richards@CSHL.ORG (Eric Richards in Delbruck) (04/20/91)
Dear Network: Has anyone assembled a codon usage table for Arabidopsis genes? Is there much deviation from codon usage in other plants? I would like to get a copy of such a table if possible.... Thanks much! Eric Richards (richards@cshl.org)
CHERRY@FRODO.MGH.HARVARD.EDU (Mike Cherry 726-5955) (04/22/91)
> Has anyone assembled a codon usage table for Arabidopsis >genes? Is there much deviation from codon usage in other plants? > Eric Richards (richards@cshl.org) I have created codon usage tables for the top 47 major species represented in GenBank release 63. Within the next month I hope to update these tables. I currently available tables were produced in April 1990. You can obtain these tables via anonymous ftp from frodo.mgh.harvard.edu and iubio.bio.indiana.edu. If you don't have access to Internet you can obtain the tables from the embl-heidelberg.de mail server. You can also send me an electronic mail request. Below is a list of the higher plant tables I produced. All tables are in the GCG codon usage table format. To answer Eric's second question, I found codon usage in plants generally fell into two groups: monocots and dicots. Mike Cherry cherry@frodo.mgh.harvard.edu File Name Organism/Organelle ========== ================================= ATH.COD Arabidopsis thaliana BLY.COD Hordeum vulgare (Barley) MZE.COD Zea mays (Maize) PEA.COD Pisum sativum (Pea) PET.COD Petunia sp. PHV.COD Phaseolus vulgaris (Lima bean) POT.COD Solanum tuberosum (Potatoe) RIC.COD Oryza sativa (Rice) SOY.COD Glycine max (Soybean) TOB.COD Nicotiana tabacum (Tobacco) TOM.COD Lycopersicon esculentum (Tomato) WHT.COD Triticum aestivum (Wheat)
harper@csc.fi (04/22/91)
In article <910421202052.1528@Frodo.MGH.Harvard.EDU>, CHERRY@FRODO.MGH.HARVARD.EDU (Mike Cherry 726-5955) writes:
MC> If you don't have access to Internet you can obtain
MC> the tables from the embl-heidelberg.de mail server.
Europeans will also find the codon tables on NIC.FUNET.FI (128.214.6.100)
in the directory /pub/sci/molbio/codon
Login via anonymous ftp... userid anonymous, password your_ID@your_NODE
RGDS -=ROB=-