Schema BioXSD-1.0.xsd

schema location:	http://bioxsd.org/BioXSD-1.0.xsd
attribute form default:	unqualified
element form default:	qualified
targetNamespace:	http://bioxsd.org/BioXSD-1.0

Complex types	Simple types
AlignedAminoacidSequence	Accession
AlignedBiosequence	AminoacidSequence
AlignedGeneralAminoacidSequence	AnyDecimal
AlignedGeneralNucleotideSequence	AnyInteger
AlignedNucleotideSequence	Biosequence
AminoacidSequenceAlignment	Certainty
AminoacidSequenceRecord	ChromosomeName
AminoacidTranslationData	DatabaseName
AnnotatedSequence	EmblAccession
BiosequenceAlignment	ExtendedGenbankAccession
BiosequenceRecord	ExtendedUniprotAccession
DatabaseReference	FreeText
Empty	GenbankAccession
EntryReference	GenbankMgaAccession
Evidence	GenbankNucleotideAccession
ExperimentalEvidence	GenbankProteinAccession
Feature	GenbankWgsAccession
FeatureData	GeneralAminoacidSequence
FeatureOccurence	GeneralNucleotideSequence
Frameshift	InsertionInteger
Gap	LocalReference
GeneralAminoacidSequenceAlignment	Name
GeneralAminoacidSequenceRecord	NcbiGeneticCodeId
GeneralNucleotideSequenceAlignment	NcbiTaxonomyId
GeneralNucleotideSequenceRecord	NonnegativeInteger
GeneralOutsideSequencePoint	NonzeroInteger
GeneralOutsideSequencePosition	NucleotideSequence
GeneralOutsideSequenceSegment	OboTermId
GeneralSequenceInsertionPoint	OntologyName
GeneralSequencePoint	OutsidePositionCorrespondance
GeneralSequencePosition	Phase
GeneralSequenceSegment	PositiveInteger
GeneticCode	Probability
Method	PubmedId
MethodResult	QualitativeCertainty
NucleotideSequenceAlignment	RecommendedDatabaseName
NucleotideSequenceRecord	RecommendedOntologyName
OntologyReference	RecommendedReliability
OntologyTerm	RecommendedScoreName
OutsideSequencePoint	RecommendedVerdict
OutsideSequencePosition	Reliability
OutsideSequenceSegment	ScoreName
PredictionResult	Strand
Result	UniprotAccession
Score	Uri
SequenceInsertionPoint	Verdict
SequencePoint
SequencePosition
SequenceReference
SequenceSegment
Species
TranslationData
WebserviceReference

Empty  complexType

diagram
properties	final  #all
used by	elements  FeatureOccurence/appliesToWholeSequence FeatureOccurence/variation/missing AlignedBiosequence/reversedDirection AlignedGeneralNucleotideSequence/reversedDirection AlignedGeneralAminoacidSequence/reversedDirection AlignedNucleotideSequence/reversedDirection AlignedAminoacidSequence/reversedDirection TranslationData/reversedTranslationDirection
source	<xs:complexType name="Empty" final="#all"/>

AnyInteger  simpleType

type	xs:long
used by	element  FeatureOccurence/frame simpleTypes  NonnegativeInteger NonzeroInteger
Documentation	Any integer number (~-9.2x10^18 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer (long, long long, int64, same as xs:long, different from xs:integer)
source	<xs:simpleType name="AnyInteger">   <xs:annotation>     <xs:documentation> Any integer number (~-9.2x10^18 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer (long, long long, int64, same as xs:long, different from xs:integer) </xs:documentation>   </xs:annotation>   <xs:restriction base="xs:long"/> </xs:simpleType>

NonnegativeInteger  simpleType

type	restriction of AnyInteger
used by	simpleType  Phase
facets	Kind  Value  annotation  minInclusive  0
Documentation	Non-negative integer number (0 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer
source	<xs:simpleType name="NonnegativeInteger">   <xs:annotation>     <xs:documentation>Non-negative integer number (0 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer</xs:documentation>   </xs:annotation>   <xs:restriction base="AnyInteger">     <xs:minInclusive value="0"/>   </xs:restriction> </xs:simpleType>

NonzeroInteger  simpleType

type	restriction of AnyInteger
used by	complexType  GeneralOutsideSequencePoint simpleTypes  InsertionInteger PositiveInteger attribute  Frameshift/@bases
facets	Kind  Value  annotation  pattern  [\-+]?[1-9][0-9]*
Documentation	Non-zero integer number (~-9.2x10^18 ... -1, 1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer
source	<xs:simpleType name="NonzeroInteger">   <xs:annotation>     <xs:documentation>Non-zero integer number (~-9.2x10^18 ... -1, 1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer</xs:documentation>   </xs:annotation>   <xs:restriction base="AnyInteger">     <xs:pattern value="[\-+]?[1-9][0-9]*"/>   </xs:restriction> </xs:simpleType>

InsertionInteger  simpleType

type	restriction of NonzeroInteger
used by	complexType  GeneralSequenceInsertionPoint attributes  Frameshift/@pos Gap/@start
facets	Kind  Value  annotation  minInclusive  -1  pattern  [\-+]?[1-9][0-9]*
Documentation	Insertion-point specific integer number (-1, 1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer
source	<xs:simpleType name="InsertionInteger">   <xs:annotation>     <xs:documentation>Insertion-point specific integer number (-1, 1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer</xs:documentation>   </xs:annotation>   <xs:restriction base="NonzeroInteger">     <xs:minInclusive value="-1"/>   </xs:restriction> </xs:simpleType>

PositiveInteger  simpleType

type	restriction of NonzeroInteger
used by	complexType  GeneralSequencePoint attribute  Gap/@len
facets	Kind  Value  annotation  minInclusive  1  pattern  [\-+]?[1-9][0-9]*
Documentation	Positive integer number (1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer
source	<xs:simpleType name="PositiveInteger">   <xs:annotation>     <xs:documentation>Positive integer number (1 ... ~9.2x10^18). Represented by a 64-bit (8B) signed long integer</xs:documentation>   </xs:annotation>   <xs:restriction base="NonzeroInteger">     <xs:minInclusive value="1"/>   </xs:restriction> </xs:simpleType>

AnyDecimal  simpleType

type	xs:double
used by	element  Score/value simpleType  Probability
Documentation	Any decimal number with double precision (-INF, ~-1.7E308 ... 0, ~5E-324 subnormal ... ~2.3E-308 ... ~1.7E308, INF; +NaN). Represented by a 64-bit (8B) signed floating point number (double, long double, same as xs:double, different from xs:decimal)
source	<xs:simpleType name="AnyDecimal">   <xs:annotation>     <xs:documentation> Any decimal number with double precision (-INF, ~-1.7E308 ... 0, ~5E-324 subnormal ... ~2.3E-308 ... ~1.7E308, INF; +NaN). Represented by a 64-bit (8B) signed floating point number (double, long double, same as xs:double, different from xs:decimal) </xs:documentation>   </xs:annotation>   <xs:restriction base="xs:double"/> </xs:simpleType>

Probability  simpleType

type	restriction of AnyDecimal
used by	simpleType  Certainty
facets	Kind  Value  annotation  minInclusive  0  maxInclusive  1
Documentation	Probability with double precision (0 ... 1). Represented by a 64-bit (8B) signed floating point number
source	<xs:simpleType name="Probability">   <xs:annotation>     <xs:documentation>Probability with double precision (0 ... 1). Represented by a 64-bit (8B) signed floating point number</xs:documentation>   </xs:annotation>   <xs:restriction base="AnyDecimal">     <xs:minInclusive value="0"/>     <xs:maxInclusive value="1"/>   </xs:restriction> </xs:simpleType>

Certainty  simpleType

type	union of (Probability, QualitativeCertainty)
used by	attributes  GeneralSequencePoint/@certainty SequencePoint/@certainty GeneralSequenceInsertionPoint/@certainty SequenceInsertionPoint/@certainty GeneralOutsideSequencePoint/@certainty OutsideSequencePoint/@certainty
Documentation	Quantitave or qualitative certainty
source	<xs:simpleType name="Certainty">   <xs:annotation>     <xs:documentation>Quantitave or qualitative certainty</xs:documentation>   </xs:annotation>   <xs:union memberTypes="Probability QualitativeCertainty"/> </xs:simpleType>

Uri  simpleType

type	restriction of xs:string
used by	elements  DatabaseReference/databaseUri EntryReference/entryUri OntologyReference/ontologyUri OntologyTerm/termUri Method/uri WebserviceReference/wsdl
facets	Kind  Value  annotation  pattern  http://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?  pattern  https://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?  pattern  ftp://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?  pattern  urn:lsid:[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*:[A-Za-z0-9\-._~]+:[A-Za-z0-9\-._~]+(:[A-Za-z0-9\-._~]+)?
Documentation	An absolute Unified Resource Identifier (URI), possibly a Web link.NB. Supports a subset of RFC 3986 generic syntax (selected schemes, DNS only, no user info, constrained port and characters)
source	<xs:simpleType name="Uri" sawsdl:modelReference="http://purl.org/edam/data/0001047">   <xs:annotation>     <xs:documentation> An absolute Unified Resource Identifier (URI), possibly a Web link. NB. Supports a subset of RFC 3986 generic syntax (selected schemes, DNS only, no user info, constrained port and characters) </xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:pattern value="http://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?"/>     <xs:pattern value="https://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?"/>     <xs:pattern value="ftp://[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*(:[2-9][0-9]{3,})?(/([A-Za-z0-9\-._~!$'()*+,;=]|%[0-9A-F]{2})+)*(\?([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?(#([A-Za-z0-9\-._~!$'()*+,;=/\?]|%[0-9A-F]{2})*)?"/>     <xs:pattern value="urn:lsid:[a-z0-9]([a-z0-9]|\-[a-z0-9])*(\.[a-z0-9]([a-z0-9]|\-[a-z0-9])*)*:[A-Za-z0-9\-._~]+:[A-Za-z0-9\-._~]+(:[A-Za-z0-9\-._~]+)?"/>   </xs:restriction> </xs:simpleType>

FreeText  simpleType

type	restriction of xs:string
used by	elements  BiosequenceRecord/customNote GeneralNucleotideSequenceRecord/customNote GeneralAminoacidSequenceRecord/customNote NucleotideSequenceRecord/customNote AminoacidSequenceRecord/customNote FeatureData/customNote BiosequenceAlignment/customNote GeneralNucleotideSequenceAlignment/customNote GeneralAminoacidSequenceAlignment/customNote NucleotideSequenceAlignment/customNote AminoacidSequenceAlignment/customNote Species/note attribute  GeneticCode/codon/@note
facets	Kind  Value  annotation  minLength  1  whiteSpace  preserve
Documentation	Any plain text (possibly formatted)
source	<xs:simpleType name="FreeText" sawsdl:modelReference="http://purl.org/edam/data/0000969">   <xs:annotation>     <xs:documentation>Any plain text (possibly formatted)</xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:minLength value="1"/>     <xs:whiteSpace value="preserve"/>   </xs:restriction> </xs:simpleType>

Name  simpleType

type	restriction of xs:string
used by	elements  Feature/className BiosequenceRecord/customName GeneralNucleotideSequenceRecord/customName GeneralAminoacidSequenceRecord/customName NucleotideSequenceRecord/customName AminoacidSequenceRecord/customName AlignedBiosequence/customSequenceName AnnotatedSequence/customSequenceName DatabaseReference/databaseVersion EntryReference/entryVersion Feature/equalAlias Score/index SequenceReference/isoformNote Method/name Feature/name Species/name OntologyReference/ontologyVersion FeatureData/association/relationName AnnotatedSequence/blockWithOccurenceReferences/annotation/occurence/association/relationName SequenceReference/sequenceVersion FeatureData/specificFeatureAlias FeatureData/specificFeatureName SequenceReference/supersequenceCustomName OntologyTerm/termName Score/unit Method/version WebserviceReference/webserviceVersion simpleTypes  ChromosomeName DatabaseName OntologyName OutsidePositionCorrespondance QualitativeCertainty RecommendedDatabaseName RecommendedOntologyName RecommendedReliability RecommendedScoreName RecommendedVerdict Reliability ScoreName Strand Verdict
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*
source	<xs:simpleType name="Name">   <xs:restriction base="xs:string">     <xs:pattern value="\S(\S|\s\S)*"/>   </xs:restriction> </xs:simpleType>

