src/objects/docsum/docsum.asn
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-- ============================================
-- ::DATATOOL:: Generated from "docsum_3.4.xsd"
-- ::DATATOOL:: by application DATATOOL version 2.1.0
-- ::DATATOOL:: on 08/14/2012 12:01:24
-- ============================================
-- edited with XMLSPY v5 rel. 4 U (http://www.xmlspy.com) by Michael Kholodov (National Library of Medicine)
-- edited with XMLSpy v2005 rel. 3 U (http://www.altova.com) by Michael Feolo (NCBI/NLM/NIH)
Docsum-3-4 DEFINITIONS AUTOMATIC TAGS ::=
BEGIN
Assay ::= SEQUENCE {
attlist SET {
handle VisibleString OPTIONAL,
batch VisibleString OPTIONAL,
batchId INTEGER OPTIONAL,
batchType ENUMERATED {
snpassay (1),
validation (2),
doublehit (3)
} OPTIONAL,
molType ENUMERATED {
genomic (1),
cDNA (2),
mito (3),
chloro (4)
} OPTIONAL,
sampleSize INTEGER OPTIONAL,
population VisibleString OPTIONAL,
linkoutUrl VisibleString OPTIONAL
},
method SEQUENCE {
eMethod SEQUENCE {
attlist SET {
name VisibleString OPTIONAL, --Submitters method identifier
id VisibleString OPTIONAL --dbSNP method identifier
},
--description of deviation from/addition to
-- given method
exception VisibleString
} OPTIONAL
},
taxonomy SEQUENCE {
attlist SET {
--NCBI taxonomy ID for
-- variation
id INTEGER,
organism VisibleString OPTIONAL
},
taxonomy NULL
},
strains SEQUENCE OF VisibleString OPTIONAL,
comment VisibleString OPTIONAL,
citation SEQUENCE OF VisibleString OPTIONAL
}
--A collection of genome sequence records (curated gene regions (NG's),
-- contigs (NWNT's) and chromosomes (NC/AC's) produced by a genome sequence project.
-- Structure is populated from ContigInfo tables.
Assembly ::= SEQUENCE {
attlist SET {
--dbSNP build number defining the rsid set aligned to this
-- assembly
dbSnpBuild INTEGER,
--assembly build number with possible 'subbuild' version
-- numbers to reflect updates in gene annotation (human e.g. 34_3, 35_1,
-- 36_1)
genomeBuild VisibleString,
--High-level classification of the assembly to distinguish
-- reference projects from alternate solutions. GroupLabel field from
-- organism/build-specific ContigInfo tables. "reference" is occasionally used
-- as the preferred assembly; standards will converge as additional organism
-- genome projects are finished. Note that some organism assembly names include
-- extended characters like '~' and '/' that may be incompatible with OS
-- filename conventions.
groupLabel VisibleString OPTIONAL,
--Name of the group(s) or organization(s) that generated the
-- assembly
assemblySource VisibleString OPTIONAL,
current BOOLEAN OPTIONAL, --Marks the current genomic assembly
reference BOOLEAN OPTIONAL
},
component SEQUENCE OF Component OPTIONAL,
snpStat SEQUENCE {
attlist SET {
--summary measure of placement precision in the
-- assembly
mapWeight ENUMERATED {
unmapped (1),
unique-in-contig (2),
two-hits-in-contig (3),
less-10-hits (4),
multiple-hits (5)
},
--number of distinct chromosomes in the
-- mapset
chromCount INTEGER OPTIONAL,
--number of distinct contigs [ gi |
-- accession[.version] ] in the mapset
placedContigCount INTEGER OPTIONAL,
--number of sequence postions to a contig with
-- unknown chromosomal assignment
unplacedContigCount INTEGER OPTIONAL,
--total number of sequence positions in the
-- mapset
seqlocCount INTEGER OPTIONAL,
--Number of hits to alternative genomic haplotypes
-- (e.g. HLA DR region, KIR, or pseudo-autosomal regions like PAR)
-- within the assembly mapset. Note that positions on haplotypes
-- defined in other assemblies (a different assembly_group_label
-- value) will not be counted in this value.
hapCount INTEGER OPTIONAL
},
snpStat NULL
}
}
--URL value from dbSNP_main.BaseURL links table. attributes provide
-- context information and URL id that is referenced within individual refSNP
-- objects.
