The Soybean Genome Database (SoyGD) -- a browser for display of duplicated, polyploid, regions and sequence tagged sites on the integrated physical and genetic maps of Glycine max
What you can do:
Search for comprehensive genomic information of soybean.
Highlights:
- The Soybean Genome Database (SoyGD) genome browser has integrated and served the publicly available soybean physical map, bacterial artificial chromosome (BAC) fingerprint database and genetic map associated genomic data.
- The browser shows both build 3 and build 4 contiguous sets of clones (contigs) of the soybean physical map.
- Build 4 consisted of 2854 contigs that encompassed 1.05 Gb and 404 high-quality DNA markers that anchored 742 contigs. Many DNA markers anchored sets of 2-8 different contigs. Each contig in the set represented a homologous region of related sequences.
- GBrowse was adapted to show sets of homologous contigs at all potential anchor points, spread laterally and prevented from overlapping.
- About 8064 minimum tiling path (MTP2) clones provided 13,473 BAC end sequences (BES) to decorate the physical map.
- Analyses of BES placed 2111 gene models, 40 marker anchors and 1053 new microsatellite markers on the map.
- Estimated sequence tag probes from 201 low-copy gene families located 613 paralogs.
- The genome browser portal showed each data type as a separate track. Tetraploid, octoploid, diploid and homologous regions are shown clearly in relation to an integrated genetic and physical map.
Keywords:
- soybean genome
- soybean microsatellite markers
- soybean BAC end sequences
- soybean BAC fingerprint
- soybean genetics
- Glycine max genome
- Glycine max genetic map
- Glycine max physical map
- plant genome
- crop genome
This record last updated: 02-23-2006