ChromosomeName  simpleType

type	restriction of Name
used by	elements  AnnotatedSequence/chromosome GeneralSequencePosition/chromosome SequencePosition/chromosome GeneralOutsideSequencePosition/chromosome OutsideSequencePosition/chromosome AlignedBiosequence/chromosome
facets	Kind  Value  annotation  pattern  [A-Z][A-Za-z]*  pattern  [0-9]+[A-Za-z]*
source	<xs:simpleType name="ChromosomeName">   <xs:restriction base="Name">     <xs:pattern value="[A-Z][A-Za-z]*"/>     <xs:pattern value="[0-9]+[A-Za-z]*"/>   </xs:restriction> </xs:simpleType>

DatabaseName  simpleType

type	union of (Name, RecommendedDatabaseName)
used by	element  DatabaseReference/databaseName
Documentation	Name of a public or private database (predefined or arbitrary name)
source	<xs:simpleType name="DatabaseName" sawsdl:modelReference="http://purl.org/edam/data/0001056">   <xs:annotation>     <xs:documentation>Name of a public or private database (predefined or arbitrary name)</xs:documentation>   </xs:annotation>   <xs:union memberTypes="Name RecommendedDatabaseName"/> </xs:simpleType>

OntologyName  simpleType

type	union of (Name, RecommendedOntologyName)
used by	element  OntologyReference/ontologyName
Documentation	Name of a public or private controlled vocabulary/ontology (predefined or arbitrary name)
source	<xs:simpleType name="OntologyName" sawsdl:modelReference="http://purl.org/edam/data/0001051">   <xs:annotation>     <xs:documentation>Name of a public or private controlled vocabulary/ontology (predefined or arbitrary name)</xs:documentation>   </xs:annotation>   <xs:union memberTypes="Name RecommendedOntologyName"/> </xs:simpleType>

ScoreName  simpleType

type	union of (Name, RecommendedScoreName)
used by	element  Score/type
source	<xs:simpleType name="ScoreName">   <xs:union memberTypes="Name RecommendedScoreName"/> </xs:simpleType>

Verdict  simpleType

type	union of (Name, RecommendedVerdict)
used by	elements  PredictionResult/verdict ExperimentalEvidence/verdict
source	<xs:simpleType name="Verdict">   <xs:union memberTypes="Name RecommendedVerdict"/> </xs:simpleType>

Reliability  simpleType

type	union of (Name, RecommendedReliability)
used by	element  ExperimentalEvidence/reliability
source	<xs:simpleType name="Reliability">   <xs:union memberTypes="Name RecommendedReliability"/> </xs:simpleType>

Phase  simpleType

type	restriction of NonnegativeInteger
used by	element  TranslationData/phase
facets	Kind  Value  annotation  minInclusive  0  maxInclusive  2
Documentation	Phase of an incomplete peptide-coding nucleotide sequence, in the direction of translation
source	<xs:simpleType name="Phase">   <xs:annotation>     <xs:documentation>Phase of an incomplete peptide-coding nucleotide sequence, in the direction of translation</xs:documentation>   </xs:annotation>   <xs:restriction base="NonnegativeInteger">     <xs:maxInclusive value="2"/>   </xs:restriction> </xs:simpleType>

GeneralNucleotideSequence  simpleType

type	restriction of xs:string
used by	element  GeneralNucleotideSequenceRecord/sequence simpleTypes  Biosequence NucleotideSequence attribute  GeneticCode/codon/@code
facets	Kind  Value  annotation  pattern  [acgtrykmswbdhvn]+  pattern  [acgurykmswbdhvn]+
Documentation	Nucleotide sequence in any letter case, possibly with ambiguous ("degenerate") bases
source	<xs:simpleType name="GeneralNucleotideSequence" sawsdl:modelReference="http://purl.org/edam/data/0001210">   <xs:annotation>     <xs:documentation>Nucleotide sequence in any letter case, possibly with ambiguous ("degenerate") bases</xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:pattern value="[acgtrykmswbdhvn]+"/>     <xs:pattern value="[acgurykmswbdhvn]+"/>   </xs:restriction> </xs:simpleType>

GeneralAminoacidSequence  simpleType

type	restriction of xs:string
used by	element  GeneralAminoacidSequenceRecord/sequence simpleTypes  AminoacidSequence Biosequence attribute  GeneticCode/codon/@aminoacid
facets	Kind  Value  annotation  pattern  [ACDEFGHIKLMNPQRSTVWYBJZXUO]+
Documentation	Amino-acid sequence in capital letters, possibly with ambiguous residues (Asx, Xle, Glx, Xaa/Unk) and additional residues (Pyl and Sec)
source	<xs:simpleType name="GeneralAminoacidSequence" sawsdl:modelReference="http://purl.org/edam/data/0001219">   <xs:annotation>     <xs:documentation> Amino-acid sequence in capital letters, possibly with ambiguous residues (Asx, Xle, Glx, Xaa/Unk) and additional residues (Pyl and Sec) </xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:pattern value="[ACDEFGHIKLMNPQRSTVWYBJZXUO]+"/>   </xs:restriction> </xs:simpleType>

Biosequence  simpleType

type	union of (GeneralNucleotideSequence, GeneralAminoacidSequence)
used by	elements  FeatureOccurence/variation/original BiosequenceRecord/sequence SequenceReference/supersequence FeatureOccurence/variation/variant
Documentation	Nucleotide or amino-acid sequence in any letter case, possibly with ambiguous bases and residues
source	<xs:simpleType name="Biosequence">   <xs:annotation>     <xs:documentation> Nucleotide or amino-acid sequence in any letter case, possibly with ambiguous bases and residues </xs:documentation>   </xs:annotation>   <xs:union memberTypes="GeneralNucleotideSequence GeneralAminoacidSequence"/> </xs:simpleType>

NucleotideSequence  simpleType

type	restriction of GeneralNucleotideSequence
used by	element  NucleotideSequenceRecord/sequence
facets	Kind  Value  annotation  pattern  [acgt]+  pattern  [acgu]+
Documentation	Nucleotide sequence in any letter case, without ambiguous ("degenerate") bases
source	<xs:simpleType name="NucleotideSequence" sawsdl:modelReference="http://purl.org/edam/data/0001211">   <xs:annotation>     <xs:documentation>Nucleotide sequence in any letter case, without ambiguous ("degenerate") bases</xs:documentation>   </xs:annotation>   <xs:restriction base="GeneralNucleotideSequence">     <xs:pattern value="[acgt]+"/>     <xs:pattern value="[acgu]+"/>   </xs:restriction> </xs:simpleType>

AminoacidSequence  simpleType

type	restriction of GeneralAminoacidSequence
used by	element  AminoacidSequenceRecord/sequence
facets	Kind  Value  annotation  pattern  [ACDEFGHIKLMNPQRSTVWY]+
Documentation	Amino-acid sequence in capital letters, without ambiguous and additional residues (Pyl, Sec)
source	<xs:simpleType name="AminoacidSequence" sawsdl:modelReference="http://purl.org/edam/data/0001218">   <xs:annotation>     <xs:documentation>Amino-acid sequence in capital letters, without ambiguous and additional residues (Pyl, Sec)</xs:documentation>   </xs:annotation>   <xs:restriction base="GeneralAminoacidSequence">     <xs:pattern value="[ACDEFGHIKLMNPQRSTVWY]+"/>   </xs:restriction> </xs:simpleType>

BiosequenceRecord  complexType

diagram
children	sequence species customName customNote formalReference translationData
used by	elements  AnnotatedSequence/sequenceRecord AlignedBiosequence/sequenceRecord complexTypes  GeneralAminoacidSequenceRecord GeneralNucleotideSequenceRecord
Documentation	Nucleotide or amino-acid sequence record including the generic sequence and optional metadata
source	<xs:complexType name="BiosequenceRecord" sawsdl:modelReference="http://purl.org/edam/data/0000849">   <xs:annotation>     <xs:documentation>Nucleotide or amino-acid sequence record including the generic sequence and optional metadata</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="sequence" type="Biosequence"/>     <xs:element name="species" type="Species" minOccurs="0"/>     <xs:element name="customName" type="Name" minOccurs="0"/>     <xs:element name="customNote" type="FreeText" minOccurs="0"/>     <xs:element name="formalReference" type="SequenceReference" minOccurs="0">       <xs:annotation>         <xs:documentation>Reference to where the sequence originates from: a database entry or an explicit super-sequence</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="translationData" type="TranslationData" minOccurs="0"/>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000849

GeneralNucleotideSequenceRecord  complexType

diagram
type	restriction of BiosequenceRecord
properties	base  BiosequenceRecord
children	sequence species customName customNote formalReference translationData
used by	element  AlignedGeneralNucleotideSequence/sequenceRecord complexType  NucleotideSequenceRecord
Documentation	Nucleotide sequence record including the generic nucleotide sequence and optional metadata
source	<xs:complexType name="GeneralNucleotideSequenceRecord" sawsdl:modelReference="http://purl.org/edam/data/0000849">   <xs:annotation>     <xs:documentation>Nucleotide sequence record including the generic nucleotide sequence and optional metadata</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="BiosequenceRecord">       <xs:sequence>         <xs:element name="sequence" type="GeneralNucleotideSequence"/>         <xs:element name="species" type="Species" minOccurs="0"/>         <xs:element name="customName" type="Name" minOccurs="0"/>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>         <xs:element name="formalReference" type="SequenceReference" minOccurs="0">           <xs:annotation>             <xs:documentation>Reference to where the sequence originates from: a database entry or an explicit super-sequence</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="translationData" type="TranslationData" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000849

GeneralAminoacidSequenceRecord  complexType

diagram
type	restriction of BiosequenceRecord
properties	base  BiosequenceRecord
children	sequence species customName customNote formalReference translationData
used by	element  AlignedGeneralAminoacidSequence/sequenceRecord complexType  AminoacidSequenceRecord
Documentation	Amino-acid sequence record including the generic amino-acid sequence and optional metadata
source	<xs:complexType name="GeneralAminoacidSequenceRecord" sawsdl:modelReference="http://purl.org/edam/data/0000849">   <xs:annotation>     <xs:documentation>Amino-acid sequence record including the generic amino-acid sequence and optional metadata</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="BiosequenceRecord">       <xs:sequence>         <xs:element name="sequence" type="GeneralAminoacidSequence"/>         <xs:element name="species" type="Species" minOccurs="0"/>         <xs:element name="customName" type="Name" minOccurs="0"/>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>         <xs:element name="formalReference" type="SequenceReference" minOccurs="0">           <xs:annotation>             <xs:documentation>Reference to where the sequence originates from: a database entry or an explicit super-sequence</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="translationData" type="AminoacidTranslationData" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000849

NucleotideSequenceRecord  complexType

diagram
type	restriction of GeneralNucleotideSequenceRecord
properties	base  GeneralNucleotideSequenceRecord
children	sequence species customName customNote formalReference translationData
used by	element  AlignedNucleotideSequence/sequenceRecord
Documentation	Nucleotide sequence record including the unambiguous nucleotide sequence and optional metadata
source	<xs:complexType name="NucleotideSequenceRecord" sawsdl:modelReference="http://purl.org/edam/data/0000849">   <xs:annotation>     <xs:documentation>Nucleotide sequence record including the unambiguous nucleotide sequence and optional metadata</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralNucleotideSequenceRecord">       <xs:sequence>         <xs:element name="sequence" type="NucleotideSequence"/>         <xs:element name="species" type="Species" minOccurs="0"/>         <xs:element name="customName" type="Name" minOccurs="0"/>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>         <xs:element name="formalReference" type="SequenceReference" minOccurs="0">           <xs:annotation>             <xs:documentation>Reference to where the sequence originates from: a database entry or an explicit super-sequence</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="translationData" type="TranslationData" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000849

