New "View - In External Tools" Menu Sends Data to Prediction Websites!
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Brian Lee
Nov 25, 2015, 5:16:15 PM11/25/15
to UCSC Genome Browser project announcements
Do you often get the current sequence with "View - DNA" just to copy and paste it into another website? With the new menu "View - In External Tools" you can now send the current region to remote tools with two clicks!
For example, when browsing hg38 and zoomed in on the start of a gene like ABO at chr9:133,255,000-133,255,555, click the View menu and select "In External Tools", or simply type the keyboard shortcut "s" then "t", to send the region to a list of different prediction tools.
Some of the available tools (not available for all assemblies or all zoom levels) are primer design and restriction enzyme predictions (Primer3Plus, Primer-BLAST, NEBCutter), mRNA and protein predictions (RegRNA 2, Riboswitches, RNAfold, PFAM), cis-regulatory predictions (Promoter 2, RSAT Metazoa), and CRISPR/Cas9 predictions (CRISPOR, CHOPCHOP), as well as links to view the region at NCBI or Ensembl. You can suggest other tools via our Suggestion Box.
Credit goes to Max Haeussler for implementing this new feature.
For example, when browsing hg38 and zoomed in on the start of a gene like ABO at chr9:133,255,000-133,255,555, click the View menu and select "In External Tools", or simply type the keyboard shortcut "s" then "t", to send the region to a list of different prediction tools.
Some of the available tools (not available for all assemblies or all zoom levels) are primer design and restriction enzyme predictions (Primer3Plus, Primer-BLAST, NEBCutter), mRNA and protein predictions (RegRNA 2, Riboswitches, RNAfold, PFAM), cis-regulatory predictions (Promoter 2, RSAT Metazoa), and CRISPR/Cas9 predictions (CRISPOR, CHOPCHOP), as well as links to view the region at NCBI or Ensembl. You can suggest other tools via our Suggestion Box.
Credit goes to Max Haeussler for implementing this new feature.
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