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Integrating Genetics and Genomics to Advance Soybean Research

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Table of Contents
SoyBase Home Page and Toolbox

Quickly Search All of SoyBase (in SoyBase Toolbox)
Advanced Search Page
Tools for extracting and downloading all or subsets of the data in SoyBase
Download genetic map coordinates for selected features
Download sequences for genetic loci
Convert Wm82.a1.v1.1 Gene Model Names to Wm82.a2.v1 Names
Download genome sequence coordinates for selected features
Download genome sequence coordinates for selected features by chromosome
Download genome or predicted protein sequence for gene calls
Download annotations for selected gene calls
Download gene model flanking sequence
Download gene model 3' and 5' UTR sequences
Download SoySNP50K Data
External Data Sources
BLAST sequence similarity search
Quick BLAST Against Wm82.a2 Genome Sequence (in SoyBase Toolbox)
Advanced SoyBase BLAST Page
SoyCyc Soybean Metabolic Enzyme Database
Quick SoyCyc Search (in SoyBase Toolbox)
Quick Jump to a Linkage Group in Genetic Maps (in SoyBase Toolbox)
Quick Jump to a Chromosome in Sequence Browser (in SoyBase Toolbox)
Description of New Genome Nomenclature
Soybean Growth and Developmental Ontologies
Soybean Sequence Data and Literature
Soybean Community Resources
SoyBase News
Meeting Announcements
Community Job Announcements
About SoyBase and Soybeans
About SoyBase and SoyBase Staff
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Genetic and Physical Map Resources

Genetic Maps: Composite and Consensus Maps including molecular markers (RFLPs, SSRs, SNPs) and QTL
Browse a List of All QTL
Browse a List of ALL Traits
Compare the Genetic Map Order with the Sequence Map Order
BAC-based Physical Maps
Download Genetic Data from SoyBase
Download genetic map coordinates for selected features
Download sequences for genetic loci
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Sequence Map Resources

SoyBase Wm82 Genome Browser
All Potential SSRs Indentified in Wm82
SoySNP50K Haplotypes and Data
NSF SoyMap II Project: Comparative sequence maps for G. max vs. 7 wild Glycine species
Soybean Transposable Elements
View TE family relationships and download TE data by structural classifications
Visualize TEs in the context of the soybean genetic map
Visualize TEs in the context of the soybean genomic sequence
Retrieve TE information based on a TE name
Download TE information based on proximity to a gene or genomic sequence coordinate
Download all TE sequences in FASTA format
Download a summary of the TE information as tab delimited text
Pangenome Search and Download Page
Download Sequence Data from SoyBase
Convert Wm82.a1.v1.1 Gene Model Names to Wm82.a2.v1 Names
Download genome sequence coordinates for selected features
Download genome sequence coordinates for selected features by chromosome
Download genome or predicted protein sequence for gene calls
Download annotations for selected gene calls
Download gene model flanking sequence
Download gene model 3' and 5' UTR sequences
Download SoySNP50K Data
External Soybean Sequence Resources
Phytozome Soybean Sequence Data
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Anaylsis Tools

BLAST sequence similarity search
Quick BLAST Against Wm82.a2 Genome Sequence (in SoyBase Toolbox)
Advanced SoyBase BLAST Page
BLAST Soybean Sequence Reads at TraceArchive
GO Term Enrichment Tool
Convert Gene Model Names Between Wm82.a1.v1.1 and Wm82.a2.a1
SoyCyc Soybean Metabolic Enzyme Database
Soybean pedigrees based on the Soybean Uniform Tests
Database for the results of the Northern Uniform Trials 1989 to 2022
Pangenome Search and Download Page
Affymetrix Soybean SoyChip1
Search Annotations for the Affymetrix SoyChip1 Contig Sequences
Search for Unigene Sequences that Match Affymetrix SoyChip1 Probe Sequences
View the Affymetrix SoyChip1 Probe Sets on the Genomic Sequence
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Community Resources

SoyBase Video Tutorials
SoyBase Genetic Map Tutorials
SoyBase Sequence Map Tutorials
SoyBase Database Searching Tutorials
YouTube Soybean Growth and Development Tutorials
YouTube Soybean Disease Tutorials
YouTube Soybean Pest Tutorials
YouTube Methods and Protocols Tutorials
Soybean Breeders Workshop Presentations
Biennial Conference - Molecular & Cellular Biology of the Soybean
Soybean Genomics Executive Committee Documents
Soybean Genetics Committee
Research and Goals to Control Losses from Stink Bugs and Related Pests
Job Postings at SoyBase
Commodity and Producer Sites
American Soybean Association
United Soybean Board
North Central Soybean Research Program
Soybean Photographs
Soybean Genetics Newsletter
External Data Sets and Reports
Calendar of NASS reports
Germplasm Resources Information Network (GRIN)
Southern states uniform soybean tests
Northern states uniform soybean tests
Soybean pedigrees based on the Soybean Uniform Tests
Database for the results of the Northern Uniform Trials 1989 to 2022
GRIN Soybean Germplasm Data Explorer: Select germplasm based on phenological, biochemical and stress resistance values
SoyBase Archive: Public Soybean EST project
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

SoySeq Expression Atlas

SoySeq Soybean Gene Atlas Home Page
Tissue by Tissue Gene Expression
Hierarchical Clustering
Tables & Lists
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Mutant Populations

Fast Neutron InDels
Search Mutants by Name
Search for Deletions Covering Gene Calls
Search for Deletions Covering Markers
Browse Mutants by Sample Name or Trait Names
Browse Mutants by Images
Browse Mutants by Their Phenotypic Descriptions
Search Deleted Sequences by BLAST
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase

Download SoyBean Data

Tools for extracting and downloading all or subsets of the data in SoyBase
Download genetic map coordinates for selected features
Download sequences for genetic loci
Convert Wm82.a1.v1.1 Gene Model Names to Wm82.a2.v1 Names
Download genome sequence coordinates for selected features
Download genome sequence coordinates for selected features by chromosome
Download genome or predicted protein sequence for gene calls
Download annotations for selected gene calls
Download gene model flanking sequence
Download gene model 3' and 5' UTR sequences
Download SoySNP50K Data
How to Cite SoyBase
Submit Your Data to SoyBase
Public Repositories for Your Raw Data
Contact SoyBase






Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
 
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