AminoacidSequenceRecord  complexType

diagram
type	restriction of GeneralAminoacidSequenceRecord
properties	base  GeneralAminoacidSequenceRecord
children	sequence species customName customNote formalReference translationData
used by	element  AlignedAminoacidSequence/sequenceRecord
Documentation	Amino-acid sequence record including the unambiguous amino-acid sequence and optional metadata
source	<xs:complexType name="AminoacidSequenceRecord" sawsdl:modelReference="http://purl.org/edam/data/0000849">   <xs:annotation>     <xs:documentation>Amino-acid sequence record including the unambiguous amino-acid sequence and optional metadata</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralAminoacidSequenceRecord">       <xs:sequence>         <xs:element name="sequence" type="AminoacidSequence"/>         <xs:element name="species" type="Species" minOccurs="0"/>         <xs:element name="customName" type="Name" minOccurs="0"/>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>         <xs:element name="formalReference" type="SequenceReference" minOccurs="0">           <xs:annotation>             <xs:documentation>Reference to where the sequence originates from: a database entry or an explicit super-sequence</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="translationData" type="AminoacidTranslationData" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000849

GeneticCode  complexType

diagram
children	reference codon
used by	elements  TranslationData/geneticCode AminoacidTranslationData/geneticCode
Documentation	Particular genetic code (codon encoding)
source	<xs:complexType name="GeneticCode" sawsdl:modelReference="http://purl.org/edam/data/0001598">   <xs:annotation>     <xs:documentation>Particular genetic code (codon encoding)</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="reference" type="EntryReference" minOccurs="0"/>     <xs:element name="codon" minOccurs="0" maxOccurs="unbounded">       <xs:complexType>         <xs:attribute name="code" use="required">           <xs:annotation>             <xs:documentation>Codon code consisting of 3 bases (possibly ambiguous, "degenerate")</xs:documentation>           </xs:annotation>           <xs:simpleType>             <xs:restriction base="GeneralNucleotideSequence">               <xs:length value="3"/>             </xs:restriction>           </xs:simpleType>         </xs:attribute>         <xs:attribute name="start" type="xs:boolean" default="false"/>         <xs:attribute name="end" type="xs:boolean" default="false"/>         <xs:attribute name="aminoacid">           <xs:annotation>             <xs:documentation>One amino-acid (possibly ambiguous). NB. If the same codon codes for multiple amino-acids, use multiple 'codon' elements and fill in the 'note' attribute</xs:documentation>           </xs:annotation>           <xs:simpleType>             <xs:restriction base="GeneralAminoacidSequence">               <xs:length value="1"/>             </xs:restriction>           </xs:simpleType>         </xs:attribute>         <xs:attribute name="note" type="FreeText"/>       </xs:complexType>     </xs:element>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001598

TranslationData  complexType

diagram
children	geneticCode phase reversedTranslationDirection
used by	elements  BiosequenceRecord/translationData GeneralNucleotideSequenceRecord/translationData NucleotideSequenceRecord/translationData FeatureOccurence/translationData complexType  AminoacidTranslationData
source	<xs:complexType name="TranslationData">   <xs:sequence>     <xs:element name="geneticCode" type="GeneticCode" minOccurs="0"/>     <xs:element name="phase" type="Phase" minOccurs="0"/>     <xs:element name="reversedTranslationDirection" type="Empty" minOccurs="0"/>   </xs:sequence> </xs:complexType>

AminoacidTranslationData  complexType

diagram
type	restriction of TranslationData
properties	base  TranslationData
children	geneticCode
used by	elements  GeneralAminoacidSequenceRecord/translationData AminoacidSequenceRecord/translationData
source	<xs:complexType name="AminoacidTranslationData">   <xs:complexContent>     <xs:restriction base="TranslationData">       <xs:sequence>         <xs:element name="geneticCode" type="GeneticCode" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

DatabaseReference  complexType

diagram
children	databaseName databaseUri databaseVersion webserviceReference
used by	complexType  EntryReference
Documentation	Reference to a database
source	<xs:complexType name="DatabaseReference">   <xs:annotation>     <xs:documentation>Reference to a database</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="databaseName" type="DatabaseName" minOccurs="0"/>     <xs:element name="databaseUri" type="Uri" minOccurs="0">       <xs:annotation>         <xs:documentation>General URI of the database</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="databaseVersion" type="Name" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001670"/>     <xs:element name="webserviceReference" type="WebserviceReference" minOccurs="0"/>   </xs:sequence> </xs:complexType>

EntryReference  complexType

diagram
type	extension of DatabaseReference
properties	base  DatabaseReference
children	databaseName databaseUri databaseVersion webserviceReference accession entryUri entryVersion date
used by	elements  FeatureData/association/associatedDatabaseEntry Method/citation ExperimentalEvidence/citation FeatureData/databaseEntry ExperimentalEvidence/dataReference AnnotatedSequence/genomeBuild AlignedBiosequence/genomeBuild GeneticCode/reference complexTypes  SequenceReference Species
Documentation	Reference to an entry in a database
source	<xs:complexType name="EntryReference">   <xs:annotation>     <xs:documentation>Reference to an entry in a database</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:extension base="DatabaseReference">       <xs:sequence>         <xs:element name="accession" type="Accession" minOccurs="0"/>         <xs:element name="entryUri" type="Uri" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001054"/>         <xs:element name="entryVersion" type="Name" minOccurs="0"/>         <xs:element name="date" type="xs:date" minOccurs="0">           <xs:annotation>             <xs:documentation>Date when this reference was fully valid: created or last time updated</xs:documentation>           </xs:annotation>         </xs:element>       </xs:sequence>     </xs:extension>   </xs:complexContent> </xs:complexType>

OntologyReference  complexType

diagram
children	ontologyName ontologyUri ontologyVersion
used by	complexType  OntologyTerm
Documentation	Reference to a controlled vocabulary (ontology)
source	<xs:complexType name="OntologyReference">   <xs:annotation>     <xs:documentation>Reference to a controlled vocabulary (ontology)</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="ontologyName" type="OntologyName" minOccurs="0"/>     <xs:element name="ontologyUri" type="Uri" minOccurs="0">       <xs:annotation>         <xs:documentation>General URI of the controlled vocabulary (ontology)</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="ontologyVersion" type="Name" minOccurs="0"/>   </xs:sequence> </xs:complexType>

OntologyTerm  complexType

diagram
type	extension of OntologyReference
properties	base  OntologyReference
children	ontologyName ontologyUri ontologyVersion accession termUri termName
used by	elements  FeatureData/association/associatedTerm Method/categoryTerm Feature/classTerm Feature/equalTerm FeatureData/association/relationTerm AnnotatedSequence/blockWithOccurenceReferences/annotation/occurence/association/relationTerm FeatureData/specificFeatureTerm Score/typeTerm
Documentation	Reference to a term from a controlled vocabulary (ontology)
source	<xs:complexType name="OntologyTerm">   <xs:annotation>     <xs:documentation>Reference to a term from a controlled vocabulary (ontology)</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:extension base="OntologyReference">       <xs:sequence>         <xs:element name="accession" type="Accession" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001087"/>         <xs:element name="termUri" type="Uri" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001087"/>         <xs:element name="termName" type="Name" minOccurs="0">           <xs:annotation>             <xs:documentation> Human-readable name of the term. NB. Does not have to be always up to date and canonical. (Use also termUri or accession: up-to-date name and other properties of the term should be downloadable given the termUri or accession)</xs:documentation>           </xs:annotation>         </xs:element>       </xs:sequence>     </xs:extension>   </xs:complexContent> </xs:complexType>

Species  complexType

diagram
type	extension of EntryReference
properties	base  EntryReference
children	databaseName databaseUri databaseVersion webserviceReference accession entryUri entryVersion date name note
used by	elements  BiosequenceRecord/species GeneralNucleotideSequenceRecord/species GeneralAminoacidSequenceRecord/species NucleotideSequenceRecord/species AminoacidSequenceRecord/species AnnotatedSequence/species AlignedBiosequence/species
Documentation	Reference to a species (can be used also for a phenotype, cell line, tissue, sample, geo location, ...)
source	<xs:complexType name="Species">   <xs:annotation>     <xs:documentation>Reference to a species (can be used also for a phenotype, cell line, tissue, sample, geo location, ...)</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:extension base="EntryReference">       <xs:sequence>         <xs:element name="name" type="Name" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001045">           <xs:annotation>             <xs:documentation>Custom human-readable name of the species. NB. Does not have to be always up to date and canonical. Use also entryUri or accession if possible</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="note" type="FreeText" minOccurs="0"/>       </xs:sequence>     </xs:extension>   </xs:complexContent> </xs:complexType>

SequenceReference  complexType

diagram
type	extension of EntryReference
properties	base  EntryReference
children	databaseName databaseUri databaseVersion webserviceReference accession entryUri entryVersion date sequenceVersion isoformAccession isoformNote subsequencePosition supersequence supersequenceCustomName
used by	elements  BiosequenceRecord/formalReference GeneralNucleotideSequenceRecord/formalReference GeneralAminoacidSequenceRecord/formalReference NucleotideSequenceRecord/formalReference AminoacidSequenceRecord/formalReference AnnotatedSequence/sequenceReference AlignedBiosequence/sequenceReference
Documentation	Formal reference to a sequence in a database or an explicit super-sequence
source	<xs:complexType name="SequenceReference">   <xs:annotation>     <xs:documentation>Formal reference to a sequence in a database or an explicit super-sequence</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:extension base="EntryReference">       <xs:sequence>         <xs:element name="sequenceVersion" type="Name" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001771"/>         <xs:element name="isoformAccession" type="Accession" minOccurs="0"/>         <xs:element name="isoformNote" type="Name" minOccurs="0"/>         <xs:element name="subsequencePosition" type="SequencePosition" minOccurs="0">           <xs:annotation>             <xs:documentation>Coordinates of the sub-sequence within the referenced sequence</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="supersequence" type="Biosequence" minOccurs="0">           <xs:annotation>             <xs:documentation>Explicit super-sequence, in case it is not desired or not possible to point to a database entry</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="supersequenceCustomName" type="Name" minOccurs="0">           <xs:annotation>             <xs:documentation>Custom name of the super-sequence, in case it is not desired or not possible to point to a database entry</xs:documentation>           </xs:annotation>         </xs:element>       </xs:sequence>     </xs:extension>   </xs:complexContent> </xs:complexType>

Method  complexType

diagram
children	name uri version date categoryTerm citation webserviceReference
used by	elements  AnnotatedSequence/method MethodResult/method PredictionResult/method
attributes	Name   Type   Use   Default   Fixed   annotation localId LocalReference
source	<xs:complexType name="Method">   <xs:sequence>     <xs:element name="name" type="Name"/>     <xs:element name="uri" type="Uri" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0000977"/>     <xs:element name="version" type="Name" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001671"/>     <xs:element name="date" type="xs:date" minOccurs="0"/>     <xs:element name="categoryTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="citation" type="EntryReference" minOccurs="0" maxOccurs="unbounded" sawsdl:modelReference="http://purl.org/edam/data/0000970"/>     <xs:element name="webserviceReference" type="WebserviceReference" minOccurs="0"/>   </xs:sequence>   <xs:attribute name="localId" type="LocalReference"/> </xs:complexType>

WebserviceReference  complexType

diagram
children	wsdl wsdlService wsdlPort operation webserviceVersion date
used by	elements  DatabaseReference/webserviceReference Method/webserviceReference
Documentation	A reference to a SOAP Web service
source	<xs:complexType name="WebserviceReference">   <xs:annotation>     <xs:documentation>A reference to a SOAP Web service</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="wsdl" type="Uri"/>     <xs:element name="wsdlService" type="xs:NMTOKEN" minOccurs="0"/>     <xs:element name="wsdlPort" type="xs:NMTOKEN" minOccurs="0"/>     <xs:element name="operation" type="xs:NMTOKEN" minOccurs="0"/>     <xs:element name="webserviceVersion" type="Name" minOccurs="0"/>     <xs:element name="date" type="xs:date" minOccurs="0">       <xs:annotation>         <xs:documentation>Date when this Web-service reference was fully valid: created or last time updated</xs:documentation>       </xs:annotation>     </xs:element>   </xs:sequence> </xs:complexType>

