| http://purl.uniprot.org/unirules/MF_00959#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:333815 up:source unirule:MF_00959 .
_:333816 up:source unirule:MF_00959 .
_:333817 up:source unirule:MF_00959 .
_:333818 up:source unirule:MF_00959 .
_:333819 up:source unirule:MF_00959 .
_:333820 up:source unirule:MF_00959 .
_:333821 up:source unirule:MF_00959 .
_:333822 up:source unirule:MF_00959 .
_:333823 up:source unirule:MF_00959 .
_:333824 up:source unirule:MF_00959 .
_:333825 up:source unirule:MF_00959 .
_:333826 up:source unirule:MF_00959 .
_:333827 up:source unirule:MF_00959 .
_:333828 up:source unirule:MF_00959 .
_:333829 up:source unirule:MF_00959 .
_:333830 up:source unirule:MF_00959 .
_:333831 up:source unirule:MF_00959 .
_:333832 up:source unirule:MF_00959 .
_:333833 up:source unirule:MF_00959 .
_:333834 up:source unirule:MF_00959 .
_:333835 up:source unirule:MF_00959 .
_:333836 up:source unirule:MF_00959 .
_:333837 up:source unirule:MF_00959 .
_:333838 up:source unirule:MF_00959 .
?this up:alternativeName ?name1 ,
?name2 ;
up:annotation ?annotation4 ,
?annotation5 ,
?annotation6 ,
?annotation8 ;
up:classifiedWith GO:0003677 ,
GO:0005737 ,
GO:0006352 ,
GO:0010468 ,
GO:0016987 ,
keyword:238 ,
keyword:731 ,
keyword:804 ,
keyword:805 ,
keyword:963 ;
up:recommendedName ?name0 .
?name0 up:fullName 'RNA polymerase sigma factor RpoS' ;
rdf:type up:Structured_Name .
?name1 up:fullName 'Sigma S' ;
rdf:type up:Structured_Name .
?name2 up:fullName 'Sigma-38' ;
rdf:type up:Structured_Name .
?gene3 skos:prefLabel 'rpoS' .
?annotation4 a up:Function_Annotation ;
rdfs:comment 'Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the master transcriptional regulator of the stationary phase and the general stress response.' .
?annotation5 a up:Subunit_Annotation ;
rdfs:comment 'Interacts with the RNA polymerase core enzyme.' .
?annotation6 a up:Subcellular_Location_Annotation .
?annotation6li7 up:cellularComponent .
?annotation8 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the sigma-70 factor family. RpoS subfamily.' .
?pfs9 up:annotation ?annotation10 .
?annotation10 faldo:begin ?pfsb11 ;
faldo:end ?pfse12 ;
rdf:type up:Nucleotide_Binding_Annotation ;
rdfs:comment 'H-T-H motif' .
?pfsb11 faldo:position ?thisPositionOn13 ;
rdf:type faldo:ExactPosition .
?pfse12 faldo:position ?thisPositionOn14 ;
rdf:type faldo:ExactPosition .
?pfs15 up:annotation ?annotation16 .
?annotation16 faldo:begin ?pfsb17 ;
faldo:end ?pfse18 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Sigma-70 factor domain-1' .
?pfsb17 faldo:position ?thisPositionOn19 ;
rdf:type faldo:ExactPosition .
?pfse18 faldo:position ?thisPositionOn20 ;
rdf:type faldo:ExactPosition .
?pfs21 up:annotation ?annotation22 .
?annotation22 faldo:begin ?pfsb23 ;
faldo:end ?pfse24 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Sigma-70 factor domain-2' .
?pfsb23 faldo:position ?thisPositionOn25 ;
rdf:type faldo:ExactPosition .
?pfse24 faldo:position ?thisPositionOn26 ;
rdf:type faldo:ExactPosition .
?pfs27 up:annotation ?annotation28 .
?annotation28 faldo:begin ?pfsb29 ;
faldo:end ?pfse30 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Sigma-70 factor domain-3' .
?pfsb29 faldo:position ?thisPositionOn31 ;
rdf:type faldo:ExactPosition .
?pfse30 faldo:position ?thisPositionOn32 ;
rdf:type faldo:ExactPosition .
?pfs33 up:annotation ?annotation34 .
?annotation34 faldo:begin ?pfsb35 ;
faldo:end ?pfse36 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Sigma-70 factor domain-4' .
