Question: How to combine EMBL annotation with sequence file
gravatar for clairebendix
3.4 years ago by
clairebendix0 wrote:

I have a core genome alignment file and a non-standard EMBL annotation file that doesn't include any sequence. Is there a good way to add my sequence file into the annotation file? I would like to be able to view the annotated sequence in Artemis.

Beginning of the EMBL file:

ID   Genome standard; DNA; PRO; 1234 BP.
FH   Key             Location/Qualifiers
FT   feature         1..1029
FT                   /label=aapJ
FT                   /locus_tag=aapJ
FT   feature         1030..1569
FT                   /label=aat
FT                   /locus_tag=aat
FT   feature         1570..2523
FT                   /label=accA
FT                   /locus_tag=accA
FT   misc_feature    90
FT                   /label=group_417
FT                   /locus_tag=group_417
FT                   /colour=4
FT   misc_feature    30
FT                   /label=group_2959
FT                   /locus_tag=group_2959
FT                   /colour=2
FT   feature         3488
FT                   /label=licA_2
FT                   /locus_tag=licA_2
FT                   /colour=2

End of the file:

FT   feature         346..348
FT                   /colour=5
SQ   Sequence 1234 BP; 789 A; 1717 C; 1693 G; 691 T; 0 other;
embl alignment genome • 1.1k views
ADD COMMENTlink modified 3.4 years ago by Sej Modha4.5k • written 3.4 years ago by clairebendix0
gravatar for Sej Modha
3.4 years ago by
Sej Modha4.5k
Glasgow, UK
Sej Modha4.5k wrote:

Have you tried Sequin?

ADD COMMENTlink written 3.4 years ago by Sej Modha4.5k
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