Variant

This page indicates a point of known variation in the genome. This single point may be assayed by many genetic markers. Stored in the Chado Feature table broken out by type_id.

Overview

• Meta-data

  • Name
  • Type
  • Species
  • Gene name and location in gene (if within gene)

Variant Locations

• variant locations by assembly

Genetic Markers

• List all the genetic markers assaying this variant

Genotypic Data

• pie chart summarizing the known alleles
• Genotype look-up field: mini genotype matrix for a single variant. Germplasm are the rows.
• Genotypes Matrix Link: Redirects to the genotype matrix pre-filtered for the current variant.

Sequence

• Variant Marked-up Sequence (FASTA format) -state assembly? for all locations

Genome View

• JBrowse field located on this marker