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- single-coordinate feature: splice sites
- single-span feature, with strand: an exon
- single-span feature, no strand: a restriction site
- multi-span feature, with strand: a gene model
Graphs
Graphs consists of numeric data associated with regions or single-base positions in a chromosome.
Sequences
Sequences are sets of DNA residues comprising a chromosome. Sequences can be fully or partially loaded from local files, QuickLoad sites, or DAS servers. IGB allows you to examine sequence data in a separate window called the Sequence Viewer.
Alignments
Alignments represent how sequences obtained from an experiment (such as reads from an RNA-Seq experiment) align onto the reference genomic sequence. At low zoom they look like annotations, but with marks representing mismatches between the read and the reference genome whenever these data are available. At higher zoom, the aligned sequence bases become visible. File formats for alignments include BAM and PSLX.
Probe set alignments
Probe set alignments consists of a target sequence aligned onto a chromosome and the location of probes relative to the aligned target sequence. This data type is Affymetrix-specific.
