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My Taxonomy

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greengenes: 16S rDNA data and tools

The greengenes web application provides access to the current and comprehensive 16S rRNA gene sequence alignment for browsing, blasting, probing, and downloading.  The data and tools presented by greengenes can assist the researcher in choosing phylogenetically specific probes, interpreting microarray results, and aligning/annotating novel sequences.  If you are an ARB user, you can use greengenes to keep your own local database current.

2011 greengenes Taxonomy now Published!

The trees, tables and sequence data from the McDonald et al. ISME J article can all be found in one place.



News:



Browse taxonomic tree of your choice and mark nodes.

Export sequence records of your choice.

Specify a Slice (sub-alignment) of the prokMSA to view/download.

Calculate Consensus sequences from My Interest List (soon!).

Compare my local sequences/probes against the prokMSA using BLAST or Simrank.

Search the annotations of the prokMSA.

Locate Probes and primers within the prokMSA using pattern matching.

Align a few or a few thousand 16S rDNA sequences with the NAST aligner.

Trim a batch of sequences using quality scores.

Download alignments, taxonomies, posters, protocols, etc.

More Tools are being developed and are available for preview.


Infrastructure provided by: VIMSS - CEB - JGI - LBL
 
  • Last Database Update: October 2, 2011 1:41PM
  • 1049116 aligned 16S rDNA records >1250nt