| http://purl.uniprot.org/unirules/MF_04078#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:933368 up:source unirule:MF_04078 .
_:933369 up:source unirule:MF_04078 .
_:933370 up:source unirule:MF_04078 .
_:933371 up:fullName 'C-terminal core protein' ;
rdf:type up:Structured_Name .
_:933372 up:source unirule:MF_04078 .
_:933373 up:source unirule:MF_04078 .
_:933374 up:source unirule:MF_04078 .
_:933375 up:source unirule:MF_04078 .
_:933376 up:source unirule:MF_04078 .
_:933377 up:source unirule:MF_04078 .
_:933378 up:source unirule:MF_04078 .
_:933379 up:source unirule:MF_04078 .
_:933380 up:source unirule:MF_04078 .
_:933381 up:source unirule:MF_04078 .
_:933382 up:source unirule:MF_04078 .
_:933383 up:source unirule:MF_04078 .
_:933384 up:source unirule:MF_04078 .
_:933385 up:source unirule:MF_04078 .
_:933386 up:source unirule:MF_04078 .
_:933387 up:source unirule:MF_04078 .
_:933388 up:source unirule:MF_04078 .
_:933389 up:source unirule:MF_04078 .
_:933390 up:source unirule:MF_04078 .
_:933391 up:source unirule:MF_04078 .
_:933392 up:source unirule:MF_04078 .
_:933393 up:source unirule:MF_04078 .
_:933394 up:source unirule:MF_04078 .
_:933395 up:source unirule:MF_04078 .
_:933396 up:source unirule:MF_04078 .
_:933397 up:source unirule:MF_04078 .
_:933398 up:source unirule:MF_04078 .
_:933399 up:source unirule:MF_04078 .
_:933400 up:source unirule:MF_04078 .
_:933401 up:source unirule:MF_04078 .
_:933402 up:source unirule:MF_04078 .
_:933403 up:source unirule:MF_04078 .
_:933404 up:source unirule:MF_04078 .
_:933405 up:source unirule:MF_04078 .
_:933406 up:source unirule:MF_04078 .
_:933407 up:source unirule:MF_04078 .
_:933408 up:source unirule:MF_04078 .
_:933409 up:source unirule:MF_04078 .
_:933410 up:source unirule:MF_04078 .
_:933411 up:source unirule:MF_04078 .
_:933412 up:source unirule:MF_04078 .
_:933413 up:source unirule:MF_04078 .
_:933414 up:source unirule:MF_04078 .
_:933415 up:source unirule:MF_04078 .
_:933416 up:source unirule:MF_04078 .
_:933417 up:source unirule:MF_04078 .
_:933418 up:source unirule:MF_04078 .
_:933419 up:source unirule:MF_04078 .
_:933420 up:source unirule:MF_04078 .
_:933421 up:source unirule:MF_04078 .
_:933422 up:source unirule:MF_04078 .
_:933423 up:source unirule:MF_04078 .
_:933424 up:source unirule:MF_04078 .
_:933425 up:source unirule:MF_04078 .
_:933426 up:source unirule:MF_04078 .
_:933427 up:source unirule:MF_04078 .
_:933428 up:source unirule:MF_04078 .
_:933429 up:source unirule:MF_04078 .
_:933430 up:source unirule:MF_04078 .
_:933431 up:source unirule:MF_04078 .
_:933432 up:source unirule:MF_04078 .
_:933433 up:source unirule:MF_04078 .
?this up:alternativeName ?name1 ,
?name2 ;
up:annotation ?annotation5 ,
?annotation6 ,
?annotation7 ,
?annotation8 ,
?annotation9 ,
?annotation10 ,
?annotation11 ,
?annotation16 ,
?annotation17 ,
?annotation18 ,
?annotation19 ,
?annotation20 ,
?annotation21 ,
?annotation22 ,
?annotation23 ,
?annotation24 ,
?annotation25 ;
up:classifiedWith GO:0005525 ,
GO:0016020 ,
GO:0017124 ,
GO:0020002 ,
GO:0039504 ,
GO:0039505 ,
GO:0044178 ,
GO:0044423 ,
GO:0046776 ,
GO:0140321 ,
keyword:1032 ,
keyword:1040 ,
keyword:1043 ,
keyword:1080 ,
keyword:1083 ,
keyword:1115 ,
keyword:1116 ,
keyword:244 ,
keyword:449 ,
keyword:472 ,
keyword:519 ,
keyword:53 ,
keyword:597 ,
keyword:729 ,
keyword:843 ,
keyword:899 ,
keyword:945 ,
keyword:946 ,
keyword:964 ;
up:component ?namedpart3 ;
up:recommendedName ?name0 .
?name0 up:fullName 'Protein Nef' ;
rdf:type up:Structured_Name .
?name1 up:fullName "3'ORF" ;
rdf:type up:Structured_Name .
?name2 up:fullName 'Negative factor' ;
up:shortName 'F-protein' ;
rdf:type up:Structured_Name .