?pfsb35 faldo:position ?thisPositionOn37 ;
rdf:type faldo:ExactPosition .
?pfse36 faldo:position ?thisPositionOn38 ;
rdf:type faldo:ExactPosition .
?pfs39 up:annotation ?annotation40 .
?annotation40 faldo:begin ?pfsb41 ;
faldo:end ?pfse42 ;
rdf:type up:Motif_Annotation ;
rdfs:comment 'Interaction with polymerase core subunit RpoC' .
?pfsb41 faldo:position ?thisPositionOn43 ;
rdf:type faldo:ExactPosition .
?pfse42 faldo:position ?thisPositionOn44 ;
rdf:type faldo:ExactPosition .
_:333839 a rdf:Statement ;
up:attribution _:333815 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:333840 a rdf:Statement ;
up:attribution _:333816 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:333841 a rdf:Statement ;
up:attribution _:333817 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name2 .
_:333842 a rdf:Statement ;
up:attribution _:333818 ;
rdf:subject ?gene3 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene3 .
_:333843 a rdf:Statement ;
up:attribution _:333819 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation4 .
_:333844 a rdf:Statement ;
up:attribution _:333820 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation5 .
_:333845 a rdf:Statement ;
up:attribution _:333821 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation6 .
_:333846 a rdf:Statement ;
up:attribution _:333822 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation8 .
_:333847 a rdf:Statement ;
up:attribution _:333823 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:963 .
_:333848 a rdf:Statement ;
up:attribution _:333824 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:238 .
_:333849 a rdf:Statement ;
up:attribution _:333825 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:731 .
_:333850 a rdf:Statement ;
up:attribution _:333826 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:804 .
_:333851 a rdf:Statement ;
up:attribution _:333827 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:805 .
_:333852 a rdf:Statement ;
up:attribution _:333828 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0003677 .
_:333853 a rdf:Statement ;
up:attribution _:333829 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0016987 .
_:333854 a rdf:Statement ;
up:attribution _:333830 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0010468 .
_:333855 a rdf:Statement ;
up:attribution _:333831 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0006352 .
_:333856 a rdf:Statement ;
up:attribution _:333832 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005737 .
_:333857 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs9 ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:333858 a rdf:Statement ;
up:attribution _:333833 ;
rdf:subject ?pfs9 ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:333859 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs15 ;
rdf:predicate up:annotation ;
rdf:object ?annotation16 .
_:333860 a rdf:Statement ;
up:attribution _:333834 ;
rdf:subject ?pfs15 ;
rdf:predicate up:annotation ;
rdf:object ?annotation16 .
_:333861 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs21 ;
rdf:predicate up:annotation ;
rdf:object ?annotation22 .
_:333862 a rdf:Statement ;
up:attribution _:333835 ;
rdf:subject ?pfs21 ;
rdf:predicate up:annotation ;
rdf:object ?annotation22 .
_:333863 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs27 ;
rdf:predicate up:annotation ;
rdf:object ?annotation28 .
_:333864 a rdf:Statement ;
up:attribution _:333836 ;
rdf:subject ?pfs27 ;
rdf:predicate up:annotation ;
rdf:object ?annotation28 .
_:333865 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs33 ;
rdf:predicate up:annotation ;
rdf:object ?annotation34 .
_:333866 a rdf:Statement ;
up:attribution _:333837 ;
rdf:subject ?pfs33 ;
rdf:predicate up:annotation ;
rdf:object ?annotation34 .
_:333867 a rdf:Statement ;
up:source unirule:MF_00959 ;
rdf:subject ?pfs39 ;
rdf:predicate up:annotation ;
rdf:object ?annotation40 .
_:333868 a rdf:Statement ;
up:attribution _:333838 ;
rdf:subject ?pfs39 ;
rdf:predicate up:annotation ;
rdf:object ?annotation40 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_00959
#Rule MF_00959 Created by:? on:2013-04-30 Modified by:Edouard de Castro on:2023-06-01
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_00959 .
?thisOrganism rdfs:subClassOf+ taxon:1224 .
BIND(URI(CONCAT(STR(?this), '#MF_00959a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a2')) AS ?name2) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a4')) AS ?annotation4) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a5')) AS ?annotation5) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a6')) AS ?annotation6) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a8')) AS ?annotation8) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch49 faldo:location ?templateMotifSequenceMatchRegionP1344550 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP1344552 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_0095945 .