BaseURL ::= SEQUENCE {
attlist SET {
--Resource identifier from
-- dbSNP_main.baseURL.
urlId INTEGER OPTIONAL,
resourceName VisibleString OPTIONAL, --Name of linked resource
--identifier expected by resource for
-- URL
resourceId VisibleString OPTIONAL
},
--URL value from dbSNP_main.BaseURL links table. attributes provide
-- context information and URL id that is referenced within individual refSNP
-- objects.
baseURL VisibleString
}
Component ::= SEQUENCE {
attlist SET {
--type of component: chromosome, contig, gene_region,
-- etc.
componentType ENUMERATED {
contig (1),
mrna (2)
} OPTIONAL,
--dbSNP contig_id used to join on contig hit / mapset data to
-- these assembly properties
ctgId INTEGER OPTIONAL,
--Accession[.version] for the sequence
-- component
accession VisibleString OPTIONAL,
--contig name defined as either a submitter local id, element
-- of a whole genome assembly set, or internal NCBI local
-- id
name VisibleString OPTIONAL,
--Organism appropriate chromosome tag, 'Un' reserved for
-- default case of unplaced components
chromosome VisibleString OPTIONAL,
--component starting position on the chromosome (base 0
-- inclusive)
start INTEGER OPTIONAL,
--component ending position on the chromosome (base 0
-- inclusive)
end INTEGER OPTIONAL,
--orientation of this component to chromosome, forward (fwd) =
-- 0, reverse (rev) = 1, unknown = NULL in
-- ContigInfo.orient.
orientation ENUMERATED {
fwd (1),
rev (2),
unknown (3)
} OPTIONAL,
--NCBI gi for component sequence (equivalent to
-- accession.version) for nucleotide sequence.
gi VisibleString OPTIONAL,
--Identifier label for the genome assembly that defines the
-- contigs in this mapset and their placement within the organism genome.
groupTerm VisibleString OPTIONAL,
contigLabel VisibleString OPTIONAL --Display label for component
},
mapLoc SEQUENCE OF MapLoc
}
--Set of dbSNP refSNP docsums, version 3.4
ExchangeSet ::= SEQUENCE {
attlist SET {
--set-type: full dump; from query; single
-- refSNP
setType VisibleString OPTIONAL,
--content depth: brief XML (only refSNP properties and summary
-- subSNP element content); full XML (full refSNP, full subSNP content; all
-- flanking sequences)
setDepth VisibleString OPTIONAL,
--version number of docsum.asn/docsum.dtd
-- specification
specVersion VisibleString OPTIONAL,
dbSnpBuild INTEGER OPTIONAL, --build number of database for this export
generated VisibleString OPTIONAL --Generated date
},
sourceDatabase SEQUENCE {
attlist SET {
--NCBI taxonomy ID for
-- variation
taxId INTEGER,
--common name for species used as part of database
-- name.
organism VisibleString,
dbSnpOrgAbbr VisibleString OPTIONAL, --organism abbreviation used in dbSNP.
--organism abbreviation used within NCBI genome
-- pipeline data dumps.
gpipeOrgAbbr VisibleString OPTIONAL
},
sourceDatabase NULL
} OPTIONAL,
rs SEQUENCE OF Rs OPTIONAL,
assay Assay OPTIONAL,
query SEQUENCE {
attlist SET {
date VisibleString OPTIONAL, --yyyy-mm-dd
--Query terms or search
-- constraints
string VisibleString OPTIONAL
},
query NULL
} OPTIONAL,
summary SEQUENCE {
attlist SET {
numRsIds INTEGER OPTIONAL, --Total number of refsnp-ids in this exchange set
--Total length of exemplar flanking
-- sequences
totalSeqLength INTEGER OPTIONAL,
--Total number of contig locations from
-- SNPContigLoc
numContigHits INTEGER OPTIONAL,
--Total number of locus ids from
-- SNPContigLocusId
numGeneHits INTEGER OPTIONAL,
--Total number of gi hits from
-- MapLink
numGiHits INTEGER OPTIONAL,
--Total number of 3D structures from
-- SNP3D
num3dStructs INTEGER OPTIONAL,
--Total number of allele frequences from
-- SubPopAllele
numAlleleFreqs INTEGER OPTIONAL,
--Total number of STS hits from
-- SnpInSts
numStsHits INTEGER OPTIONAL,
--Total number of unigene cluster ids from
-- UnigeneSnp
numUnigeneCids INTEGER OPTIONAL
},
summary NULL
} OPTIONAL,
baseURL SEQUENCE OF BaseURL OPTIONAL
}
--functional relationship of SNP (and possibly alleles) to genes at
-- contig location as defined in organism-specific bxxx_SNPContigLocusId_xxx
-- tables.