?namedpart3 up:recommendedName _:933371 .
?gene4 skos:prefLabel 'nef' .
?annotation5 a up:Function_Annotation ;
rdfs:comment 'Factor of infectivity and pathogenicity, required for optimal virus replication. Alters numerous pathways of T-lymphocyte function and down-regulates immunity surface molecules in order to evade host defense and increase viral infectivity. Alters the functionality of other immunity cells, like dendritic cells, monocytes/macrophages and NK cells.' .
?annotation6 a up:Function_Annotation ;
rdfs:comment 'In infected CD4(+) T-lymphocytes, down-regulates the surface MHC-I, mature MHC-II, CD4, CD28, CCR5 and CXCR4 molecules. Mediates internalization and degradation of host CD4 through the interaction of with the cytoplasmic tail of CD4, the recruitment of AP-2 (clathrin adapter protein complex 2), internalization through clathrin coated pits, and subsequent transport to endosomes and lysosomes for degradation. Diverts host MHC-I molecules to the trans-Golgi network-associated endosomal compartments by an endocytic pathway to finally target them for degradation. MHC-I down-regulation may involve AP-1 (clathrin adapter protein complex 1) or possibly Src family kinase-ZAP70/Syk-PI3K cascade recruited by PACS2. In consequence infected cells are masked for immune recognition by cytotoxic T-lymphocytes. Decreasing the number of immune receptors also prevents reinfection by more HIV particles (superinfection). Down-regulates host SERINC3 and SERINC5 thereby excluding these proteins from the viral particles. Virion infectivity is drastically higher when SERINC3 or SERINC5 are excluded from the viral envelope, because these host antiviral proteins impair the membrane fusion event necessary for subsequent virion penetration.' .
?annotation7 a up:Function_Annotation ;
rdfs:comment 'Bypasses host T-cell signaling by inducing a transcriptional program nearly identical to that of anti-CD3 cell activation. Interaction with TCR-zeta chain up-regulates the Fas ligand (FasL). Increasing surface FasL molecules and decreasing surface MHC-I molecules on infected CD4(+) cells send attacking cytotoxic CD8+ T-lymphocytes into apoptosis.' .
?annotation8 a up:Function_Annotation ;
rdfs:comment 'Plays a role in optimizing the host cell environment for viral replication without causing cell death by apoptosis. Protects the infected cells from apoptosis in order to keep them alive until the next virus generation is ready to strike. Inhibits the Fas and TNFR-mediated death signals by blocking MAP3K5/ASK1. Decreases the half-life of TP53, protecting the infected cell against p53-mediated apoptosis. Inhibits the apoptotic signals regulated by the Bcl-2 family proteins through the formation of a Nef/PI3-kinase/PAK2 complex that leads to activation of PAK2 and induces phosphorylation of host BAD.' .
?annotation9 a up:Function_Annotation ;
rdfs:comment 'Extracellular Nef protein targets CD4(+) T-lymphocytes for apoptosis by interacting with CXCR4 surface receptors.' .
?annotation10 a up:Subunit_Annotation ;
rdfs:comment 'Monomer; cytosolic form. Homodimer; membrane bound form. Interacts with Nef associated p21-activated kinase (PAK2); this interaction activates PAK2. Associates with the Nef-MHC-I-AP1 complex; this complex is required for MHC-I internalization. Interacts (via C-terminus) with host PI3-kinase. Interacts with host PACS1; this interaction seems to be weak. Interacts with host PACS2. Interacts with host LCK and MAPK3; these interactions inhibit the kinase activity of the latter. Interacts with host ATP6V1H; this interaction may play a role in CD4 endocytosis. Associates with the CD4-Nef-AP2 complex; this complex is required for CD4 internalization. Interacts with host AP2 subunit alpha and AP2 subunit sigma2. Interacts with TCR-zeta chain; this interaction up-regulates the Fas ligand (FasL) surface expression. Interacts with host HCK, LYN, and SRC; these interactions activate the Src family kinases. Interacts with MAP3K5; this interaction inhibits the Fas and TNFR-mediated death signals. Interacts with beta-COP and PTE1. Interacts with human RACK1; this increases Nef phosphorylation by PKC. Interacts with TP53; this interaction decreases the half-life of TP53, protecting the infected cell against p53-mediated apoptosis.' .
?annotation11 a up:Subcellular_Location_Annotation ;
rdfs:comment 'TGN localization requires PACS1. Associates with the inner plasma membrane through its N-terminal domain. Nef stimulates its own export via the release of exosomes. Incorporated in virions at a rate of about 10 molecules per virion, where it is cleaved' .
?annotation11li12 up:cellularComponent ;
up:orientation ;
up:topology .
?annotation11li13 up:cellularComponent .
?annotation11li14 up:cellularComponent .
?annotation11li15 up:cellularComponent .
?annotation16 a up:Induction_Annotation ;
rdfs:comment 'Expressed early in the viral replication cycle.' .
