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   Links to Plant Genome Sequencing Project Databases

1. General
Homologs vs orthologs vs paralogs
http://www.ncbi.nlm.nih.gov/Education/BLASTinfo/Orthology.html

Genomics Glossary
http://www.genomenewsnetwork.org/articles/06_00/sequence_primer.shtml

Genome News Network (see Quick Guide)
http://www.genomenewsnetwork.org/

TIGR Plant Genomics Projects
http://www.tigr.org/plantProjects.shtml

MIPS (Arabidopsis, Maize, Medicago, Lotus, Rice, tomato)
http://mips.gsf.de/projects/plants

ENSEMBL (non-plant eukaryotic genomes)
http://www.ensembl.org/index.html

NCBI Plant Genomes
http://www.ncbi.nlm.nih.gov/genomes/PLANTS/PlantList.html

2. Arabidopsis
****MIPS MATDB Genome Viewer
http://mips.gsf.de/proj/thal/db/gv/gv_frame.html

TAIR Sequence Viewer
http://www.arabidopsis.org/servlets/sv

TIGR Arabidopsis Genome Database
http://www.tigr.org/tdb/e2k1/ath1/ath1.shtml

MPSS - Arabidopsis small RNA Database
http://mpss.udel.edu/at/

Salk Institute Mapped TDNA Insertion Database
http://signal.salk.edu/tabout.html

Arabidopsis GDB (in development)
http://www.plantgdb.org/AtGDB/index.php

3. Rice
International Rice Genome Sequencing Project
http://rgp.dna.affrc.go.jp/IRGSP/index.html

TIGR Rice Genome Annotation
http://www.tigr.org/tdb/e2k1/osa1/index.shtml

Oryzabase
http://www.shigen.nig.ac.jp/rice/oryzabase/top/top.jsp

4. Maize (corn)
http://www.maizegdb.org/

5. Comparative Grass Genomics
Gramene
http://www.gramene.org/

Comparative Grass Genomics Centre (University of Georgia)
http://cggc.agtec.uga.edu/index.asp

GrainGenes - wheat and oat
http://wheat.pw.usda.gov/GG2/index.shtml

6. Chlamydomonas
Chlamy Center
http://www.chlamy.org/

Chlamydomonas DOE Joint Genome Institute
http://genome.jgi-psf.org/Chlre3/Chlre3.home.html

7. Poplar (tree)
http://genome.jgi-psf.org/Poptr1/Poptr1.home.html

8. Potato (and Solanaceae)
http://www.tigr.org/tdb/potato/

9. Tomato
http://www.sgn.cornell.edu/help/about/tomato_sequencing.pl

10. Lotus japonicus (legume)
http://www.kazusa.or.jp/lotus/

11. Medicago (alfalfa, legume)
http://mips.gsf.de/proj/plant/jsf/medi/index.jsp

12. Physcomitrella patens (moss)
http://www.jgi.doe.gov/sequencing/why/CSP2005/physcomitrella.html

13. Sorghum
Sorghum Genomics (Texas A&M)
http://sorgblast2.tamu.edu/search.htm

14. Plant Genome Size (Cot values) Database (Kew Gardens)
http://www.rbgkew.org.uk/cval/homepage.html

15. Index of Plant Chromosome Numbers (Missouri Botanical Gardens)
http://mobot.mobot.org/W3T/Search/ipcn.html