Gene summary

The gene summary view in more detail

Let's look more in depth at the figure on the gene summary view (Figure 11). 

Figure 11. The lower half of the display gives a summary of the gene source, biotype and annotation. All transcripts in the genomic region are depicted below.


Summary. The official gene name is displayed at the top, along with other names and symbols the gene is known by in other major databases, such as RefSeq and Uniprot. For human genes, the official gene name comes from the HGNC (HUGO Gene Nomenclature Committee).

There is also information about the gene biotype and how the gene was annotated.

BRCA2 Transcripts. All transcripts in the region are displayed. Gold and red transcripts are protein coding whilst blue, pink and grey transcripts are non-coding. The gold transcripts indicate a Havana/Ensembl merge. In this case, BRCA2-201 is gold, indicating the sequence is agreed on by both projects. A help page explains the colours more in depth.

Transcript structure. Boxes are exons, and connecting lines are introns. Filled boxes indicate coding sequence, while unfilled boxes are UTR(UnTranslated Regions).

Figure 12. Transcript structure

For example, the transcript above is gold, showing it's a protein coding transcript (Havana/Ensembl merge). It has 27 exons. Some exons have filled and unfilled regions, meaning these exons contain coding sequence and UTR. The introns are lines between the exons.

Transcripts drawn above the blue bar (genome) are on the forward strand of the chromosome (like BRCA2), and transcripts drawn underneath (like the neighbouring N4BP2L transcripts, [B]) are on the reverse strand of the chromosome.

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