FxnSet ::= SEQUENCE {
attlist SET {
geneId INTEGER OPTIONAL, --gene-id of gene as aligned to contig
--symbol (official if present in Entrez Gene) of
-- gene
symbol VisibleString OPTIONAL,
mrnaAcc VisibleString OPTIONAL, --mRNA accession if variation in transcript
--mRNA sequence version if variation is in
-- transcripot
mrnaVer INTEGER OPTIONAL,
protAcc VisibleString OPTIONAL, --protein accession if variation in protein
--protein version if variation is in
-- protein
protVer INTEGER OPTIONAL,
--variation in region of gene, but not in
-- transcript - deprecated
fxnClass ENUMERATED {
locus-region (1),
coding-unknown (2),
synonymous-codon (3),
non-synonymous-codon (4),
mrna-utr (5),
intron-variant (6),
splice-region-variant (7),
reference (8),
coding-exception (9),
coding-sequence-variant (10),
nc-transcript-variant (11),
downstream-variant-500B (12),
upstream-variant-2KB (13),
nonsense (14),
missense (15),
frameshift-variant (16),
utr-variant-3-prime (17),
utr-variant-5-prime (18),
splice-acceptor-variant (19),
splice-donor-variant (20),
cds-indel (21),
stop-gained (22),
stop-lost (23),
complex-change-in-transcript (24),
incomplete-terminal-codon-variant (25),
nmd-transcript-variant (26),
mature-miRNA-variant (27),
upstream-variant-5KB (28),
downstream-variant-5KB (29),
intergenic (30)
} OPTIONAL,
readingFrame INTEGER OPTIONAL,
--variation allele: * suffix indicates allele of contig at this
-- location
allele VisibleString OPTIONAL,
residue VisibleString OPTIONAL, --translated amino acid residue for allele
--position of the variant residue in peptide
-- sequence
aaPosition INTEGER OPTIONAL,
mrnaPosition INTEGER OPTIONAL,
soTerm VisibleString OPTIONAL
},
--functional relationship of SNP (and possibly alleles) to genes at
-- contig location as defined in organism-specific bxxx_SNPContigLocusId_xxx
-- tables.
fxnSet NULL
}
--Position of a single hit of a variation on a
-- contig
MapLoc ::= SEQUENCE {
attlist SET {
--beginning of variation as feature on
-- contig
asnFrom INTEGER,
--end position of variation as feature on
-- contig
asnTo INTEGER,
--defines the seq-loc symbol if asn_from !=
-- asn_to
locType ENUMERATED {
insertion (1),
exact (2),
deletion (3),
range-ins (4),
range-exact (5),
range-del (6)
},
alnQuality REAL OPTIONAL, --alignment qualiity
--orientation of refSNP sequence to contig
-- sequence
orient ENUMERATED {
forward (1),
reverse (2)
} OPTIONAL,
--chromosome position as integer for
-- sorting
physMapInt INTEGER OPTIONAL,
--nearest aligned position in 5' flanking sequence of
-- snp
leftFlankNeighborPos INTEGER OPTIONAL,
rightFlankNeighborPos INTEGER OPTIONAL, --nearest aligned position in 3' flanking sequence of snp
--nearest aligned position in 5' contig alignment of
-- snp
leftContigNeighborPos INTEGER OPTIONAL,
--nearest aligned position in 3' contig alignment of
-- snp
rightContigNeighborPos INTEGER OPTIONAL,
--number of Mismatched positions in this
-- alignment
numberOfMismatches INTEGER OPTIONAL,
numberOfDeletions INTEGER OPTIONAL, --number of deletions in this alignment
numberOfInsertions INTEGER OPTIONAL, --number of insetions in this alignment
refAllele VisibleString OPTIONAL
},
fxnSet SEQUENCE OF FxnSet OPTIONAL
}
PrimarySequence ::= SEQUENCE {
attlist SET {
dbSnpBuild INTEGER,
gi INTEGER,
source ENUMERATED {
submitter (1),
blastmb (2),
xm (3),
remap (4),
hgvs (5)
} OPTIONAL,
accession VisibleString OPTIONAL
},
mapLoc SEQUENCE OF MapLoc
}
--defines the docsum structure for refSNP clusters, where a refSNP
-- cluster (rs) is a grouping of individual dbSNP submissions that all refer to the
-- same variation. The refsnp provides a single unified record for annotation of NCBI
-- resources such as reference genome sequence.