?templateMotifSequenceMatchRegionP1344550 faldo:begin ?templateMotifSequenceMatchBeginP1344551 .
?templateMotifSequenceMatchBeginP1344551 faldo:position ?templateMotifSequenceMatchBeginPositionP1344546 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP1344552 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch53 faldo:location ?targetMotifMatchRegionMatch54 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0095956 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_0095947 .
?targetMotifMatchRegionMatch54 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0095955 .
?targetMotifMatchRegionMatchBeginMF_0095955 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0095948 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0095956 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095945, 1, (STRLEN(?templateMotifCigarP13445MF_0095945) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095945, CONCAT('^(?:-*[^-]){', STR(((288 - ?templateMotifSequenceMatchBeginPositionP1344546) + 1)), '}'), '')))), '[a-z]', '')) AS ?step157) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095947, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095947) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095947, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step157), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095947, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095947) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095947, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step157), '}'), '')))), '[^-]', ''))) AS ?step258) .
BIND(((?step258 + ?targetMotifMatchRegionMatchBeginPositionMF_0095948) - 1) AS ?thisPositionOn13) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095945, 1, (STRLEN(?templateMotifCigarP13445MF_0095945) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095945, CONCAT('^(?:-*[^-]){', STR(((307 - ?templateMotifSequenceMatchBeginPositionP1344546) + 1)), '}'), '')))), '[a-z]', '')) AS ?step159) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095947, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095947) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095947, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step159), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095947, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095947) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095947, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step159), '}'), '')))), '[^-]', ''))) AS ?step260) .
BIND(((?step260 + ?targetMotifMatchRegionMatchBeginPositionMF_0095948) - 1) AS ?thisPositionOn14) .
BIND(?this AS ?pfs1t61) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn13))) AS ?pfsb11) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn14))) AS ?pfse12) .
FILTER ((BOUND(?thisPositionOn13) && BOUND(?thisPositionOn14))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a10')) AS ?annotation10) .
BIND(?this AS ?pfs9) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch66 faldo:location ?templateMotifSequenceMatchRegionP1344567 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP1344569 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_0095962 .
?templateMotifSequenceMatchRegionP1344567 faldo:begin ?templateMotifSequenceMatchBeginP1344568 .
?templateMotifSequenceMatchBeginP1344568 faldo:position ?templateMotifSequenceMatchBeginPositionP1344563 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP1344569 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch70 faldo:location ?targetMotifMatchRegionMatch71 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0095973 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_0095964 .
?targetMotifMatchRegionMatch71 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0095972 .
?targetMotifMatchRegionMatchBeginMF_0095972 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0095965 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0095973 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095962, 1, (STRLEN(?templateMotifCigarP13445MF_0095962) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095962, CONCAT('^(?:-*[^-]){', STR(((56 - ?templateMotifSequenceMatchBeginPositionP1344563) + 1)), '}'), '')))), '[a-z]', '')) AS ?step174) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095964, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095964) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095964, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095964, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095964) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095964, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), '')))), '[^-]', ''))) AS ?step275) .
BIND(((?step275 + ?targetMotifMatchRegionMatchBeginPositionMF_0095965) - 1) AS ?thisPositionOn19) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095962, 1, (STRLEN(?templateMotifCigarP13445MF_0095962) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095962, CONCAT('^(?:-*[^-]){', STR(((89 - ?templateMotifSequenceMatchBeginPositionP1344563) + 1)), '}'), '')))), '[a-z]', '')) AS ?step176) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095964, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095964) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095964, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step176), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095964, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095964) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095964, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step176), '}'), '')))), '[^-]', ''))) AS ?step277) .
BIND(((?step277 + ?targetMotifMatchRegionMatchBeginPositionMF_0095965) - 1) AS ?thisPositionOn20) .
BIND(?this AS ?pfs1t78) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn19))) AS ?pfsb17) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn20))) AS ?pfse18) .
FILTER ((BOUND(?thisPositionOn19) && BOUND(?thisPositionOn20))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a16')) AS ?annotation16) .
BIND(?this AS ?pfs15) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch83 faldo:location ?templateMotifSequenceMatchRegionP1344584 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP1344586 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_0095979 .
?templateMotifSequenceMatchRegionP1344584 faldo:begin ?templateMotifSequenceMatchBeginP1344585 .
