Using Artemis to generate the genome Map: Demo 1

Using Artemis to generate the genome Map: Demo

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Download and Install Artemis

• http://www.sanger.ac.uk/Software/Artemis/v9/artemis_v9.jar

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Input files

• Download the input files from NCBI• Input files

– Genome sequence of A.baumannii chromosome– Genome sequence of pAB1– Genome sequence of pAB2

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Download the genome sequences of the A.Baumannii chromosome and the two plasmids

Input file example: A.baumannii chromosome

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Load input file to Artemis

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Clean up the display to what is required

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Start annotating

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This is where you annotate the name of the gene

This is where you specify the position of the gene

This is where you specify the colour of the gene to colour code it: 0 white ; 1 dark grey ; 2 red; 3 green ; 4 blue ; 5 cyan ; 6 magenta ; 7 yellow ; 8 pale green ; 9 light sky blue; 10 orange ; 11 brown ; 12 pale pink ; 13 light grey ; 14 black ; 15 mid red; 16 light red; 17 pink.

For more info:http://www.sanger.ac.uk/Software/Artemis/v10/manual/options-descriptions.html

Click on this if the gene is located on the reverse frame

Example: annotating on the reverse frame

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Forward frame annotations will be on topof the scale

Reverse frame annotations will be at the bottomof the scale.

Saving your annotations

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Transferring your annotation to your report

• Zoom in/out to the appropriate level

• “Print Screen” to capture the image and then crop to the appropriate size

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Zooming to the appropriate level

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Scroll up and down to zoom in and out, respectively

Print screen and crop the image to the appropriate size

• Use the “Print Screen” button on the keyboard to capture the image

• Paste in MS Word or Paint programs to crop the image to the appropriate size

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Example: Final product

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