Sequence (element type)

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Revision as of 12:27, 27 June 2013 by Tagir Valeev (Talk | contribs)

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Title
Type-sequence-icon.png sequence
Class
AnnotatedSequence
Fragment of Ensembl sequence (chromosome 1 of GRCh37) is displayed in genome browser.

Description

Sequence element represents nucleotide or amino acid sequence from many different sources including user-imported files (FASTA, EMBL, etc.), locally installed Ensembl database, remote DAS servers, etc. Usually you see a collection of sequences rather than individual sequence elements. For example, Ensembl database has a collection of chromosomes, user-imported FASTA file is a collection of individual sequences from this file and so on. Sequence can be opened in genome browser.

Sample user-uploaded EMBL file containing single sequence "A1MVRNA2" opened in genome browser in BioUML web edition. Information about 'CDS' feature is displayed.
For user-imported EMBL file each individual sequence represents a collection, which contains a single Type-track-icon.png track with feature table.
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