?templateMotifSequenceMatchBeginP1344585 faldo:position ?templateMotifSequenceMatchBeginPositionP1344580 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP1344586 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch87 faldo:location ?targetMotifMatchRegionMatch88 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0095990 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_0095981 .
?targetMotifMatchRegionMatch88 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0095989 .
?targetMotifMatchRegionMatchBeginMF_0095989 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0095982 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0095990 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095979, 1, (STRLEN(?templateMotifCigarP13445MF_0095979) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095979, CONCAT('^(?:-*[^-]){', STR(((94 - ?templateMotifSequenceMatchBeginPositionP1344580) + 1)), '}'), '')))), '[a-z]', '')) AS ?step191) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095981, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095981) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095981, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step191), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095981, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095981) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095981, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step191), '}'), '')))), '[^-]', ''))) AS ?step292) .
BIND(((?step292 + ?targetMotifMatchRegionMatchBeginPositionMF_0095982) - 1) AS ?thisPositionOn25) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095979, 1, (STRLEN(?templateMotifCigarP13445MF_0095979) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095979, CONCAT('^(?:-*[^-]){', STR(((164 - ?templateMotifSequenceMatchBeginPositionP1344580) + 1)), '}'), '')))), '[a-z]', '')) AS ?step193) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095981, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095981) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095981, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step193), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095981, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095981) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095981, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step193), '}'), '')))), '[^-]', ''))) AS ?step294) .
BIND(((?step294 + ?targetMotifMatchRegionMatchBeginPositionMF_0095982) - 1) AS ?thisPositionOn26) .
BIND(?this AS ?pfs1t95) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn25))) AS ?pfsb23) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn26))) AS ?pfse24) .
FILTER ((BOUND(?thisPositionOn25) && BOUND(?thisPositionOn26))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a22')) AS ?annotation22) .
BIND(?this AS ?pfs21) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch100 faldo:location ?templateMotifSequenceMatchRegionP13445101 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP13445103 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_0095996 .
?templateMotifSequenceMatchRegionP13445101 faldo:begin ?templateMotifSequenceMatchBeginP13445102 .
?templateMotifSequenceMatchBeginP13445102 faldo:position ?templateMotifSequenceMatchBeginPositionP1344597 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP13445103 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch104 faldo:location ?targetMotifMatchRegionMatch105 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00959107 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_0095998 .
?targetMotifMatchRegionMatch105 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00959106 .
?targetMotifMatchRegionMatchBeginMF_00959106 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0095999 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00959107 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095996, 1, (STRLEN(?templateMotifCigarP13445MF_0095996) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095996, CONCAT('^(?:-*[^-]){', STR(((174 - ?templateMotifSequenceMatchBeginPositionP1344597) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1108) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095998, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095998) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095998, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1108), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095998, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095998) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095998, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1108), '}'), '')))), '[^-]', ''))) AS ?step2109) .
BIND(((?step2109 + ?targetMotifMatchRegionMatchBeginPositionMF_0095999) - 1) AS ?thisPositionOn31) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_0095996, 1, (STRLEN(?templateMotifCigarP13445MF_0095996) - STRLEN(REPLACE(?templateMotifCigarP13445MF_0095996, CONCAT('^(?:-*[^-]){', STR(((249 - ?templateMotifSequenceMatchBeginPositionP1344597) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1110) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_0095998, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095998) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095998, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1110), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_0095998, 1, (STRLEN(?targetMotifMatchCigarP13445MF_0095998) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_0095998, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1110), '}'), '')))), '[^-]', ''))) AS ?step2111) .
BIND(((?step2111 + ?targetMotifMatchRegionMatchBeginPositionMF_0095999) - 1) AS ?thisPositionOn32) .
BIND(?this AS ?pfs1t112) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn31))) AS ?pfsb29) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn32))) AS ?pfse30) .
FILTER ((BOUND(?thisPositionOn31) && BOUND(?thisPositionOn32))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a28')) AS ?annotation28) .
BIND(?this AS ?pfs27) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch117 faldo:location ?templateMotifSequenceMatchRegionP13445118 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP13445120 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_00959113 .
?templateMotifSequenceMatchRegionP13445118 faldo:begin ?templateMotifSequenceMatchBeginP13445119 .
?templateMotifSequenceMatchBeginP13445119 faldo:position ?templateMotifSequenceMatchBeginPositionP13445114 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP13445120 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch121 faldo:location ?targetMotifMatchRegionMatch122 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00959124 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_00959115 .