?annotation17 a up:Domain_Annotation ;
rdfs:comment 'The N-terminal domain is composed of the N-myristoyl glycine and of a cluster of positively charged amino acids. It is required for inner plasma membrane targeting of Nef and virion incorporation, and thereby for infectivity. This domain is also involved in binding to TP53.' .
?annotation18 a up:Domain_Annotation ;
rdfs:comment 'The SH3-binding domain constituted of PxxP motifs mediates binding to several Src family proteins thereby regulating their tyrosine kinase activity. The same motifs also mediates the association with MAPK3, PI3-kinase and TCR-zeta.' .
?annotation19 a up:Domain_Annotation ;
rdfs:comment 'The dileucine internalization motif and a diacidic motif seem to be required for binding to AP-2.' .
?annotation20 a up:Domain_Annotation ;
rdfs:comment 'The acidic region binds to the sorting protein PACS-2, which targets Nef to the paranuclear region, enabling the PxxP motif to direct assembly of an SFK/ZAP-70/PI3K complex that accelerates endocytosis of cell-surface MHC-I.' .
?annotation21 a up:PTM_Annotation ;
rdfs:comment 'The virion-associated Nef proteins are cleaved by the viral protease to release the soluble C-terminal core protein. Nef is probably cleaved concomitantly with viral structural proteins on maturation of virus particles.' .
?annotation22 a up:PTM_Annotation ;
rdfs:comment 'Myristoylated.' .
?annotation23 a up:PTM_Annotation ;
rdfs:comment 'Phosphorylated on serine residues, probably by host PKCdelta and theta.' .
?annotation24 a up:Annotation ;
rdfs:comment 'HIV-1 lineages are divided in three main groups, M (for Major), O (for Outlier), and N (for New, or Non-M, Non-O). The vast majority of strains found worldwide belong to the group M. Group O seems to be endemic to and largely confined to Cameroon and neighboring countries in West Central Africa, where these viruses represent a small minority of HIV-1 strains. The group N is represented by a limited number of isolates from Cameroonian persons. The group M is further subdivided in 9 clades or subtypes (A to D, F to H, J and K).' .
?annotation25 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the lentivirus primate group Nef protein family.' .
?pfs26 up:annotation ?annotation27 .
?annotation27 faldo:begin ?pfsb28 ;
faldo:end ?pfse29 ;
rdf:type up:Chain_Annotation ;
rdfs:comment 'Protein Nef' .
?pfsb28 faldo:position ?thisPositionOn30 ;
rdf:type faldo:ExactPosition .
?pfse29 faldo:position ?thisPositionOn31 ;
rdf:type faldo:ExactPosition .
?pfs32 up:annotation ?annotation33 .
?annotation33 faldo:begin ?pfsb34 ;
faldo:end ?pfse35 ;
rdf:type up:Chain_Annotation ;
rdfs:comment 'C-terminal core protein' .
?pfsb34 faldo:position ?thisPositionOn36 ;
rdf:type faldo:ExactPosition .
?pfse35 faldo:position ?thisPositionOn37 ;
rdf:type faldo:ExactPosition .
?pfs38 up:annotation ?annotation39 .
?annotation39 faldo:begin ?pfsb40 ;
faldo:end ?pfse41 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Acidic; interacts with host PACS1 and PACS2; stabilizes the interaction of NEF/MHC-I with host AP1M1; necessary for MHC-I internalization' .
?pfsb40 faldo:position ?thisPositionOn42 ;
rdf:type faldo:ExactPosition .
?pfse41 faldo:position ?thisPositionOn43 ;
rdf:type faldo:ExactPosition .
?pfs44 up:annotation ?annotation45 .
?annotation45 faldo:begin ?pfsb46 ;
faldo:end ?pfse47 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'SH3-binding; interaction with Src family tyrosine kinases' .
?pfsb46 faldo:position ?thisPositionOn48 ;
rdf:type faldo:ExactPosition .
?pfse47 faldo:position ?thisPositionOn49 ;
rdf:type faldo:ExactPosition .
?pfs50 up:annotation ?annotation51 .
?annotation51 faldo:begin ?pfsb52 ;
faldo:end ?pfse53 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Mediates dimerization, Nef-PTE1 interaction' .
?pfsb52 faldo:position ?thisPositionOn54 ;
rdf:type faldo:ExactPosition .
?pfse53 faldo:position ?thisPositionOn55 ;
rdf:type faldo:ExactPosition .
?pfs56 up:annotation ?annotation57 .
?annotation57 faldo:begin ?pfsb58 ;
faldo:end ?pfse59 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Binding to ATP6V1H' .
?pfsb58 faldo:position ?thisPositionOn60 ;
rdf:type faldo:ExactPosition .
?pfse59 faldo:position ?thisPositionOn61 ;
rdf:type faldo:ExactPosition .
?pfs62 up:annotation ?annotation63 .
?annotation63 faldo:begin ?pfsb64 ;
faldo:end ?pfse65 ;
rdf:type up:Initiator_Methionine_Annotation ;
rdfs:comment 'Removed; by host' .