LocalReference  simpleType

type	restriction of xs:string
used by	elements  AnnotatedSequence/blockWithOccurenceReferences/annotation/occurence/association/associatedFeatureOccurence Result/methodId PredictionResult/methodId attributes  Method/@localId AnnotatedSequence/blockWithOccurenceReferences/annotation/occurence/@localId
facets	Kind  Value  annotation  pattern  [A-Za-z0-9\-._~]+
Documentation	Identifier for local references within a data record
source	<xs:simpleType name="LocalReference">   <xs:annotation>     <xs:documentation>Identifier for local references within a data record</xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:pattern value="[A-Za-z0-9\-._~]+"/>   </xs:restriction> </xs:simpleType>

Accession  simpleType

type	restriction of xs:string
used by	elements  EntryReference/accession OntologyTerm/accession SequenceReference/isoformAccession simpleTypes  EmblAccession ExtendedGenbankAccession ExtendedUniprotAccession NcbiGeneticCodeId NcbiTaxonomyId OboTermId PubmedId
facets	Kind  Value  annotation  pattern  [A-Za-z0-9\-._~]+
Documentation	Generalisation of bioinformatic accession numbers (stable primary keys/identifiers)
source	<xs:simpleType name="Accession" sawsdl:modelReference="http://purl.org/edam/data/0000976">   <xs:annotation>     <xs:documentation>Generalisation of bioinformatic accession numbers (stable primary keys/identifiers)</xs:documentation>   </xs:annotation>   <xs:restriction base="xs:string">     <xs:pattern value="[A-Za-z0-9\-._~]+"/>   </xs:restriction> </xs:simpleType>

EmblAccession  simpleType

type	Accession
facets	Kind  Value  annotation  pattern  [A-Za-z0-9\-._~]+
source	<xs:simpleType name="EmblAccession" sawsdl:modelReference="http://purl.org/edam/data/0001107">   <xs:restriction base="Accession"/> </xs:simpleType>

ExtendedUniprotAccession  simpleType

type	restriction of Accession
used by	simpleType  UniprotAccession
facets	Kind  Value  annotation  pattern  [A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]  pattern  [OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]  pattern  [A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9].[0-9]+  pattern  [OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9].[0-9]+  pattern  [A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]-[0-9]+  pattern  [OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]-[0-9]+
Documentation	UniProt accession number, optionally with the sequence version or the splice-variant suffix
source	<xs:simpleType name="ExtendedUniprotAccession">   <xs:annotation>     <xs:documentation>UniProt accession number, optionally with the sequence version or the splice-variant suffix</xs:documentation>   </xs:annotation>   <xs:restriction base="Accession">     <xs:pattern value="[A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]"/>     <xs:pattern value="[OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]"/>     <xs:pattern value="[A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9].[0-9]+"/>     <xs:pattern value="[OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9].[0-9]+"/>     <xs:pattern value="[A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]-[0-9]+"/>     <xs:pattern value="[OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]-[0-9]+"/>   </xs:restriction> </xs:simpleType>

UniprotAccession  simpleType

type	restriction of ExtendedUniprotAccession
facets	Kind  Value  annotation  pattern  [A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]  pattern  [OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]
Documentation	UniProt accession number, without the sequence version and splice-variant suffix
source	<xs:simpleType name="UniprotAccession" sawsdl:modelReference="http://purl.org/edam/data/0001099">   <xs:annotation>     <xs:documentation>UniProt accession number, without the sequence version and splice-variant suffix</xs:documentation>   </xs:annotation>   <xs:restriction base="ExtendedUniprotAccession">     <xs:pattern value="[A-NR-Z][0-9][A-Z][A-Z0-9][A-Z0-9][0-9]"/>     <xs:pattern value="[OPQ][0-9][A-Z0-9][A-Z0-9][A-Z0-9][0-9]"/>   </xs:restriction> </xs:simpleType>

ExtendedGenbankAccession  simpleType

type	restriction of Accession
used by	simpleType  GenbankAccession
facets	Kind  Value  annotation  pattern  [A-Z][0-9]{5}(.[0-9]+)?  pattern  [A-Z]{2}[0-9]{6}(.[0-9]+)?  pattern  [A-Z]{3}[0-9]{5}(.[0-9]+)?  pattern  [A-Z]{4}[0-9]{8,10}(.[0-9]+)?  pattern  [A-Z]{5}[0-9]{7}(.[0-9]+)?  pattern  [A-Z]{2}_[0-9]{6}(.[0-9]+)?  pattern  [A-Z]{2}_[0-9]{9}(.[0-9]+)?  pattern  [A-Z]{2}_[A-Z]{4}[0-9]{8,10}(.[0-9]+)?
source	<xs:simpleType name="ExtendedGenbankAccession">   <xs:restriction base="Accession">     <xs:pattern value="[A-Z][0-9]{5}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{2}[0-9]{6}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{3}[0-9]{5}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{4}[0-9]{8,10}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{5}[0-9]{7}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{2}_[0-9]{6}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{2}_[0-9]{9}(.[0-9]+)?"/>     <xs:pattern value="[A-Z]{2}_[A-Z]{4}[0-9]{8,10}(.[0-9]+)?"/>   </xs:restriction> </xs:simpleType>

GenbankAccession  simpleType

type	restriction of ExtendedGenbankAccession
used by	simpleTypes  GenbankMgaAccession GenbankNucleotideAccession GenbankProteinAccession GenbankWgsAccession
facets	Kind  Value  annotation  pattern  [A-Z][0-9]{5}  pattern  [A-Z]{2}[0-9]{6}  pattern  [A-Z]{3}[0-9]{5}  pattern  [A-Z]{4}[0-9]{8,10}  pattern  [A-Z]{5}[0-9]{7}  pattern  [A-Z]{2}_[0-9]{6}  pattern  [A-Z]{2}_[0-9]{9}  pattern  [A-Z]{2}_[A-Z]{4}[0-9]{8,10}
source	<xs:simpleType name="GenbankAccession">   <xs:restriction base="ExtendedGenbankAccession">     <xs:pattern value="[A-Z][0-9]{5}"/>     <xs:pattern value="[A-Z]{2}[0-9]{6}"/>     <xs:pattern value="[A-Z]{3}[0-9]{5}"/>     <xs:pattern value="[A-Z]{4}[0-9]{8,10}"/>     <xs:pattern value="[A-Z]{5}[0-9]{7}"/>     <xs:pattern value="[A-Z]{2}_[0-9]{6}"/>     <xs:pattern value="[A-Z]{2}_[0-9]{9}"/>     <xs:pattern value="[A-Z]{2}_[A-Z]{4}[0-9]{8,10}"/>   </xs:restriction> </xs:simpleType>

GenbankNucleotideAccession  simpleType

type	restriction of GenbankAccession
facets	Kind  Value  annotation  pattern  [A-Z][0-9]{5}  pattern  [A-Z]{2}[0-9]{6}  pattern  [A-Z]{2}_[0-9]{6}  pattern  [A-Z]{2}_[0-9]{9}
Documentation	GenBank/EMBL/DDBJ nucleotide accession number
source	<xs:simpleType name="GenbankNucleotideAccession" sawsdl:modelReference="http://purl.org/edam/data/0001108">   <xs:annotation>     <xs:documentation>GenBank/EMBL/DDBJ nucleotide accession number</xs:documentation>   </xs:annotation>   <xs:restriction base="GenbankAccession">     <xs:pattern value="[A-Z][0-9]{5}"/>     <xs:pattern value="[A-Z]{2}[0-9]{6}"/>     <xs:pattern value="[A-Z]{2}_[0-9]{6}"/>     <xs:pattern value="[A-Z]{2}_[0-9]{9}"/>   </xs:restriction> </xs:simpleType>

GenbankProteinAccession  simpleType

type	restriction of GenbankAccession
facets	Kind  Value  annotation  pattern  [A-Z]{3}[0-9]{5}
Documentation	GenBank/EMBL/DDBJ protein accession number
source	<xs:simpleType name="GenbankProteinAccession">   <xs:annotation>     <xs:documentation>GenBank/EMBL/DDBJ protein accession number</xs:documentation>   </xs:annotation>   <xs:restriction base="GenbankAccession">     <xs:pattern value="[A-Z]{3}[0-9]{5}"/>   </xs:restriction> </xs:simpleType>

GenbankWgsAccession  simpleType

type	restriction of GenbankAccession
facets	Kind  Value  annotation  pattern  [A-Z]{4}[0-9]{8,10}  pattern  [A-Z]{2}_[A-Z]{4}[0-9]{8,10}
Documentation	GenBank/EMBL/DDBJ WGS accession number
source	<xs:simpleType name="GenbankWgsAccession">   <xs:annotation>     <xs:documentation>GenBank/EMBL/DDBJ WGS accession number</xs:documentation>   </xs:annotation>   <xs:restriction base="GenbankAccession">     <xs:pattern value="[A-Z]{4}[0-9]{8,10}"/>     <xs:pattern value="[A-Z]{2}_[A-Z]{4}[0-9]{8,10}"/>   </xs:restriction> </xs:simpleType>

GenbankMgaAccession  simpleType

type	restriction of GenbankAccession
facets	Kind  Value  annotation  pattern  [A-Z]{5}[0-9]{7}
Documentation	GenBank/EMBL/DDBJ MGA accession number
source	<xs:simpleType name="GenbankMgaAccession">   <xs:annotation>     <xs:documentation>GenBank/EMBL/DDBJ MGA accession number</xs:documentation>   </xs:annotation>   <xs:restriction base="GenbankAccession">     <xs:pattern value="[A-Z]{5}[0-9]{7}"/>   </xs:restriction> </xs:simpleType>

PubmedId  simpleType

type	restriction of Accession
facets	Kind  Value  annotation  pattern  [0-9]{1,9}
source	<xs:simpleType name="PubmedId">   <xs:restriction base="Accession">     <xs:pattern value="[0-9]{1,9}"/>   </xs:restriction> </xs:simpleType>

NcbiTaxonomyId  simpleType

type	restriction of Accession
facets	Kind  Value  annotation  pattern  [0-9]{1,9}
Documentation	NCBI Taxonomy ID (0 ... 999999999; i.e. a subset of 32-bit (4B) signed int)
source	<xs:simpleType name="NcbiTaxonomyId" sawsdl:modelReference="http://purl.org/edam/data/0001179">   <xs:annotation>     <xs:documentation>NCBI Taxonomy ID (0 ... 999999999; i.e. a subset of 32-bit (4B) signed int)</xs:documentation>   </xs:annotation>   <xs:restriction base="Accession">     <xs:pattern value="[0-9]{1,9}"/>   </xs:restriction> </xs:simpleType>

NcbiGeneticCodeId  simpleType

type	restriction of Accession
facets	Kind  Value  annotation  pattern  [1-9][0-9]?
Documentation	NCBI ID of a genetic code (1 ... 99)
source	<xs:simpleType name="NcbiGeneticCodeId">   <xs:annotation>     <xs:documentation>NCBI ID of a genetic code (1 ... 99)</xs:documentation>   </xs:annotation>   <xs:restriction base="Accession">     <xs:pattern value="[1-9][0-9]?"/>   </xs:restriction> </xs:simpleType>

OboTermId  simpleType

type	restriction of Accession
facets	Kind  Value  annotation  pattern  [0-9]{6,7}
Documentation	Term ID in an OBO-Foundry ontology
source	<xs:simpleType name="OboTermId" sawsdl:modelReference="http://purl.org/edam/data/0001087">   <xs:annotation>     <xs:documentation>Term ID in an OBO-Foundry ontology</xs:documentation>   </xs:annotation>   <xs:restriction base="Accession">     <xs:pattern value="[0-9]{6,7}"/>   </xs:restriction> </xs:simpleType>