Rs ::= SEQUENCE {
attlist SET {
rsId INTEGER, --refSNP (rs) number
snpClass ENUMERATED {
snp (1),
in-del (2),
heterozygous (3),
microsatellite (4),
named-locus (5),
no-variation (6),
mixed (7),
multinucleotide-polymorphism (8)
},
snpType ENUMERATED {
notwithdrawn (1),
artifact (2),
gene-duplication (3),
duplicate-submission (4),
notspecified (5),
ambiguous-location (6),
low-map-quality (7)
},
molType ENUMERATED {
genomic (1),
cDNA (2),
mito (3),
chloro (4),
unknown (5)
},
--minimum reported success rate of all submissions in
-- cluster
validProbMin INTEGER OPTIONAL,
--maximum reported success rate of all submissions in
-- cluster
validProbMax INTEGER OPTIONAL,
--at least one genotype reported for this
-- refSNP
genotype BOOLEAN OPTIONAL,
bitField VisibleString OPTIONAL,
taxId INTEGER OPTIONAL
},
het SEQUENCE {
attlist SET {
--Est=Estimated average het from allele
-- frequencies, Obs=Observed from genotype data
type ENUMERATED {
est (1),
obs (2)
},
value REAL, --Heterozygosity
--Standard error of Het
-- estimate
stdError REAL OPTIONAL
},
het NULL
} OPTIONAL,
validation SEQUENCE {
attlist SET {
--at least one subsnp in cluster has frequency data
-- submitted
byCluster BOOLEAN OPTIONAL,
byFrequency BOOLEAN OPTIONAL, --Validated by allele frequency
byOtherPop BOOLEAN OPTIONAL,
--cluster has 2+ submissions, with 1+ submissions
-- assayed with a non-computational method
by2Hit2Allele BOOLEAN OPTIONAL,
byHapMap BOOLEAN OPTIONAL, --Validated by HapMap Project
by1000G BOOLEAN OPTIONAL, --Validated by 1000 Genomes Project
suspect BOOLEAN OPTIONAL --Suspected to be false SNP
},
--dbSNP batch-id's for other pop snp validation
-- data.
otherPopBatchId SEQUENCE OF INTEGER OPTIONAL,
--dbSNP batch-id's for double-hit snp
-- validation data. Use batch-id to get methods, etc.
twoHit2AlleleBatchId SEQUENCE OF INTEGER OPTIONAL,
--Frequency validation class (1) low frequency
-- variation that is cited in journal and other reputable
-- sources (2) greater than 5 percent minor allele freq in each
-- and all populations (4) greater than 5 percent minor allele
-- freq in 1+ populations (8) if the variant has 2+ minor
-- allele count based on freq or genotype data (16) less than 1
-- percent minor allele freq in each and all populations (32)
-- less than 1 percent minor freq in 1+ populations
frequencyClass SEQUENCE OF INTEGER OPTIONAL,
--alidated by HapMap Project phase1-genotyped
-- (1), Phase 1 genotyped; filtered, non-redundant
-- phase2-genotyped (2), Phase 2 genotyped; filtered,
-- non-redundant phase3-genotyped (4) Phase 3 genotyped;
-- filtered, non-redundant
hapMapPhase SEQUENCE OF INTEGER OPTIONAL,
--Validated by 1000 Genomes Project (TGP) pilot
-- 1 (1), pilot 2 (2), pilot 3 (4)
tGPPhase SEQUENCE OF INTEGER OPTIONAL,
--Suspected to be false SNP evidence Single
-- Nucleotide Difference - paralogous genes (1), Genotype or
-- base calling errors (2), Submission evidence or errors (4),
-- Others (8)
suspectEvidence SEQUENCE OF VisibleString OPTIONAL
},
--date the refsnp cluster was
-- instantiated
--date the refsnp cluster was
-- instantiated
create SEQUENCE {
attlist SET {
--build number when the cluster was
-- created
build INTEGER OPTIONAL,
date VisibleString OPTIONAL --yyyy-mm-dd
},
--date the refsnp cluster was
-- instantiated
create NULL
},
--most recent date the cluster was updated (member added or
-- deleted)
--most recent date the cluster was updated (member added or
-- deleted)
update SEQUENCE {
