72 lines
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2.1 KiB
HTML
72 lines
No EOL
2.1 KiB
HTML
<!DOCTYPE HTML>
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<html>
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<head>
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<title>Component</title>
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<script type="text/javascript" src="/core/jquery/jquery-3.6.0.min.js">
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</script>
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<script type="text/javascript">
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jQuery.getScript("/core/alerts/alerts.js", function () { galert(['pre']) });
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</script>
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<body>
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<h3>Component</h3><pre>Defined in file <a href="docsum.asn.html">docsum.asn</a>
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C++ class: <a href="../doxyhtml/classCComponent.html">CComponent</a>
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Component ::= SEQUENCE {
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attlist SET {
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--type of component: chromosome, contig, gene_region,
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-- etc.
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componentType ENUMERATED {
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contig (1),
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mrna (2)
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} OPTIONAL,
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--dbSNP contig_id used to join on contig hit / mapset data to
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-- these assembly properties
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ctgId INTEGER OPTIONAL,
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--Accession[.version] for the sequence
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-- component
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accession VisibleString OPTIONAL,
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--contig name defined as either a submitter local id, element
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-- of a whole genome assembly set, or internal NCBI local
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-- id
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name VisibleString OPTIONAL,
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--Organism appropriate chromosome tag, 'Un' reserved for
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-- default case of unplaced components
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chromosome VisibleString OPTIONAL,
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--component starting position on the chromosome (base 0
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-- inclusive)
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start INTEGER OPTIONAL,
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--component ending position on the chromosome (base 0
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-- inclusive)
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end INTEGER OPTIONAL,
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--orientation of this component to chromosome, forward (fwd) =
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-- 0, reverse (rev) = 1, unknown = NULL in
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-- ContigInfo.orient.
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orientation ENUMERATED {
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fwd (1),
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rev (2),
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unknown (3)
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} OPTIONAL,
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--NCBI gi for component sequence (equivalent to
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-- accession.version) for nucleotide sequence.
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gi VisibleString OPTIONAL,
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--Identifier label for the genome assembly that defines the
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-- contigs in this mapset and their placement within the organism genome.
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groupTerm VisibleString OPTIONAL,
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contigLabel VisibleString OPTIONAL --Display label for component
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},
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mapLoc SEQUENCE OF <a href="MapLoc.html">MapLoc</a>
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}</pre>
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</body>
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</html> |