Feature  complexType

diagram
children	name equalTerm equalAlias className classTerm properties
used by	elements  FeatureData/association/associatedFeature AnnotatedSequence/annotation/feature AnnotatedSequence/blockWithOccurenceReferences/annotation/feature
source	<xs:complexType name="Feature">   <xs:sequence>     <xs:element name="name" type="Name">       <xs:annotation>         <xs:documentation>Human-readable display name of the feature</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="equalTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="equalAlias" type="Name" minOccurs="0" maxOccurs="unbounded">       <xs:annotation>         <xs:documentation>Alternative human-readable display name of the feature</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="className" type="Name" minOccurs="0">       <xs:annotation>         <xs:documentation>More generic class of features containing this feature (human-readable display name of the class)</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="classTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="properties" type="FeatureData" minOccurs="0"/>   </xs:sequence> </xs:complexType>

FeatureData  complexType

diagram
children	databaseEntry specificFeatureName specificFeatureTerm specificFeatureAlias customNote association
used by	elements  Feature/properties FeatureOccurence/properties
Documentation	Specific properties of a feature
source	<xs:complexType name="FeatureData">   <xs:annotation>     <xs:documentation>Specific properties of a feature</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="databaseEntry" type="EntryReference" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="specificFeatureName" type="Name" minOccurs="0"/>     <xs:element name="specificFeatureTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="specificFeatureAlias" type="Name" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="customNote" type="FreeText" minOccurs="0"/>     <xs:element name="association" minOccurs="0" maxOccurs="unbounded">       <xs:complexType>         <xs:sequence>           <xs:element name="relationName" type="Name" minOccurs="0"/>           <xs:element name="relationTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>           <xs:choice>             <xs:element name="associatedFeature" type="Feature" maxOccurs="unbounded"/>             <xs:element name="associatedTerm" type="OntologyTerm" maxOccurs="unbounded"/>             <xs:element name="associatedDatabaseEntry" type="EntryReference" maxOccurs="unbounded"/>           </xs:choice>         </xs:sequence>       </xs:complexType>     </xs:element>   </xs:sequence> </xs:complexType>

FeatureOccurence  complexType

diagram
children	appliesToWholeSequence position evidence properties frame translationData variation alignment
used by	elements  AnnotatedSequence/annotation/occurence AnnotatedSequence/blockWithOccurenceReferences/annotation/occurence
Documentation	Occurence of a feature in a reference sequence. Positioned or non-positioned (applied to the whole sequence)
source	<xs:complexType name="FeatureOccurence">   <xs:annotation>     <xs:documentation>Occurence of a feature in a reference sequence. Positioned or non-positioned (applied to the whole sequence)</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:choice>       <xs:element name="appliesToWholeSequence" type="Empty"/>       <xs:element name="position" type="GeneralSequencePosition"/>     </xs:choice>     <xs:element name="evidence" type="Evidence" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="properties" type="FeatureData" minOccurs="0"/>     <xs:element name="frame" minOccurs="0">       <xs:annotation>         <xs:documentation>NB. Should be 0 for non-translated but transcribed features. Should be 'strand'*(('min'-1) mod 3 + 1) for translated features within a whole-chromosome annotation</xs:documentation>       </xs:annotation>       <xs:simpleType>         <xs:restriction base="AnyInteger">           <xs:minInclusive value="-3"/>           <xs:maxInclusive value="3"/>         </xs:restriction>       </xs:simpleType>     </xs:element>     <xs:element name="translationData" type="TranslationData" minOccurs="0"/>     <xs:element name="variation" minOccurs="0" maxOccurs="unbounded">       <xs:complexType>         <xs:sequence>           <xs:element name="original" type="Biosequence" minOccurs="0" maxOccurs="unbounded"/>           <xs:choice maxOccurs="unbounded">             <xs:element name="variant" type="Biosequence"/>             <xs:element name="missing" type="Empty"/>           </xs:choice>           <xs:element name="position" type="SequencePosition" minOccurs="0">             <xs:annotation>               <xs:documentation>NB. Corresponds to a position in the reference sequence (not to a position within the feature occurence)</xs:documentation>             </xs:annotation>           </xs:element>         </xs:sequence>       </xs:complexType>     </xs:element>     <xs:element name="alignment" minOccurs="0" sawsdl:modelReference="http://purl.org/edam/data/0001381">       <xs:complexType>         <xs:sequence>           <xs:element name="alignmentOfReference" minOccurs="0">             <xs:complexType>               <xs:sequence>                 <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>                 <xs:element name="frameshift" type="Frameshift" minOccurs="0" maxOccurs="unbounded"/>                 <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>               </xs:sequence>             </xs:complexType>             <xs:unique name="uniqueGapStart_ar">               <xs:selector xpath="gap"/>               <xs:field xpath="@start"/>             </xs:unique>             <xs:unique name="uniqueFrameshiftPos_ar">               <xs:selector xpath="frameshift"/>               <xs:field xpath="@pos"/>             </xs:unique>           </xs:element>           <xs:element name="alignedSequence" type="AlignedBiosequence">             <xs:unique name="uniqueGapStart_as">               <xs:selector xpath="gap"/>               <xs:field xpath="@start"/>             </xs:unique>             <xs:unique name="uniqueFrameshiftPos_as">               <xs:selector xpath="frameshift"/>               <xs:field xpath="@pos"/>             </xs:unique>           </xs:element>         </xs:sequence>       </xs:complexType>     </xs:element>   </xs:sequence> </xs:complexType>

AnnotatedSequence  complexType

diagram
children	sequenceRecord sequenceReference customSequenceName chromosome species genomeBuild method annotation blockWithOccurenceReferences
Documentation	Sequence annotated with sequence features
source	<xs:complexType name="AnnotatedSequence" sawsdl:modelReference="http://purl.org/edam/data/0001255">   <xs:annotation>     <xs:documentation>Sequence annotated with sequence features</xs:documentation>   </xs:annotation>   <xs:sequence>     <!--= Reference sequence =-->     <xs:choice>       <xs:element name="sequenceRecord" type="BiosequenceRecord"/>       <xs:element name="sequenceReference" type="SequenceReference"/>       <xs:element name="customSequenceName" type="Name"/>       <xs:sequence>         <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>         <xs:element name="species" type="Species"/>         <xs:element name="genomeBuild" type="EntryReference" minOccurs="0"/>       </xs:sequence>     </xs:choice>     <xs:element name="method" type="Method" minOccurs="0" maxOccurs="unbounded" sawsdl:modelReference="http://purl.org/edam/data/0000856"/>     <xs:choice maxOccurs="unbounded">       <!--= Annotation by a feature =-->       <xs:element name="annotation">         <xs:complexType>           <xs:sequence>             <!--= Feature type =-->             <xs:element name="feature" type="Feature"/>             <!--= Feature occurence(s) (instance(s)) =-->             <xs:element name="occurence" type="FeatureOccurence" minOccurs="0" maxOccurs="unbounded"/>           </xs:sequence>         </xs:complexType>       </xs:element>       <!--= Annotation by a block of inter-related features =-->       <xs:element name="blockWithOccurenceReferences">         <xs:complexType>           <xs:sequence>             <!--= Annotation by a feature (in a block) =-->             <xs:element name="annotation" maxOccurs="unbounded">               <xs:complexType>                 <xs:sequence>                   <!--= Feature type (in a block) =-->                   <xs:element name="feature" type="Feature"/>                   <!--= Feature occurence(s) (instance(s)) (in a block) =-->                   <xs:element name="occurence" minOccurs="0" maxOccurs="unbounded">                     <xs:complexType>                       <xs:complexContent>                         <xs:extension base="FeatureOccurence">                           <xs:sequence>                             <xs:element name="association" minOccurs="0" maxOccurs="unbounded">                               <xs:complexType>                                 <xs:sequence>                                   <xs:element name="relationName" type="Name" minOccurs="0"/>                                   <xs:element name="relationTerm" type="OntologyTerm" minOccurs="0" maxOccurs="unbounded"/>                                   <xs:element name="associatedFeatureOccurence" type="LocalReference" minOccurs="0" maxOccurs="unbounded"/>                                 </xs:sequence>                               </xs:complexType>                             </xs:element>                           </xs:sequence>                           <xs:attribute name="localId" type="LocalReference"/>                         </xs:extension>                       </xs:complexContent>                     </xs:complexType>                   </xs:element>                 </xs:sequence>               </xs:complexType>             </xs:element>           </xs:sequence>         </xs:complexType>         <xs:unique name="uniqueLocalId_occ">           <xs:selector xpath="annotation/occurence"/>           <xs:field xpath="@localId"/>         </xs:unique>       </xs:element>     </xs:choice>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001255

Evidence  complexType

diagram
children	predicted experimental
used by	element  FeatureOccurence/evidence
source	<xs:complexType name="Evidence">   <xs:choice>     <xs:element name="predicted" type="PredictionResult"/>     <xs:element name="experimental" type="ExperimentalEvidence"/>   </xs:choice> </xs:complexType>

MethodResult  complexType

diagram
children	method score
used by	elements  BiosequenceAlignment/alignedBy GeneralNucleotideSequenceAlignment/alignedBy GeneralAminoacidSequenceAlignment/alignedBy NucleotideSequenceAlignment/alignedBy AminoacidSequenceAlignment/alignedBy
source	<xs:complexType name="MethodResult">   <xs:sequence>     <xs:element name="method" type="Method"/>     <xs:element name="score" type="Score" minOccurs="0" maxOccurs="unbounded"/>   </xs:sequence> </xs:complexType>

Result  complexType

diagram
children	methodId score
used by	elements  FeatureOccurence/alignment/alignmentOfReference/sequenceScore AlignedBiosequence/sequenceScore AlignedGeneralNucleotideSequence/sequenceScore AlignedGeneralAminoacidSequence/sequenceScore AlignedNucleotideSequence/sequenceScore AlignedAminoacidSequence/sequenceScore
source	<xs:complexType name="Result">   <xs:sequence>     <xs:element name="methodId" type="LocalReference"/>     <xs:element name="score" type="Score" minOccurs="0" maxOccurs="unbounded"/>   </xs:sequence> </xs:complexType>

PredictionResult  complexType

diagram
children	method methodId score verdict
used by	element  Evidence/predicted
source	<xs:complexType name="PredictionResult">   <xs:sequence>     <xs:choice>       <xs:element name="method" type="Method" sawsdl:modelReference="http://purl.org/edam/data/0000856"/>       <xs:element name="methodId" type="LocalReference" sawsdl:modelReference="http://purl.org/edam/data/0000856"/>     </xs:choice>     <xs:element name="score" type="Score" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="verdict" type="Verdict" minOccurs="0"/>   </xs:sequence> </xs:complexType>

ExperimentalEvidence  complexType

diagram
children	dataReference citation verdict reliability
used by	element  Evidence/experimental
source	<xs:complexType name="ExperimentalEvidence">   <xs:sequence>     <xs:element name="dataReference" type="EntryReference" sawsdl:modelReference="http://purl.org/edam/data/0000856"/>     <xs:element name="citation" type="EntryReference" minOccurs="0" maxOccurs="unbounded" sawsdl:modelReference="http://purl.org/edam/data/0000970"/>     <xs:element name="verdict" type="Verdict" minOccurs="0"/>     <xs:element name="reliability" type="Reliability" minOccurs="0"/>   </xs:sequence> </xs:complexType>

Score  complexType

diagram
children	type typeTerm index value unit position
used by	elements  MethodResult/score Result/score PredictionResult/score
Documentation	Score of a prediction
source	<xs:complexType name="Score" sawsdl:modelReference="http://purl.org/edam/data/0001772">   <xs:annotation>     <xs:documentation>Score of a prediction</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="type" type="ScoreName"/>     <xs:element name="typeTerm" type="OntologyTerm" minOccurs="0"/>     <xs:element name="index" type="Name" minOccurs="0"/>     <xs:element name="value" type="AnyDecimal"/>     <xs:element name="unit" type="Name" minOccurs="0"/>     <xs:element name="position" type="SequencePosition" minOccurs="0">       <xs:annotation>         <xs:documentation>NB. Corresponds to a position in the reference sequence (not to a position within the feature occurence)</xs:documentation>       </xs:annotation>     </xs:element>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001772