?pfsb64 faldo:position ?thisPositionOn66 ;
rdf:type faldo:ExactPosition .
?pfse65 faldo:position ?thisPositionOn67 ;
rdf:type faldo:ExactPosition .
?pfs68 up:annotation ?annotation69 .
?annotation69 faldo:begin ?pfsb70 ;
faldo:end ?pfse71 ;
rdf:type up:Motif_Annotation ;
rdfs:comment 'PxxP; stabilizes the interaction of NEF/MHC-I with host AP1M1; necessary for MHC-I internalization' .
?pfsb70 faldo:position ?thisPositionOn72 ;
rdf:type faldo:ExactPosition .
?pfse71 faldo:position ?thisPositionOn73 ;
rdf:type faldo:ExactPosition .
?pfs74 up:annotation ?annotation75 .
?annotation75 faldo:begin ?pfsb76 ;
faldo:end ?pfse77 ;
rdf:type up:Motif_Annotation ;
rdfs:comment 'Dileucine internalization motif; necessary for CD4 internalization' .
?pfsb76 faldo:position ?thisPositionOn78 ;
rdf:type faldo:ExactPosition .
?pfse77 faldo:position ?thisPositionOn79 ;
rdf:type faldo:ExactPosition .
?pfs80 up:annotation ?annotation81 .
?annotation81 faldo:begin ?pfsb82 ;
faldo:end ?pfse83 ;
rdf:type up:Motif_Annotation ;
rdfs:comment 'Diacidic; necessary for CD4 internalization' .
?pfsb82 faldo:position ?thisPositionOn84 ;
rdf:type faldo:ExactPosition .
?pfse83 faldo:position ?thisPositionOn85 ;
rdf:type faldo:ExactPosition .
?pfs86 up:annotation ?annotation87 .
?annotation87 faldo:begin ?pfsb88 ;
faldo:end ?pfse89 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Might play a role in AP-1 recruitment to the Nef-MHC-I complex' .
?pfsb88 faldo:position ?thisPositionOn90 ;
rdf:type faldo:ExactPosition .
?pfse89 faldo:position ?thisPositionOn91 ;
rdf:type faldo:ExactPosition .
?pfs92 up:annotation ?annotation93 .
?annotation93 faldo:begin ?pfsb94 ;
faldo:end ?pfse95 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Cleavage; by viral protease' .
?pfsb94 faldo:position ?thisPositionOn96 ;
rdf:type faldo:ExactPosition .
?pfse95 faldo:position ?thisPositionOn97 ;
rdf:type faldo:ExactPosition .
?pfs98 up:annotation ?annotation99 .
?annotation99 faldo:begin ?pfsb100 ;
faldo:end ?pfse101 ;
rdf:type up:Modified_Residue_Annotation ;
rdfs:comment 'Phosphoserine; by host' .
?pfsb100 faldo:position ?thisPositionOn102 ;
rdf:type faldo:ExactPosition .
?pfse101 faldo:position ?thisPositionOn103 ;
rdf:type faldo:ExactPosition .
?pfs104 up:annotation ?annotation105 .
?annotation105 faldo:begin ?pfsb106 ;
faldo:end ?pfse107 ;
rdf:type up:Lipidation_Annotation ;
rdfs:comment 'N-myristoyl glycine; by host' .
?pfsb106 faldo:position ?thisPositionOn108 ;
rdf:type faldo:ExactPosition .
?pfse107 faldo:position ?thisPositionOn109 ;
rdf:type faldo:ExactPosition .
_:933434 a rdf:Statement ;
up:attribution _:933368 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:933435 a rdf:Statement ;
up:attribution _:933369 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:933436 a rdf:Statement ;
up:attribution _:933370 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name2 .
_:933437 a rdf:Statement ;
up:attribution _:933372 ;
rdf:subject ?this ;
rdf:predicate up:component ;
rdf:object ?namedpart3 .
_:933438 a rdf:Statement ;
up:attribution _:933373 ;
rdf:subject ?gene4 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene4 .
_:933439 a rdf:Statement ;
up:attribution _:933374 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation5 .
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation6 .
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation7 .
_:933442 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation8 .
_:933443 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation9 .
_:933444 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:933445 a rdf:Statement ;
up:attribution _:933380 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation11 .
_:933446 a rdf:Statement ;
up:attribution _:933381 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation16 .
_:933447 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation17 .
_:933448 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation18 .
_:933449 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation19 .
_:933450 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation20 .
_:933451 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation21 .
_:933452 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation22 .
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation23 .
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation24 .
_:933455 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation25 .
_:933456 a rdf:Statement ;
up:attribution _:933391 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:53 .
_:933457 a rdf:Statement ;
up:attribution _:933392 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:244 .
_:933458 a rdf:Statement ;
up:attribution _:933393 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1032 .
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up:attribution _:933394 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1040 .
_:933460 a rdf:Statement ;
up:attribution _:933395 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1043 .
