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01 April 2015 - New GRCz10 Zebrafish Assembly Now Available
The most recent zebrafish assembly -- GRCz10 (UCSC version danRer10, Sep. 2014) -- is now
available in the UCSC Genome Browser. This is the first zebrafish release by the
Genome Reference Consortium, who took over the improvement and
maintenance of the zebrafish genome assembly.
The GRCz10 assembly improves upon Zv9 by utilizing optical mapping and additional meiotic
mapping to fill gaps with new clone sequence and improve the positioning of assembly
components. This has also been supplemented with a new whole genome shotgun assembly
WGS31. The result is an assembly with a sequence length of 1.3 Gb in 26 chromosomes and
1,035 scaffolds. For more details about the GRCz10 assembly, see the
GRCz10 assembly page or the official
The danRer10 sequence and annotation data can be downloaded from the UCSC Genome Browser
FTP server or
We'd like to thank the Genome Reference Consortium for providing this assembly. The UCSC
zebrafish Genome Browser was produced by Hiram Clawson, Brian Raney and Steve Heitner. See the
credits page for a detailed list
of the organizations and individuals who contributed to this release.
20 March 2015 - New Visualization Option for RepeatMasker
We are excited to announce the release of the new RepeatMasker Visualization track for the
hg38 and mm10 assemblies. This new RepeatMasker track displays detailed information that
includes the amount of unaligned repeat sequence and lines joining repeat fragments.
Additionally, repeats are now colored based on their repeat class. This new RepeatMasker
track incorporates a new details page that includes the detailed RepeatMasker output and
the raw alignment used to generate the final repeat annotation. You can read more about
this track on the description page for either
This track is the result of a collaboration between the
Institute for Systems Biology
and the UCSC Genome Browser. We would like to thank Robert Hubley, Arian Smit, Hiram
Clawson, and Matthew Speir for their efforts in creating this track.
03 March 2015 - Use UDR for Quick Sizable Downloads:
The UCSC Genome Browser is pleased to share a download protocol to use when downloading
large sets of files from our download servers: UDR (UDT Enabled Rsync). UDR utilizes rsync
as the transport mechanism, but sends the data over the UDT protocol, which enables huge
amounts of data to be downloaded efficiently over long distances.
26 February 2015 - New Training Video!
View it now on our