GeneralSequencePoint  complexType

diagram
type	extension of PositiveInteger
properties	base  PositiveInteger
used by	elements  GeneralSequenceSegment/max GeneralSequenceSegment/min GeneralSequencePosition/point complexType  SequencePoint
facets	Kind  Value  annotation  minInclusive  1  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty    Certain
Documentation	Position in the sequence, referring to a single point (base, residue, or C-alpha atom), possibly with a certain level of uncertainty
source	<xs:complexType name="GeneralSequencePoint" sawsdl:modelReference="http://purl.org/edam/data/0001016 http://purl.org/edam/format/0002352">   <xs:annotation>     <xs:documentation> Position in the sequence, referring to a single point (base, residue, or C-alpha atom), possibly with a certain level of uncertainty </xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:extension base="PositiveInteger">       <xs:attribute name="strand" type="Strand"/>       <xs:attribute name="certainty" type="Certainty" default="Certain"/>     </xs:extension>   </xs:simpleContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001016 http://purl.org/edam/format/0002352

SequencePoint  complexType

diagram
type	restriction of GeneralSequencePoint
properties	base  GeneralSequencePoint
used by	elements  SequenceSegment/max SequenceSegment/min SequencePosition/point
facets	Kind  Value  annotation  minInclusive  1  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty       Certain
Documentation	Certain position in the sequence, referring to a single point (base, residue, or C-alpha atom)
source	<xs:complexType name="SequencePoint">   <xs:annotation>     <xs:documentation>Certain position in the sequence, referring to a single point (base, residue, or C-alpha atom)</xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:restriction base="GeneralSequencePoint">       <xs:attribute name="certainty" type="Certainty" fixed="Certain"/>     </xs:restriction>   </xs:simpleContent> </xs:complexType>

GeneralSequenceInsertionPoint  complexType

diagram
type	extension of InsertionInteger
properties	base  InsertionInteger
used by	element  GeneralSequencePosition/insertion complexType  SequenceInsertionPoint
facets	Kind  Value  annotation  minInclusive  -1  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty    Certain
Documentation	Position of an insertion into the sequence, possibly with a certain level of uncertainty
source	<xs:complexType name="GeneralSequenceInsertionPoint" sawsdl:modelReference="http://purl.org/edam/data/0001016">   <xs:annotation>     <xs:documentation> Position of an insertion into the sequence, possibly with a certain level of uncertainty </xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:extension base="InsertionInteger">       <xs:attribute name="strand" type="Strand"/>       <xs:attribute name="certainty" type="Certainty" default="Certain"/>     </xs:extension>   </xs:simpleContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001016

SequenceInsertionPoint  complexType

diagram
type	restriction of GeneralSequenceInsertionPoint
properties	base  GeneralSequenceInsertionPoint
used by	element  SequencePosition/insertion
facets	Kind  Value  annotation  minInclusive  -1  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty       Certain
Documentation	Certain position of an insertion into the sequence
source	<xs:complexType name="SequenceInsertionPoint">   <xs:annotation>     <xs:documentation>Certain position of an insertion into the sequence</xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:restriction base="GeneralSequenceInsertionPoint">       <xs:attribute name="certainty" type="Certainty" fixed="Certain"/>     </xs:restriction>   </xs:simpleContent> </xs:complexType>

GeneralOutsideSequencePoint  complexType

diagram
type	extension of NonzeroInteger
properties	base  NonzeroInteger
used by	elements  GeneralOutsideSequencePosition/insertion GeneralOutsideSequenceSegment/max GeneralOutsideSequenceSegment/min GeneralOutsideSequencePosition/point complexType  OutsideSequencePoint
facets	Kind  Value  annotation  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty    Certain
Documentation	Position outside of the reference sequence, referring to a single point (a nucleotide, residue, or C-alpha atom), possibly uncertain
source	<xs:complexType name="GeneralOutsideSequencePoint" sawsdl:modelReference="http://purl.org/edam/data/0001016">   <xs:annotation>     <xs:documentation> Position outside of the reference sequence, referring to a single point (a nucleotide, residue, or C-alpha atom), possibly uncertain </xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:extension base="NonzeroInteger">       <xs:attribute name="strand" type="Strand"/>       <xs:attribute name="certainty" type="Certainty" default="Certain"/>     </xs:extension>   </xs:simpleContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001016

OutsideSequencePoint  complexType

diagram
type	restriction of GeneralOutsideSequencePoint
properties	base  GeneralOutsideSequencePoint
used by	elements  OutsideSequencePosition/insertion OutsideSequenceSegment/max OutsideSequenceSegment/min OutsideSequencePosition/point
facets	Kind  Value  annotation  pattern  [\-+]?[1-9][0-9]*
attributes	Name   Type   Use   Default   Fixed   annotation strand Strand          certainty Certainty       Certain
Documentation	Certain position outside of the reference sequence, referring to a single point (a nucleotide, residue, or C-alpha atom)
source	<xs:complexType name="OutsideSequencePoint">   <xs:annotation>     <xs:documentation>Certain position outside of the reference sequence, referring to a single point (a nucleotide, residue, or C-alpha atom)</xs:documentation>   </xs:annotation>   <xs:simpleContent>     <xs:restriction base="GeneralOutsideSequencePoint">       <xs:attribute name="certainty" type="Certainty" fixed="Certain"/>     </xs:restriction>   </xs:simpleContent> </xs:complexType>

GeneralSequenceSegment  complexType

diagram
children	min max
used by	element  GeneralSequencePosition/segment complexType  SequenceSegment
Documentation	Position in the sequence referring to a continuous segment of the sequence, possibly uncertain
source	<xs:complexType name="GeneralSequenceSegment" sawsdl:modelReference="http://purl.org/edam/data/0001017">   <xs:annotation>     <xs:documentation>Position in the sequence referring to a continuous segment of the sequence, possibly uncertain</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="min" type="GeneralSequencePoint" nillable="true">       <xs:annotation>         <xs:documentation>NB. Keep 'min' &lt; 'max', use 'strand' if necessary. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="max" type="GeneralSequencePoint" nillable="true">       <xs:annotation>         <xs:documentation>NB. Keep 'max' > 'min', use 'strand' if necessary. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>       </xs:annotation>     </xs:element>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001017

SequenceSegment  complexType

diagram
type	restriction of GeneralSequenceSegment
properties	base  GeneralSequenceSegment
children	min max
used by	element  SequencePosition/segment
Documentation	Certain position in the sequence referring to a scontinuous segment of the sequence
source	<xs:complexType name="SequenceSegment">   <xs:annotation>     <xs:documentation>Certain position in the sequence referring to a scontinuous segment of the sequence</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralSequenceSegment">       <xs:sequence>         <xs:element name="min" type="SequencePoint">           <xs:annotation>             <xs:documentation>NB. Keep 'min' &lt; 'max', use 'strand' if necessary</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="max" type="SequencePoint">           <xs:annotation>             <xs:documentation>NB. Keep 'max' > 'min', use 'strand' if necessary</xs:documentation>           </xs:annotation>         </xs:element>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

GeneralOutsideSequenceSegment  complexType

diagram
children	min max
used by	element  GeneralOutsideSequencePosition/segment complexType  OutsideSequenceSegment
Documentation	Position outside of the reference sequence, referring to a continuous segment, possibly uncertain
source	<xs:complexType name="GeneralOutsideSequenceSegment" sawsdl:modelReference="http://purl.org/edam/data/0001017">   <xs:annotation>     <xs:documentation>Position outside of the reference sequence, referring to a continuous segment, possibly uncertain</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="min" type="GeneralOutsideSequencePoint" nillable="true">       <xs:annotation>         <xs:documentation>NB. Keep 'min' &lt; 'max', use 'strand' if necessary. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>       </xs:annotation>     </xs:element>     <xs:element name="max" type="GeneralOutsideSequencePoint" nillable="true">       <xs:annotation>         <xs:documentation>NB. Keep 'max' > 'min', use 'strand' if necessary. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>       </xs:annotation>     </xs:element>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001017

OutsideSequenceSegment  complexType

diagram
type	restriction of GeneralOutsideSequenceSegment
properties	base  GeneralOutsideSequenceSegment
children	min max
used by	element  OutsideSequencePosition/segment
Documentation	Certain position outside of the reference sequence, referring to a continuous segment
source	<xs:complexType name="OutsideSequenceSegment">   <xs:annotation>     <xs:documentation>Certain position outside of the reference sequence, referring to a continuous segment</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralOutsideSequenceSegment">       <xs:sequence>         <xs:element name="min" type="OutsideSequencePoint">           <xs:annotation>             <xs:documentation>NB. Keep 'min' &lt; 'max', use 'strand' if necessary</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="max" type="OutsideSequencePoint">           <xs:annotation>             <xs:documentation>NB. Keep 'max' > 'min', use 'strand' if necessary</xs:documentation>           </xs:annotation>         </xs:element>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

GeneralSequencePosition  complexType

diagram
children	segment point insertion outside chromosome
used by	element  FeatureOccurence/position complexType  SequencePosition
Documentation	Position in the sequence, referring either to a subsequence, a single point, an insertion, or outside of the sequence, possibly uncertain
source	<xs:complexType name="GeneralSequencePosition" sawsdl:modelReference="http://purl.org/edam/data/0001014">   <xs:annotation>     <xs:documentation> Position in the sequence, referring either to a subsequence, a single point, an insertion, or outside of the sequence, possibly uncertain </xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:choice>       <xs:element name="segment" type="GeneralSequenceSegment" maxOccurs="unbounded"/>       <xs:element name="point" type="GeneralSequencePoint" nillable="true" maxOccurs="unbounded">         <xs:annotation>           <xs:documentation>NB. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>         </xs:annotation>       </xs:element>       <xs:element name="insertion" type="GeneralSequenceInsertionPoint" nillable="true">         <xs:annotation>           <xs:documentation> Insertion to the right of the given point (-1 for preceeding the sequence). NB. Leave empty (set 'nil') only if 'certainty'="Unknown" </xs:documentation>         </xs:annotation>       </xs:element>       <xs:element name="outside" type="GeneralOutsideSequencePosition"/>     </xs:choice>     <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001014

SequencePosition  complexType

diagram
type	restriction of GeneralSequencePosition
properties	base  GeneralSequencePosition
children	segment point insertion outside chromosome
used by	elements  AlignedBiosequence/localAlignmentPosition AlignedGeneralNucleotideSequence/localAlignmentPosition AlignedGeneralAminoacidSequence/localAlignmentPosition AlignedNucleotideSequence/localAlignmentPosition AlignedAminoacidSequence/localAlignmentPosition FeatureOccurence/variation/position Score/position SequenceReference/subsequencePosition
Documentation	Certain position in the sequence, referring either to a subsequence, a single point, an insertion, or outside of the sequence
source	<xs:complexType name="SequencePosition">   <xs:annotation>     <xs:documentation> Certain position in the sequence, referring either to a subsequence, a single point, an insertion, or outside of the sequence </xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralSequencePosition">       <xs:sequence>         <xs:choice>           <xs:element name="segment" type="SequenceSegment" maxOccurs="unbounded"/>           <xs:element name="point" type="SequencePoint" maxOccurs="unbounded"/>           <xs:element name="insertion" type="SequenceInsertionPoint">             <xs:annotation>               <xs:documentation>Insertion to the right of the given point (-1 for preceeding the sequence)</xs:documentation>             </xs:annotation>           </xs:element>           <xs:element name="outside" type="OutsideSequencePosition"/>         </xs:choice>         <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

GeneralOutsideSequencePosition  complexType

diagram
children	correspondance segment point insertion chromosome
used by	element  GeneralSequencePosition/outside complexType  OutsideSequencePosition
Documentation	Position outside of the sequence, possibly uncertain
source	<xs:complexType name="GeneralOutsideSequencePosition" sawsdl:modelReference="http://purl.org/edam/data/0001014">   <xs:annotation>     <xs:documentation>Position outside of the sequence, possibly uncertain</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:sequence minOccurs="0">       <xs:element name="correspondance" type="OutsidePositionCorrespondance"/>       <xs:choice>         <xs:element name="segment" type="GeneralOutsideSequenceSegment" maxOccurs="unbounded"/>         <xs:element name="point" type="GeneralOutsideSequencePoint" nillable="true">           <xs:annotation>             <xs:documentation>NB. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="insertion" type="GeneralOutsideSequencePoint" nillable="true">           <xs:annotation>             <xs:documentation>Insertion to the right of the given point. NB. Leave empty (set 'nil') only if 'certainty'="Unknown"</xs:documentation>           </xs:annotation>         </xs:element>       </xs:choice>     </xs:sequence>     <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001014