?targetMotifMatchRegionMatch122 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00959123 .
?targetMotifMatchRegionMatchBeginMF_00959123 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_00959116 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00959124 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_00959113, 1, (STRLEN(?templateMotifCigarP13445MF_00959113) - STRLEN(REPLACE(?templateMotifCigarP13445MF_00959113, CONCAT('^(?:-*[^-]){', STR(((262 - ?templateMotifSequenceMatchBeginPositionP13445114) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1125) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_00959115, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959115) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959115, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1125), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_00959115, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959115) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959115, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1125), '}'), '')))), '[^-]', ''))) AS ?step2126) .
BIND(((?step2126 + ?targetMotifMatchRegionMatchBeginPositionMF_00959116) - 1) AS ?thisPositionOn37) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_00959113, 1, (STRLEN(?templateMotifCigarP13445MF_00959113) - STRLEN(REPLACE(?templateMotifCigarP13445MF_00959113, CONCAT('^(?:-*[^-]){', STR(((315 - ?templateMotifSequenceMatchBeginPositionP13445114) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1127) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_00959115, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959115) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959115, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1127), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_00959115, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959115) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959115, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1127), '}'), '')))), '[^-]', ''))) AS ?step2128) .
BIND(((?step2128 + ?targetMotifMatchRegionMatchBeginPositionMF_00959116) - 1) AS ?thisPositionOn38) .
BIND(?this AS ?pfs1t129) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn37))) AS ?pfsb35) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn38))) AS ?pfse36) .
FILTER ((BOUND(?thisPositionOn37) && BOUND(?thisPositionOn38))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a34')) AS ?annotation34) .
BIND(?this AS ?pfs33) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch134 faldo:location ?templateMotifSequenceMatchRegionP13445135 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP13445137 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP13445MF_00959130 .
?templateMotifSequenceMatchRegionP13445135 faldo:begin ?templateMotifSequenceMatchBeginP13445136 .
?templateMotifSequenceMatchBeginP13445136 faldo:position ?templateMotifSequenceMatchBeginPositionP13445131 ;
faldo:reference isoform:P13445-1 .
?templateMotifSequenceProfileAlignmentOperationP13445137 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
?targetMotifMatch138 faldo:location ?targetMotifMatchRegionMatch139 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00959141 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP13445MF_00959132 .
?targetMotifMatchRegionMatch139 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00959140 .
?targetMotifMatchRegionMatchBeginMF_00959140 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_00959133 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00959141 edam:has_input signature:MF_00959 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_00959130, 1, (STRLEN(?templateMotifCigarP13445MF_00959130) - STRLEN(REPLACE(?templateMotifCigarP13445MF_00959130, CONCAT('^(?:-*[^-]){', STR(((118 - ?templateMotifSequenceMatchBeginPositionP13445131) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1142) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_00959132, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959132) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959132, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1142), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_00959132, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959132) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959132, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1142), '}'), '')))), '[^-]', ''))) AS ?step2143) .
BIND(((?step2143 + ?targetMotifMatchRegionMatchBeginPositionMF_00959133) - 1) AS ?thisPositionOn43) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP13445MF_00959130, 1, (STRLEN(?templateMotifCigarP13445MF_00959130) - STRLEN(REPLACE(?templateMotifCigarP13445MF_00959130, CONCAT('^(?:-*[^-]){', STR(((121 - ?templateMotifSequenceMatchBeginPositionP13445131) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1144) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP13445MF_00959132, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959132) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959132, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1144), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP13445MF_00959132, 1, (STRLEN(?targetMotifMatchCigarP13445MF_00959132) - STRLEN(REPLACE(?targetMotifMatchCigarP13445MF_00959132, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1144), '}'), '')))), '[^-]', ''))) AS ?step2145) .
BIND(((?step2145 + ?targetMotifMatchRegionMatchBeginPositionMF_00959133) - 1) AS ?thisPositionOn44) .
BIND(?this AS ?pfs1t146) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn43))) AS ?pfsb41) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn44))) AS ?pfse42) .
FILTER (REGEX('DL[IV][ED]', SUBSTR(?thisSequenceValue, ?thisPositionOn43, (?thisPositionOn44 - ?thisPositionOn43)))) .
BIND(URI(CONCAT(STR(?this), '#MF_00959a40')) AS ?annotation40) .
BIND(?this AS ?pfs39) .
}
}
"xsd:string |