attlist SET {
--build number when the cluster was
-- updated
build INTEGER OPTIONAL,
date VisibleString OPTIONAL --yyyy-mm-dd
},
--most recent date the cluster was updated (member added or
-- deleted)
update NULL
} OPTIONAL,
sequence SEQUENCE {
attlist SET {
--dbSNP ss# selected as source of refSNP flanking
-- sequence, ss# part of ss-list below
exemplarSs INTEGER,
ancestralAllele VisibleString OPTIONAL
},
--5' sequence that flanks the
-- variation
seq5 VisibleString OPTIONAL,
--list of all nucleotide alleles observed in
-- ss-list members, correcting for reverse complementation of
-- members reported in reverse orientation
observed VisibleString,
--3' sequence that flanks the
-- variation
seq3 VisibleString OPTIONAL
},
ss SEQUENCE OF Ss,
assembly SEQUENCE OF Assembly OPTIONAL,
primarySequence SEQUENCE OF PrimarySequence OPTIONAL,
rsStruct SEQUENCE OF RsStruct OPTIONAL,
rsLinkout SEQUENCE OF RsLinkout OPTIONAL,
mergeHistory SEQUENCE OF SEQUENCE {
attlist SET {
--previously issued rs id whose member assays have
-- now been merged
rsId INTEGER,
--build id when rs id was merged into parent
-- rs
buildId INTEGER OPTIONAL,
--TRUE if strand of rs id is reverse to parent
-- object's current strand
orientFlip BOOLEAN OPTIONAL
},
mergeHistory NULL
} OPTIONAL,
hgvs SEQUENCE OF VisibleString OPTIONAL, -- HGVS name list
-- origin of this allele, if known
-- note that these are powers-of-two, and represent bits; thus, we can
-- represent more than one state simultaneously through a bitwise OR
-- unknown (0),
-- germline (1),
-- somatic (2),
-- inherited (4),
-- paternal (8),
-- maternal (16),
-- de-novo (32),
-- biparental (64),
-- uniparental (128),
-- not-tested (256),
-- tested-inconclusive (512),
alleleOrigin SEQUENCE OF
-- origin of this allele, if known
-- note that these are powers-of-two, and represent bits; thus, we can
-- represent more than one state simultaneously through a bitwise OR
-- unknown (0),
-- germline (1),
-- somatic (2),
-- inherited (4),
-- paternal (8),
-- maternal (16),
-- de-novo (32),
-- biparental (64),
-- uniparental (128),
-- not-tested (256),
-- tested-inconclusive (512),
SEQUENCE {
attlist SET {
allele VisibleString OPTIONAL
},
-- origin of this allele, if known
-- note that these are powers-of-two, and represent bits; thus, we can
-- represent more than one state simultaneously through a bitwise OR
-- unknown (0),
-- germline (1),
-- somatic (2),
-- inherited (4),
-- paternal (8),
-- maternal (16),
-- de-novo (32),
-- biparental (64),
-- uniparental (128),
-- not-tested (256),
-- tested-inconclusive (512),
alleleOrigin INTEGER
} OPTIONAL,
phenotype SEQUENCE OF SEQUENCE {
-- unknown (0),
-- untested (1),
-- non-pathogenic (2),
-- probable-non-pathogenic (3),
-- probable-pathogenic (4),
-- pathogenic (5),
-- drug response (6),
-- other (255)
clinicalSignificance SEQUENCE OF VisibleString OPTIONAL
} OPTIONAL,
bioSource SEQUENCE OF SEQUENCE {
-- unknown (0) ,
-- genomic (1) ,
-- chloroplast (2) ,
-- chromoplast (3) ,
-- kinetoplast (4) ,
-- mitochondrion (5) ,
-- plastid (6) ,
-- macronuclear (7) ,
-- extrachrom (8) ,
-- plasmid (9) ,
-- transposon (10) ,
-- insertion-seq (11) ,
-- cyanelle (12) ,
-- proviral (13) ,
-- virion (14) ,
-- nucleomorph (15) ,
-- apicoplast (16) ,
-- leucoplast (17) ,
-- proplastid (18) ,
-- endogenous-virus (19) ,
-- hydrogenosome (20) ,
-- chromosome (21) ,
-- chromatophore (22)
genome SEQUENCE OF VisibleString OPTIONAL,
-- unknown (0) ,