_:933461 a rdf:Statement ;
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rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:945 .
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rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1080 .
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up:attribution _:933398 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1083 .
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up:attribution _:933399 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1115 .
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up:attribution _:933400 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:1116 .
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up:attribution _:933401 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:449 .
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up:attribution _:933402 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:472 .
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up:attribution _:933403 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:519 .
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up:attribution _:933404 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:597 .
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up:attribution _:933405 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:964 .
_:933471 a rdf:Statement ;
up:attribution _:933406 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:729 .
_:933472 a rdf:Statement ;
up:attribution _:933407 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:899 .
_:933473 a rdf:Statement ;
up:attribution _:933408 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:946 .
_:933474 a rdf:Statement ;
up:attribution _:933409 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:843 .
_:933475 a rdf:Statement ;
up:attribution _:933410 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0044178 .
_:933476 a rdf:Statement ;
up:attribution _:933411 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0020002 .
_:933477 a rdf:Statement ;
up:attribution _:933412 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0016020 .
_:933478 a rdf:Statement ;
up:attribution _:933413 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0044423 .
_:933479 a rdf:Statement ;
up:attribution _:933414 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005525 .
_:933480 a rdf:Statement ;
up:attribution _:933415 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0017124 .
_:933481 a rdf:Statement ;
up:attribution _:933416 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0039504 .
_:933482 a rdf:Statement ;
up:attribution _:933417 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0046776 .
_:933483 a rdf:Statement ;
up:attribution _:933418 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0039505 .
_:933484 a rdf:Statement ;
up:attribution _:933419 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0140321 .
_:933485 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs26 ;
rdf:predicate up:annotation ;
rdf:object ?annotation27 .
_:933486 a rdf:Statement ;
up:attribution _:933420 ;
rdf:subject ?pfs26 ;
rdf:predicate up:annotation ;
rdf:object ?annotation27 .
_:933487 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs32 ;
rdf:predicate up:annotation ;
rdf:object ?annotation33 .
_:933488 a rdf:Statement ;
up:attribution _:933421 ;
rdf:subject ?pfs32 ;
rdf:predicate up:annotation ;
rdf:object ?annotation33 .
_:933489 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs38 ;
rdf:predicate up:annotation ;
rdf:object ?annotation39 .
_:933490 a rdf:Statement ;
up:attribution _:933422 ;
rdf:subject ?pfs38 ;
rdf:predicate up:annotation ;
rdf:object ?annotation39 .
_:933491 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs44 ;
rdf:predicate up:annotation ;
rdf:object ?annotation45 .
_:933492 a rdf:Statement ;
up:attribution _:933423 ;
rdf:subject ?pfs44 ;
rdf:predicate up:annotation ;
rdf:object ?annotation45 .
_:933493 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs50 ;
rdf:predicate up:annotation ;
rdf:object ?annotation51 .
_:933494 a rdf:Statement ;
up:attribution _:933424 ;
rdf:subject ?pfs50 ;
rdf:predicate up:annotation ;
rdf:object ?annotation51 .
_:933495 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs56 ;
rdf:predicate up:annotation ;
rdf:object ?annotation57 .
_:933496 a rdf:Statement ;
up:attribution _:933425 ;
rdf:subject ?pfs56 ;
rdf:predicate up:annotation ;
rdf:object ?annotation57 .
_:933497 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs62 ;
rdf:predicate up:annotation ;
rdf:object ?annotation63 .
_:933498 a rdf:Statement ;
up:attribution _:933426 ;
rdf:subject ?pfs62 ;
rdf:predicate up:annotation ;
rdf:object ?annotation63 .
_:933499 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs68 ;
rdf:predicate up:annotation ;
rdf:object ?annotation69 .
_:933500 a rdf:Statement ;
up:attribution _:933427 ;
rdf:subject ?pfs68 ;
rdf:predicate up:annotation ;
rdf:object ?annotation69 .
_:933501 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs74 ;
rdf:predicate up:annotation ;
rdf:object ?annotation75 .
_:933502 a rdf:Statement ;
up:attribution _:933428 ;
rdf:subject ?pfs74 ;
rdf:predicate up:annotation ;
rdf:object ?annotation75 .
_:933503 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs80 ;
rdf:predicate up:annotation ;
rdf:object ?annotation81 .
_:933504 a rdf:Statement ;
up:attribution _:933429 ;
rdf:subject ?pfs80 ;
rdf:predicate up:annotation ;
rdf:object ?annotation81 .
_:933505 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs86 ;
rdf:predicate up:annotation ;
rdf:object ?annotation87 .
_:933506 a rdf:Statement ;
up:attribution _:933430 ;
rdf:subject ?pfs86 ;
rdf:predicate up:annotation ;
rdf:object ?annotation87 .
_:933507 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs92 ;
rdf:predicate up:annotation ;
rdf:object ?annotation93 .