OutsideSequencePosition  complexType

diagram
type	restriction of GeneralOutsideSequencePosition
properties	base  GeneralOutsideSequencePosition
children	correspondance segment point insertion chromosome
used by	element  SequencePosition/outside
Documentation	Certain position outside of the sequence
source	<xs:complexType name="OutsideSequencePosition">   <xs:annotation>     <xs:documentation>Certain position outside of the sequence</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralOutsideSequencePosition">       <xs:sequence>         <xs:sequence minOccurs="0">           <xs:element name="correspondance" type="OutsidePositionCorrespondance"/>           <xs:choice>             <xs:element name="segment" type="OutsideSequenceSegment" maxOccurs="unbounded"/>             <xs:element name="point" type="OutsideSequencePoint"/>             <xs:element name="insertion" type="OutsideSequencePoint">               <xs:annotation>                 <xs:documentation>Insertion to the right of the given point</xs:documentation>               </xs:annotation>             </xs:element>           </xs:choice>         </xs:sequence>         <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

Gap  complexType

diagram
used by	elements  FeatureOccurence/alignment/alignmentOfReference/gap AlignedBiosequence/gap AlignedGeneralNucleotideSequence/gap AlignedGeneralAminoacidSequence/gap AlignedNucleotideSequence/gap AlignedAminoacidSequence/gap
attributes	Name   Type   Use   Default   Fixed   annotation start InsertionInteger required         len PositiveInteger required
Documentation	Single gap in an aligned sequence
source	<xs:complexType name="Gap">   <xs:annotation>     <xs:documentation>Single gap in an aligned sequence</xs:documentation>   </xs:annotation>   <xs:attribute name="start" type="InsertionInteger" use="required"/>   <xs:attribute name="len" type="PositiveInteger" use="required"/> </xs:complexType>

Frameshift  complexType

diagram
used by	elements  FeatureOccurence/alignment/alignmentOfReference/frameshift AlignedBiosequence/frameshift AlignedGeneralAminoacidSequence/frameshift AlignedAminoacidSequence/frameshift
attributes	Name   Type   Use   Default   Fixed   annotation pos InsertionInteger required         bases derived by: NonzeroInteger required
Documentation	Frame-shift in an aligned amino-acid sequence
source	<xs:complexType name="Frameshift">   <xs:annotation>     <xs:documentation>Frame-shift in an aligned amino-acid sequence</xs:documentation>   </xs:annotation>   <xs:attribute name="pos" type="InsertionInteger" use="required"/>   <xs:attribute name="bases" use="required">     <xs:simpleType>       <xs:restriction base="NonzeroInteger">         <xs:minInclusive value="-2"/>         <xs:maxInclusive value="2"/>       </xs:restriction>     </xs:simpleType>   </xs:attribute> </xs:complexType>

AlignedBiosequence  complexType

diagram
children	localAlignmentPosition sequenceRecord sequenceReference customSequenceName chromosome species genomeBuild gap frameshift reversedDirection sequenceScore
used by	elements  FeatureOccurence/alignment/alignedSequence BiosequenceAlignment/alignedSequence complexTypes  AlignedGeneralAminoacidSequence AlignedGeneralNucleotideSequence
source	<xs:complexType name="AlignedBiosequence">   <xs:sequence>     <xs:element name="localAlignmentPosition" type="SequencePosition" minOccurs="0">       <xs:annotation>         <xs:documentation>Coordinates of the locally aligned sub-sequence. (Not present means global alignment)</xs:documentation>       </xs:annotation>     </xs:element>     <xs:choice>       <xs:element name="sequenceRecord" type="BiosequenceRecord"/>       <xs:element name="sequenceReference" type="SequenceReference"/>       <xs:element name="customSequenceName" type="Name"/>       <xs:sequence>         <xs:element name="chromosome" type="ChromosomeName" minOccurs="0"/>         <xs:element name="species" type="Species"/>         <xs:element name="genomeBuild" type="EntryReference" minOccurs="0"/>       </xs:sequence>     </xs:choice>     <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="frameshift" type="Frameshift" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="reversedDirection" type="Empty" minOccurs="0"/>     <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>   </xs:sequence> </xs:complexType>

AlignedGeneralNucleotideSequence  complexType

diagram
type	restriction of AlignedBiosequence
properties	base  AlignedBiosequence
children	localAlignmentPosition sequenceRecord gap reversedDirection sequenceScore
used by	element  GeneralNucleotideSequenceAlignment/alignedSequence complexType  AlignedNucleotideSequence
source	<xs:complexType name="AlignedGeneralNucleotideSequence">   <xs:complexContent>     <xs:restriction base="AlignedBiosequence">       <xs:sequence>         <xs:element name="localAlignmentPosition" type="SequencePosition" minOccurs="0">           <xs:annotation>             <xs:documentation>Coordinates of the locally aligned sub-sequence. (Not present means global alignment)</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="sequenceRecord" type="GeneralNucleotideSequenceRecord"/>         <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="reversedDirection" type="Empty" minOccurs="0"/>         <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

AlignedGeneralAminoacidSequence  complexType

diagram
type	restriction of AlignedBiosequence
properties	base  AlignedBiosequence
children	localAlignmentPosition sequenceRecord gap frameshift reversedDirection sequenceScore
used by	element  GeneralAminoacidSequenceAlignment/alignedSequence complexType  AlignedAminoacidSequence
source	<xs:complexType name="AlignedGeneralAminoacidSequence">   <xs:complexContent>     <xs:restriction base="AlignedBiosequence">       <xs:sequence>         <xs:element name="localAlignmentPosition" type="SequencePosition" minOccurs="0">           <xs:annotation>             <xs:documentation>Coordinates of the locally aligned sub-sequence. (Not present means global alignment)</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="sequenceRecord" type="GeneralAminoacidSequenceRecord"/>         <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="frameshift" type="Frameshift" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="reversedDirection" type="Empty" minOccurs="0"/>         <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

AlignedNucleotideSequence  complexType

diagram
type	restriction of AlignedGeneralNucleotideSequence
properties	base  AlignedGeneralNucleotideSequence
children	localAlignmentPosition sequenceRecord gap reversedDirection sequenceScore
used by	element  NucleotideSequenceAlignment/alignedSequence
source	<xs:complexType name="AlignedNucleotideSequence">   <xs:complexContent>     <xs:restriction base="AlignedGeneralNucleotideSequence">       <xs:sequence>         <xs:element name="localAlignmentPosition" type="SequencePosition" minOccurs="0">           <xs:annotation>             <xs:documentation>Coordinates of the locally aligned sub-sequence. (Not present means global alignment)</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="sequenceRecord" type="NucleotideSequenceRecord"/>         <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="reversedDirection" type="Empty" minOccurs="0"/>         <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

AlignedAminoacidSequence  complexType

diagram
type	restriction of AlignedGeneralAminoacidSequence
properties	base  AlignedGeneralAminoacidSequence
children	localAlignmentPosition sequenceRecord gap frameshift reversedDirection sequenceScore
used by	element  AminoacidSequenceAlignment/alignedSequence
source	<xs:complexType name="AlignedAminoacidSequence">   <xs:complexContent>     <xs:restriction base="AlignedGeneralAminoacidSequence">       <xs:sequence>         <xs:element name="localAlignmentPosition" type="SequencePosition" minOccurs="0">           <xs:annotation>             <xs:documentation>Coordinates of the locally aligned sub-sequence. (Not present means global alignment)</xs:documentation>           </xs:annotation>         </xs:element>         <xs:element name="sequenceRecord" type="AminoacidSequenceRecord"/>         <xs:element name="gap" type="Gap" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="frameshift" type="Frameshift" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="reversedDirection" type="Empty" minOccurs="0"/>         <xs:element name="sequenceScore" type="Result" minOccurs="0" maxOccurs="unbounded"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>

BiosequenceAlignment  complexType

diagram
children	alignedBy alignedSequence customNote
used by	complexTypes  GeneralAminoacidSequenceAlignment GeneralNucleotideSequenceAlignment
Documentation	Alignment of 2..n generic nucleotide or amino-acid sequences
source	<xs:complexType name="BiosequenceAlignment" sawsdl:modelReference="http://purl.org/edam/data/0000863">   <xs:annotation>     <xs:documentation>Alignment of 2..n generic nucleotide or amino-acid sequences</xs:documentation>   </xs:annotation>   <xs:sequence>     <xs:element name="alignedBy" type="MethodResult" minOccurs="0" maxOccurs="unbounded"/>     <xs:element name="alignedSequence" type="AlignedBiosequence" minOccurs="2" maxOccurs="unbounded">       <xs:unique name="uniqueGapStart_b">         <xs:selector xpath="gap"/>         <xs:field xpath="@start"/>       </xs:unique>       <xs:unique name="uniqueFrameshiftPos_b">         <xs:selector xpath="frameshift"/>         <xs:field xpath="@pos"/>       </xs:unique>     </xs:element>     <xs:element name="customNote" type="FreeText" minOccurs="0"/>   </xs:sequence> </xs:complexType>
Model Reference	http://purl.org/edam/data/0000863

GeneralNucleotideSequenceAlignment  complexType

diagram
type	restriction of BiosequenceAlignment
properties	base  BiosequenceAlignment
children	alignedBy alignedSequence customNote
used by	complexType  NucleotideSequenceAlignment
Documentation	Alignment of 2..n generic nucleotide sequences
source	<xs:complexType name="GeneralNucleotideSequenceAlignment" sawsdl:modelReference="http://purl.org/edam/data/0001383">   <xs:annotation>     <xs:documentation>Alignment of 2..n generic nucleotide sequences</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="BiosequenceAlignment">       <xs:sequence>         <xs:element name="alignedBy" type="MethodResult" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="alignedSequence" type="AlignedGeneralNucleotideSequence" minOccurs="2" maxOccurs="unbounded">           <xs:unique name="uniqueGapStart_gn">             <xs:selector xpath="gap"/>             <xs:field xpath="@start"/>           </xs:unique>         </xs:element>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001383

GeneralAminoacidSequenceAlignment  complexType

diagram
type	restriction of BiosequenceAlignment
properties	base  BiosequenceAlignment
children	alignedBy alignedSequence customNote
used by	complexType  AminoacidSequenceAlignment
Documentation	Alignment of 2..n generic amino-acid sequences
source	<xs:complexType name="GeneralAminoacidSequenceAlignment" sawsdl:modelReference="http://purl.org/edam/data/0001384">   <xs:annotation>     <xs:documentation>Alignment of 2..n generic amino-acid sequences</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="BiosequenceAlignment">       <xs:sequence>         <xs:element name="alignedBy" type="MethodResult" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="alignedSequence" type="AlignedGeneralAminoacidSequence" minOccurs="2" maxOccurs="unbounded">           <xs:unique name="uniqueGapStart_ga">             <xs:selector xpath="gap"/>             <xs:field xpath="@start"/>           </xs:unique>           <xs:unique name="uniqueFrameshiftPos_ga">             <xs:selector xpath="frameshift"/>             <xs:field xpath="@pos"/>           </xs:unique>         </xs:element>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001384

NucleotideSequenceAlignment  complexType

diagram
type	restriction of GeneralNucleotideSequenceAlignment
properties	base  GeneralNucleotideSequenceAlignment
children	alignedBy alignedSequence customNote
Documentation	Alignment of 2..n nucleotide sequences
source	<xs:complexType name="NucleotideSequenceAlignment" sawsdl:modelReference="http://purl.org/edam/data/0001383">   <xs:annotation>     <xs:documentation>Alignment of 2..n nucleotide sequences</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralNucleotideSequenceAlignment">       <xs:sequence>         <xs:element name="alignedBy" type="MethodResult" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="alignedSequence" type="AlignedNucleotideSequence" minOccurs="2" maxOccurs="unbounded">           <xs:unique name="uniqueGapStart_n">             <xs:selector xpath="gap"/>             <xs:field xpath="@start"/>           </xs:unique>         </xs:element>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001383

