version tarSyr2). Read more.

02 April 2015 - New Training Video! View it now on our YouTube channel. 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.

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.