_:933508 a rdf:Statement ;
up:attribution _:933431 ;
rdf:subject ?pfs92 ;
rdf:predicate up:annotation ;
rdf:object ?annotation93 .
_:933509 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs98 ;
rdf:predicate up:annotation ;
rdf:object ?annotation99 .
_:933510 a rdf:Statement ;
up:attribution _:933432 ;
rdf:subject ?pfs98 ;
rdf:predicate up:annotation ;
rdf:object ?annotation99 .
_:933511 a rdf:Statement ;
up:source unirule:MF_04078 ;
rdf:subject ?pfs104 ;
rdf:predicate up:annotation ;
rdf:object ?annotation105 .
_:933512 a rdf:Statement ;
up:attribution _:933433 ;
rdf:subject ?pfs104 ;
rdf:predicate up:annotation ;
rdf:object ?annotation105 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_04078
#Rule MF_04078 Created by:? on:2017-05-23 Modified by:Catherine Rivoire on:2025-01-14
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_04078 .
?thisOrganism rdfs:subClassOf+ taxon:11646 .
BIND(URI(CONCAT(STR(?this), '#MF_04078a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a2')) AS ?name2) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a3')) AS ?namedpart3) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a5')) AS ?annotation5) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a6')) AS ?annotation6) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a7')) AS ?annotation7) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a8')) AS ?annotation8) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a9')) AS ?annotation9) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a10')) AS ?annotation10) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a11')) AS ?annotation11) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a16')) AS ?annotation16) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a17')) AS ?annotation17) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a18')) AS ?annotation18) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a19')) AS ?annotation19) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a20')) AS ?annotation20) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a21')) AS ?annotation21) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a22')) AS ?annotation22) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a23')) AS ?annotation23) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a24')) AS ?annotation24) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a25')) AS ?annotation25) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch114 faldo:location ?templateMotifSequenceMatchRegionP04601115 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601117 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078110 .
?templateMotifSequenceMatchRegionP04601115 faldo:begin ?templateMotifSequenceMatchBeginP04601116 .
?templateMotifSequenceMatchBeginP04601116 faldo:position ?templateMotifSequenceMatchBeginPositionP04601111 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601117 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch118 faldo:location ?targetMotifMatchRegionMatch119 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078121 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078112 .
?targetMotifMatchRegionMatch119 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078120 .
?targetMotifMatchRegionMatchBeginMF_04078120 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078113 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078121 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(1 AS ?thisPositionOn30) .
BIND(STRLEN(?thisSequenceValue) AS ?thisPositionOn31) .
BIND(?this AS ?pfs1t122) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn30))) AS ?pfsb28) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn31))) AS ?pfse29) .
FILTER ((BOUND(?thisPositionOn30) && BOUND(?thisPositionOn31))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a27')) AS ?annotation27) .
BIND(?this AS ?pfs26) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch127 faldo:location ?templateMotifSequenceMatchRegionP04601128 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601130 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078123 .
?templateMotifSequenceMatchRegionP04601128 faldo:begin ?templateMotifSequenceMatchBeginP04601129 .
?templateMotifSequenceMatchBeginP04601129 faldo:position ?templateMotifSequenceMatchBeginPositionP04601124 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601130 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch131 faldo:location ?targetMotifMatchRegionMatch132 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078134 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078125 .
?targetMotifMatchRegionMatch132 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078133 .
?targetMotifMatchRegionMatchBeginMF_04078133 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078126 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078134 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078123, 1, (STRLEN(?templateMotifCigarP04601MF_04078123) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078123, CONCAT('^(?:-*[^-]){', STR(((58 - ?templateMotifSequenceMatchBeginPositionP04601124) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1135) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078125, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078125) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078125, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1135), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078125, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078125) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078125, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1135), '}'), '')))), '[^-]', ''))) AS ?step2136) .
BIND(((?step2136 + ?targetMotifMatchRegionMatchBeginPositionMF_04078126) - 1) AS ?thisPositionOn36) .
BIND(STRLEN(?thisSequenceValue) AS ?thisPositionOn37) .
BIND(?this AS ?pfs1t137) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn36))) AS ?pfsb34) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn37))) AS ?pfse35) .
FILTER ((BOUND(?thisPositionOn36) && BOUND(?thisPositionOn37))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a33')) AS ?annotation33) .
BIND(?this AS ?pfs32) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch142 faldo:location ?templateMotifSequenceMatchRegionP04601143 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601145 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078138 .
?templateMotifSequenceMatchRegionP04601143 faldo:begin ?templateMotifSequenceMatchBeginP04601144 .
?templateMotifSequenceMatchBeginP04601144 faldo:position ?templateMotifSequenceMatchBeginPositionP04601139 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601145 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch146 faldo:location ?targetMotifMatchRegionMatch147 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078149 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078140 .
?targetMotifMatchRegionMatch147 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078148 .