AminoacidSequenceAlignment  complexType

diagram
type	restriction of GeneralAminoacidSequenceAlignment
properties	base  GeneralAminoacidSequenceAlignment
children	alignedBy alignedSequence customNote
Documentation	Alignment of 2..n amino-acid sequences
source	<xs:complexType name="AminoacidSequenceAlignment" sawsdl:modelReference="http://purl.org/edam/data/0001384">   <xs:annotation>     <xs:documentation>Alignment of 2..n amino-acid sequences</xs:documentation>   </xs:annotation>   <xs:complexContent>     <xs:restriction base="GeneralAminoacidSequenceAlignment">       <xs:sequence>         <xs:element name="alignedBy" type="MethodResult" minOccurs="0" maxOccurs="unbounded"/>         <xs:element name="alignedSequence" type="AlignedAminoacidSequence" minOccurs="2" maxOccurs="unbounded">           <xs:unique name="uniqueGapStart_a">             <xs:selector xpath="gap"/>             <xs:field xpath="@start"/>           </xs:unique>           <xs:unique name="uniqueFrameshiftPos_a">             <xs:selector xpath="frameshift"/>             <xs:field xpath="@pos"/>           </xs:unique>         </xs:element>         <xs:element name="customNote" type="FreeText" minOccurs="0"/>       </xs:sequence>     </xs:restriction>   </xs:complexContent> </xs:complexType>
Model Reference	http://purl.org/edam/data/0001384

RecommendedScoreName  simpleType

type	restriction of Name
used by	simpleType  ScoreName
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  p-value  enumeration  E-value  enumeration  Bit score  enumeration  Probability
source	<xs:simpleType name="RecommendedScoreName">   <xs:restriction base="Name">     <xs:enumeration value="p-value" sawsdl:modelReference="http://purl.org/edam/data/0001669"/>     <xs:enumeration value="E-value" sawsdl:modelReference="http://purl.org/edam/data/0001667"/>     <xs:enumeration value="Bit score"/>     <xs:enumeration value="Probability"/>   </xs:restriction> </xs:simpleType>

RecommendedVerdict  simpleType

type	restriction of Name
used by	simpleType  Verdict
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  Present  enumeration  Putative  enumeration  Improbable  enumeration  Not present
Documentation	Predefined, recommended verdict of a predicted or experimental evidence
source	<xs:simpleType name="RecommendedVerdict">   <xs:annotation>     <xs:documentation>Predefined, recommended verdict of a predicted or experimental evidence</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="Present"/>     <xs:enumeration value="Putative"/>     <xs:enumeration value="Improbable"/>     <xs:enumeration value="Not present"/>   </xs:restriction> </xs:simpleType>

RecommendedReliability  simpleType

type	restriction of Name
used by	simpleType  Reliability
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  Reliable  enumeration  Disputable
Documentation	Predefined, recommended reliability of an experimental evidence
source	<xs:simpleType name="RecommendedReliability">   <xs:annotation>     <xs:documentation>Predefined, recommended reliability of an experimental evidence</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="Reliable"/>     <xs:enumeration value="Disputable"/>   </xs:restriction> </xs:simpleType>

QualitativeCertainty  simpleType

type	restriction of Name
used by	simpleType  Certainty
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  Certain  enumeration  Uncertain  enumeration  Unknown  documentation The reffered value completely unknown, not the certainty unknown enumeration  Certainly greater or equal  enumeration  Certainly less or equal
Documentation	Qualitative certainty tag
source	<xs:simpleType name="QualitativeCertainty">   <xs:annotation>     <xs:documentation>Qualitative certainty tag</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="Certain"/>     <xs:enumeration value="Uncertain"/>     <xs:enumeration value="Unknown">       <xs:annotation>         <xs:documentation>The reffered value completely unknown, not the certainty unknown</xs:documentation>       </xs:annotation>     </xs:enumeration>     <xs:enumeration value="Certainly greater or equal"/>     <xs:enumeration value="Certainly less or equal"/>   </xs:restriction> </xs:simpleType>

Strand  simpleType

type	restriction of Name
used by	attributes  GeneralSequencePoint/@strand GeneralSequenceInsertionPoint/@strand GeneralOutsideSequencePoint/@strand
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  +  enumeration  -  enumeration  + over start  enumeration  - over start  enumeration  Unknown
source	<xs:simpleType name="Strand" sawsdl:modelReference="http://purl.org/edam/data/0000853">   <xs:restriction base="Name">     <xs:enumeration value="+"/>     <xs:enumeration value="-"/>     <xs:enumeration value="+ over start"/>     <xs:enumeration value="- over start"/>     <xs:enumeration value="Unknown"/>   </xs:restriction> </xs:simpleType>

OutsidePositionCorrespondance  simpleType

type	restriction of Name
used by	elements  GeneralOutsideSequencePosition/correspondance OutsideSequencePosition/correspondance
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  In chromosome  documentation The outside position is in the nucleotide sequence of the either explicitly given chromosome or the chromosome of the reference sequence. Outside-positions 1..m are positions in the chromosome enumeration  In referenced supersequence  documentation The outside position is in an explicitly referenced nucleotide or amino-acid supersequence (respectively) of the reference sequence. Outside-positions 1..m are in the explicitly referenced supersequence enumeration  In implicit supersequence  documentation The outside position is in a nucleotide or amino-acid supersequence (respectively) of the reference subsequence. Positions 1..n correspond, position -1 is the preceding (next point to the left) from 1 enumeration  Relative to 1st translated base  documentation The outside position is in a nucleotide sequence. Position 1 corresponds to the 1st base of the 1st translated codon within the reference isoform, position -1 is the next to the left from 1 (NB. CDSs include the start and stop codons: do not use this correspondance option for outside features of CDSs) enumeration  Relative to 1st transcribed base  documentation The outside position is in a nucleotide sequence. Position 1 corresponds to the 1st base transcribed within the reference isoform, position -1 is the next to the left from 1
Documentation	Correspondance of the outside positions to the reference sequence
source	<xs:simpleType name="OutsidePositionCorrespondance">   <xs:annotation>     <xs:documentation>Correspondance of the outside positions to the reference sequence</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="In chromosome">       <xs:annotation>         <xs:documentation> The outside position is in the nucleotide sequence of the either explicitly given chromosome or the chromosome of the reference sequence. Outside-positions 1..m are positions in the chromosome </xs:documentation>       </xs:annotation>     </xs:enumeration>     <xs:enumeration value="In referenced supersequence">       <xs:annotation>         <xs:documentation> The outside position is in an explicitly referenced nucleotide or amino-acid supersequence (respectively) of the reference sequence. Outside-positions 1..m are in the explicitly referenced supersequence </xs:documentation>       </xs:annotation>     </xs:enumeration>     <xs:enumeration value="In implicit supersequence">       <xs:annotation>         <xs:documentation> The outside position is in a nucleotide or amino-acid supersequence (respectively) of the reference subsequence. Positions 1..n correspond, position -1 is the preceding (next point to the left) from 1 </xs:documentation>       </xs:annotation>     </xs:enumeration>     <xs:enumeration value="Relative to 1st translated base">       <xs:annotation>         <xs:documentation> The outside position is in a nucleotide sequence. Position 1 corresponds to the 1st base of the 1st translated codon within the reference isoform, position -1 is the next to the left from 1 (NB. CDSs include the start and stop codons: do not use this correspondance option for outside features of CDSs) </xs:documentation>       </xs:annotation>     </xs:enumeration>     <xs:enumeration value="Relative to 1st transcribed base">       <xs:annotation>         <xs:documentation> The outside position is in a nucleotide sequence. Position 1 corresponds to the 1st base transcribed within the reference isoform, position -1 is the next to the left from 1 </xs:documentation>       </xs:annotation>     </xs:enumeration>   </xs:restriction> </xs:simpleType>

RecommendedDatabaseName  simpleType

type	restriction of Name
used by	simpleType  DatabaseName
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  EMBL  enumeration  EMBLCON  enumeration  EMBLANN  enumeration  EMBLCDS  enumeration  EMBLSVA  enumeration  Ensembl Gene  enumeration  Ensembl Transcript  enumeration  UniProt  enumeration  UniProt/Swiss-Prot  enumeration  UniProt/TrEMBL  enumeration  UniSave  enumeration  UniRef100  enumeration  UniRef90  enumeration  UniRef50  enumeration  UniParc  enumeration  IPI  enumeration  RefSeq  enumeration  InterPro  enumeration  PDB  enumeration  HGVbase  enumeration  GenomeReviews  enumeration  EPO Proteins  enumeration  JPO Proteins  enumeration  KIPO Proteins  enumeration  USPO Proteins  enumeration  Medline  enumeration  DDBJ/GenBank/EMBL  enumeration  UniProt  enumeration  PDB  enumeration  DAD  enumeration  PRF  enumeration  Patent  enumeration  NCBI Taxonomy  enumeration  NCBI Genetic Code
Documentation	Predefined, recommended database name of a public database
source	<xs:simpleType name="RecommendedDatabaseName">   <xs:annotation>     <xs:documentation>Predefined, recommended database name of a public database</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="EMBL"/>     <xs:enumeration value="EMBLCON"/>     <xs:enumeration value="EMBLANN"/>     <xs:enumeration value="EMBLCDS"/>     <xs:enumeration value="EMBLSVA"/>     <xs:enumeration value="Ensembl Gene"/>     <xs:enumeration value="Ensembl Transcript"/>     <xs:enumeration value="UniProt" sawsdl:modelReference="http://purl.org/edam/resource/0000651"/>     <xs:enumeration value="UniProt/Swiss-Prot" sawsdl:modelReference="http://purl.org/edam/resource/0000649"/>     <xs:enumeration value="UniProt/TrEMBL" sawsdl:modelReference="http://purl.org/edam/resource/0000650"/>     <xs:enumeration value="UniSave"/>     <xs:enumeration value="UniRef100"/>     <xs:enumeration value="UniRef90"/>     <xs:enumeration value="UniRef50"/>     <xs:enumeration value="UniParc"/>     <xs:enumeration value="IPI"/>     <xs:enumeration value="RefSeq"/>     <xs:enumeration value="InterPro"/>     <xs:enumeration value="PDB"/>     <xs:enumeration value="HGVbase"/>     <xs:enumeration value="GenomeReviews"/>     <xs:enumeration value="EPO Proteins"/>     <xs:enumeration value="JPO Proteins"/>     <xs:enumeration value="KIPO Proteins"/>     <xs:enumeration value="USPO Proteins"/>     <xs:enumeration value="Medline"/>     <xs:enumeration value="DDBJ/GenBank/EMBL"/>     <xs:enumeration value="UniProt"/>     <xs:enumeration value="PDB"/>     <xs:enumeration value="DAD"/>     <xs:enumeration value="PRF"/>     <xs:enumeration value="Patent"/>     <xs:enumeration value="NCBI Taxonomy" sawsdl:modelReference="http://purl.org/edam/resource/0000833"/>     <xs:enumeration value="NCBI Genetic Code"/>   </xs:restriction> </xs:simpleType>

RecommendedOntologyName  simpleType

type	restriction of Name
used by	simpleType  OntologyName
facets	Kind  Value  annotation  pattern  \S(\S|\s\S)*  enumeration  Gene Ontology  enumeration  Sequence Ontology  enumeration  Protein Features Ontology
Documentation	Predefined, recommended ontology name of a public ontology
source	<xs:simpleType name="RecommendedOntologyName">   <xs:annotation>     <xs:documentation>Predefined, recommended ontology name of a public ontology</xs:documentation>   </xs:annotation>   <xs:restriction base="Name">     <xs:enumeration value="Gene Ontology" sawsdl:modelReference="http://purl.org/edam/resource/0000830"/>     <xs:enumeration value="Sequence Ontology"/>     <xs:enumeration value="Protein Features Ontology"/>   </xs:restriction> </xs:simpleType>