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Chromosome summary

A schematic representation of a chromosome is shown and it includes graphical displays of different biotypes of genes and genomic features:

Protein Coding Genes gives the number of genes annotated on this chromosome and that contain an ORF (open reading frame). 

Short Non Coding Genes gives the number of genes annotated on this chromosome that are less than 200 nt long and do not contain an ORF (open reading frame), e.g. miRNAs and snoRNAs.

Long Non Coding Genes gives the number of genes annotated on this chromosome that are longer than 200 nt long and do not contain an ORF (open reading frame), e.g. lincRNAs and antisense.

Pseudogenes shares an evolutionary history with a functional protein-coding gene but it has been mutated through evolution to contain to contain frameshift (s) and/or stop codon(s) that disrupt the open reading frame.

% GC / repeats shows the percentage of Gs and Cs (in red in the graph) and of repetitive (e.g. satellite DNA) regions (in black)

Variations lists the number of variations that Ensembl has mapped on this chromosome.

???wgENCODE shows mean values scaled to the maximum for the viewed region. Two styles are available: 'raw' when the mean values are scaled relative to one another and 'mean with whiskers' similar to the standard graph but with perpendicular lines showing maximum and minimum values.

For more on Ensembl gene annotation, please see this article.

You can change from a chromosome to another from the drop down menu at the bottom of the image.

Chromosome Statistics 

A summary is provided per chromosome and includes length (in base pairs), number of coding and non coding genes, pseudogenes and short variants (e.g. SNPs and indels). Length is pre-calculated in order to speed up page display, and stored in the seq_region table of the core database. The number is based on the assembled end position of the last seq_region in each chromosome (from the AGP file), or if there is a terminal gap it is set to the assembled end location of that terminal gap.

Summary statistics are also available for the entire genome rather per chromosome and can be found on species-specific pages. See statistics for human assembly and annotation of GRCh38.p2.

Please note: Gene counts presented per chromosome on an Ensembl chromosome.

Adding Your Data and Configuring this page

You can add your own data to this display by clicking on the Custom Tracks button at the left of the page. More details on how to use your data in Ensembl.

If you have already uploaded data to another view, you can turn this track on by clicking on the Configure this page link and selecting a track in Your data.

Note: The display is highly customisable. All tracks may be turned off or their track style can be changed by clicking on the Configure this page link. The track styles available for this display are bar chart - outline, bar chart - filled and line graph. For the % GC / repeats track, the options to customise are on and off only.