?targetMotifMatchRegionMatchBeginMF_04078148 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078141 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078149 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078138, 1, (STRLEN(?templateMotifCigarP04601MF_04078138) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078138, CONCAT('^(?:-*[^-]){', STR(((62 - ?templateMotifSequenceMatchBeginPositionP04601139) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1150) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078140, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078140) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078140, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1150), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078140, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078140) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078140, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1150), '}'), '')))), '[^-]', ''))) AS ?step2151) .
BIND(((?step2151 + ?targetMotifMatchRegionMatchBeginPositionMF_04078141) - 1) AS ?thisPositionOn42) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078138, 1, (STRLEN(?templateMotifCigarP04601MF_04078138) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078138, CONCAT('^(?:-*[^-]){', STR(((65 - ?templateMotifSequenceMatchBeginPositionP04601139) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1152) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078140, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078140) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078140, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1152), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078140, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078140) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078140, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1152), '}'), '')))), '[^-]', ''))) AS ?step2153) .
BIND(((?step2153 + ?targetMotifMatchRegionMatchBeginPositionMF_04078141) - 1) AS ?thisPositionOn43) .
BIND(?this AS ?pfs1t154) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn42))) AS ?pfsb40) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn43))) AS ?pfse41) .
FILTER ((BOUND(?thisPositionOn42) && BOUND(?thisPositionOn43))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a39')) AS ?annotation39) .
BIND(?this AS ?pfs38) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch159 faldo:location ?templateMotifSequenceMatchRegionP04601160 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601162 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078155 .
?templateMotifSequenceMatchRegionP04601160 faldo:begin ?templateMotifSequenceMatchBeginP04601161 .
?templateMotifSequenceMatchBeginP04601161 faldo:position ?templateMotifSequenceMatchBeginPositionP04601156 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601162 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch163 faldo:location ?targetMotifMatchRegionMatch164 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078166 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078157 .
?targetMotifMatchRegionMatch164 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078165 .
?targetMotifMatchRegionMatchBeginMF_04078165 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078158 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078166 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078155, 1, (STRLEN(?templateMotifCigarP04601MF_04078155) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078155, CONCAT('^(?:-*[^-]){', STR(((69 - ?templateMotifSequenceMatchBeginPositionP04601156) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1167) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078157, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078157) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078157, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1167), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078157, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078157) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078157, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1167), '}'), '')))), '[^-]', ''))) AS ?step2168) .
BIND(((?step2168 + ?targetMotifMatchRegionMatchBeginPositionMF_04078158) - 1) AS ?thisPositionOn48) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078155, 1, (STRLEN(?templateMotifCigarP04601MF_04078155) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078155, CONCAT('^(?:-*[^-]){', STR(((78 - ?templateMotifSequenceMatchBeginPositionP04601156) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1169) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078157, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078157) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078157, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1169), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078157, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078157) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078157, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1169), '}'), '')))), '[^-]', ''))) AS ?step2170) .
BIND(((?step2170 + ?targetMotifMatchRegionMatchBeginPositionMF_04078158) - 1) AS ?thisPositionOn49) .
BIND(?this AS ?pfs1t171) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn48))) AS ?pfsb46) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn49))) AS ?pfse47) .
FILTER ((BOUND(?thisPositionOn48) && BOUND(?thisPositionOn49))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a45')) AS ?annotation45) .
BIND(?this AS ?pfs44) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch176 faldo:location ?templateMotifSequenceMatchRegionP04601177 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601179 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078172 .
?templateMotifSequenceMatchRegionP04601177 faldo:begin ?templateMotifSequenceMatchBeginP04601178 .
?templateMotifSequenceMatchBeginP04601178 faldo:position ?templateMotifSequenceMatchBeginPositionP04601173 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601179 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch180 faldo:location ?targetMotifMatchRegionMatch181 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078183 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078174 .
?targetMotifMatchRegionMatch181 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078182 .
?targetMotifMatchRegionMatchBeginMF_04078182 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078175 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078183 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078172, 1, (STRLEN(?templateMotifCigarP04601MF_04078172) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078172, CONCAT('^(?:-*[^-]){', STR(((108 - ?templateMotifSequenceMatchBeginPositionP04601173) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1184) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078174, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078174) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078174, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1184), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078174, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078174) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078174, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1184), '}'), '')))), '[^-]', ''))) AS ?step2185) .
BIND(((?step2185 + ?targetMotifMatchRegionMatchBeginPositionMF_04078175) - 1) AS ?thisPositionOn54) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078172, 1, (STRLEN(?templateMotifCigarP04601MF_04078172) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078172, CONCAT('^(?:-*[^-]){', STR(((124 - ?templateMotifSequenceMatchBeginPositionP04601173) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1186) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078174, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078174) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078174, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1186), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078174, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078174) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078174, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1186), '}'), '')))), '[^-]', ''))) AS ?step2187) .
BIND(((?step2187 + ?targetMotifMatchRegionMatchBeginPositionMF_04078175) - 1) AS ?thisPositionOn55) .
BIND(?this AS ?pfs1t188) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn54))) AS ?pfsb52) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn55))) AS ?pfse53) .
