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Genome Browser Data Description

Genome Browser Data Description


Magnaporthe Grisea Genome Browser
References    

   Magnaportha grisea Genome Browser[ Top ]

The Rice-Blast Genome Browser[1] is based on the sequence from the Broad Institute (Version 5, Update May 2007) [3]. The tracks of data are:

  • The MGOS Transcript Models were initially derived from the Broad V6 and may have been updated through community annotation.
  • The Broad V6 Transcript Models are the gene models provided by the Broad institute as part of version 6 of the automated genome assembly process.
  • The Broad V5 Transcript Models are the gene models provided by the Broad institute as part of version 5 of the automated genome assembly process aligned against the Broad version 6 genome.
  • The PAVE EST Contigs and SAGE Tags tracks show their alignment by BLAT[2]. The default BLAT parameters were used and all hits with less than 98% identity were filtered out. SAGE matches require a 100% identity.
  • The Genbank Genes track displays the genes downloaded from Genbank ( Genbank Magnaporthe Grisea Proteins page ). These genes were aligned to genome using BLAST and only the highest hitting HSP is shown. (The names formats of the Genbank genes is <common name>:: <genbank id>)
Magnaporthe Grisea Genome Browser Statistics:

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Chromosomes I II III IV V VI VII UNK chr0 All




   References[ Top ]

[1] Stein, L.D., Mungall, C., Shu, S., Caudy, M., Mangone, M., Day, A., Nickerson, E., Stajich, J.E., Harris, T.W., Arva, A., and Lewis, S. (2002) The generic genome browser: a building block for a model organism system database. Genome Research 12:1599-610. GMOD Site

[2] Kent, W.J. (2002). BLAT--the BLAST-like alignment tool. Genome Res 12, 656-664.

[3] Dean, R.A., Talbot, N., Ebbole, D., Farman, M., Mitchell, T., Orbach, M., Thon, M., Kulkarni, R., Xu, J.-R., Pan, H., Read, N., Lee, Y.-H., Carbone, I., Brown, S., Soanes, D., Djonovic, S., Kolomiets, E., Rehmeyer, C., Li, W., Harding, M., Kim, S., Lebrun, M.-H., Bohnert, H., Butler, J., Calvo, S., Ma, L-J., Nicol, R., Purcell, S., Nusbaum, C., Galagan, and J., Birren, B. (2005) The genome sequence of the rice blast fungus Magnaporthe grisea. Nature, 434, 980-986.