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Genes Track View

Roman Chernyatchik edited this page Dec 17, 2018 · 3 revisions

Genes Track View

Genes track shows both coding and non-coding gene transcripts with introns, exons, utr5 and utr3 information. The track uses GTF genes annotations downloaded from http://www.ensembl.org. You could find the annotations file location and its version using About Track action from a track context menu.

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For each gene, the track view shows all possible transcripts got from the gene alternative splicing. If it is possible the track view shows each transcript on a separate line, if it is not enough space rest transcripts are shown on the last line after a dashed line.

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To expand grouped transcripts below dashed line enlarge track height (using Track Height action from track context menu).

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Coding vs. Non-Coding Genes

  • Protein coding genes: Blue.
  • Protein non-coding genes: Dark Gray.

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Gene Name and Strand

Arrows show transcript reading direction: >>> (plus strand); <<< (minus strand). Gene name label is shown at genes 5' end.

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Exons, Introns

  • Introns are drawn using transparent color
  • Exons are drawn with opaque color

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UTRs, CDS

Focused Gene

When you navigate to a gene by its name using Go button the gene will be focused, and all other genes will be grayed out.

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You could press Esc keyboard key to make other genes not grayed.

About Track action additionally shows focused gene information if it is available:

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