-- natural (1) , normal biological entity
-- natmut (2) , naturally occurring mutant
-- mut (3) , artificially mutagenized
-- artificial (4) , artificially engineered
-- synthetic (5) , purely synthetic
-- other (255)
origin SEQUENCE OF VisibleString OPTIONAL
} OPTIONAL,
frequency SEQUENCE OF SEQUENCE {
attlist SET {
freq REAL OPTIONAL,
allele VisibleString OPTIONAL,
popId INTEGER OPTIONAL, --dbSNP Populaton ID
sampleSize INTEGER OPTIONAL
},
frequency NULL
} OPTIONAL
}
--link data for another resource
RsLinkout ::= SEQUENCE {
attlist SET {
resourceId VisibleString, --BaseURLList.url_id
--value to append to ResourceURL.base-url for complete
-- link
linkValue VisibleString
},
--link data for another resource
rsLinkout NULL
}
--structure information for SNP
RsStruct ::= SEQUENCE {
attlist SET {
protAcc VisibleString OPTIONAL, --accession of the protein with variation
protGi INTEGER OPTIONAL, --GI of the protein with variation
--position of the residue for the protein
-- GI
protLoc INTEGER OPTIONAL,
--residue specified for protein at prot-loc
-- location
protResidue VisibleString OPTIONAL,
--alternative residue specified by variation
-- sequence
rsResidue VisibleString OPTIONAL,
structGi INTEGER OPTIONAL, --GI of the structure neighbor
--position of the residue for the structure
-- GI
structLoc INTEGER OPTIONAL,
--residue specified for protein at struct-loc
-- location
structResidue VisibleString OPTIONAL
},
--structure information for SNP
rsStruct NULL
}
--data for an individual submission to dbSNP
Ss ::= SEQUENCE {
attlist SET {
ssId INTEGER, --dbSNP accession number for submission
handle VisibleString, --Tag for the submitting laboratory
batchId INTEGER, --dbSNP number for batch submission
locSnpId VisibleString OPTIONAL, --submission (ss#) submitter ID
--SubSNP classification by type of
-- variation
subSnpClass ENUMERATED {
snp (1),
in-del (2),
heterozygous (3),
microsatellite (4),
named-locus (5),
no-variation (6),
mixed (7),
multinucleotide-polymorphism (8)
} OPTIONAL,
--orientation of refsnp cluster members to refsnp cluster
-- sequence
orient ENUMERATED {
forward (1),
reverse (2)
} OPTIONAL,
--strand is defined as TOP/BOTTOM by nature of flanking
-- nucleotide sequence
strand ENUMERATED {
top (1),
bottom (2)
} OPTIONAL,
molType ENUMERATED {
genomic (1),
cDNA (2),
mito (3),
chloro (4),
unknown (5)
} OPTIONAL, --moltype from Batch table
--dbSNP build number when ss# was added to a refSNP (rs#)
-- cluster
buildId INTEGER OPTIONAL,
--class of method used to assay for the
-- variation
methodClass ENUMERATED {
dHPLC (1),
hybridize (2),
computed (3),
sSCP (4),
other (5),
unknown (6),
rFLP (7),
sequence (8)
} OPTIONAL,
--subsnp has been experimentally validated by
-- submitter
validated ENUMERATED {
by-submitter (1),
by-frequency (2),
by-cluster (3)
} OPTIONAL,
--append loc-snp-id to this base URL to construct a pointer to
-- submitter data.
linkoutUrl VisibleString OPTIONAL,
ssAlias VisibleString OPTIONAL,
--
--
--
--
--
--
--
--
--
--
--
--
alleleOrigin INTEGER OPTIONAL,
--
--
--
--
--
--
--
--
--
--
--
clinicalSignificance VisibleString OPTIONAL
},
sequence SEQUENCE {
--5' sequence that flanks the
-- variation
seq5 VisibleString OPTIONAL,
--list of all nucleotide alleles observed in
-- ss-list members, correcting for reverse complementation of
-- memebers reported in reverse orientation
observed VisibleString,
--3' sequence that flanks the
-- variation
seq3 VisibleString OPTIONAL
}
}
END