FILTER ((BOUND(?thisPositionOn54) && BOUND(?thisPositionOn55))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a51')) AS ?annotation51) .
BIND(?this AS ?pfs50) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch193 faldo:location ?templateMotifSequenceMatchRegionP04601194 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601196 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078189 .
?templateMotifSequenceMatchRegionP04601194 faldo:begin ?templateMotifSequenceMatchBeginP04601195 .
?templateMotifSequenceMatchBeginP04601195 faldo:position ?templateMotifSequenceMatchBeginPositionP04601190 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601196 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch197 faldo:location ?targetMotifMatchRegionMatch198 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078200 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078191 .
?targetMotifMatchRegionMatch198 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078199 .
?targetMotifMatchRegionMatchBeginMF_04078199 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078192 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078200 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078189, 1, (STRLEN(?templateMotifCigarP04601MF_04078189) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078189, CONCAT('^(?:-*[^-]){', STR(((148 - ?templateMotifSequenceMatchBeginPositionP04601190) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1201) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078191, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078191) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078191, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1201), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078191, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078191) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078191, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1201), '}'), '')))), '[^-]', ''))) AS ?step2202) .
BIND(((?step2202 + ?targetMotifMatchRegionMatchBeginPositionMF_04078192) - 1) AS ?thisPositionOn60) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078189, 1, (STRLEN(?templateMotifCigarP04601MF_04078189) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078189, CONCAT('^(?:-*[^-]){', STR(((180 - ?templateMotifSequenceMatchBeginPositionP04601190) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1203) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078191, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078191) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078191, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1203), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078191, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078191) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078191, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1203), '}'), '')))), '[^-]', ''))) AS ?step2204) .
BIND(((?step2204 + ?targetMotifMatchRegionMatchBeginPositionMF_04078192) - 1) AS ?thisPositionOn61) .
BIND(?this AS ?pfs1t205) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn60))) AS ?pfsb58) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn61))) AS ?pfse59) .
FILTER ((BOUND(?thisPositionOn60) && BOUND(?thisPositionOn61))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a57')) AS ?annotation57) .
BIND(?this AS ?pfs56) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch210 faldo:location ?templateMotifSequenceMatchRegionP04601211 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601213 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078206 .
?templateMotifSequenceMatchRegionP04601211 faldo:begin ?templateMotifSequenceMatchBeginP04601212 .
?templateMotifSequenceMatchBeginP04601212 faldo:position ?templateMotifSequenceMatchBeginPositionP04601207 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601213 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch214 faldo:location ?targetMotifMatchRegionMatch215 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078217 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078208 .
?targetMotifMatchRegionMatch215 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078216 .
?targetMotifMatchRegionMatchBeginMF_04078216 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078209 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078217 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(1 AS ?thisPositionOn66) .
BIND(?thisPositionOn66 AS ?thisPositionOn67) .
BIND(?this AS ?pfs1t218) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn66))) AS ?pfsb64) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn67))) AS ?pfse65) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn66, 1) = 'M')) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a63')) AS ?annotation63) .
BIND(?this AS ?pfs62) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch223 faldo:location ?templateMotifSequenceMatchRegionP04601224 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601226 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078219 .
?templateMotifSequenceMatchRegionP04601224 faldo:begin ?templateMotifSequenceMatchBeginP04601225 .
?templateMotifSequenceMatchBeginP04601225 faldo:position ?templateMotifSequenceMatchBeginPositionP04601220 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601226 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch227 faldo:location ?targetMotifMatchRegionMatch228 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078230 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078221 .
?targetMotifMatchRegionMatch228 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078229 .
?targetMotifMatchRegionMatchBeginMF_04078229 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078222 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078230 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078219, 1, (STRLEN(?templateMotifCigarP04601MF_04078219) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078219, CONCAT('^(?:-*[^-]){', STR(((72 - ?templateMotifSequenceMatchBeginPositionP04601220) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1231) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078221, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078221) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078221, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1231), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078221, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078221) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078221, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1231), '}'), '')))), '[^-]', ''))) AS ?step2232) .
BIND(((?step2232 + ?targetMotifMatchRegionMatchBeginPositionMF_04078222) - 1) AS ?thisPositionOn72) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078219, 1, (STRLEN(?templateMotifCigarP04601MF_04078219) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078219, CONCAT('^(?:-*[^-]){', STR(((75 - ?templateMotifSequenceMatchBeginPositionP04601220) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1233) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078221, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078221) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078221, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1233), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078221, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078221) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078221, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1233), '}'), '')))), '[^-]', ''))) AS ?step2234) .
BIND(((?step2234 + ?targetMotifMatchRegionMatchBeginPositionMF_04078222) - 1) AS ?thisPositionOn73) .
BIND(?this AS ?pfs1t235) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn72))) AS ?pfsb70) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn73))) AS ?pfse71) .
FILTER (REGEX('P[ARNDCQEGHILKMFPSTWYVBZJUOX]{2)P', SUBSTR(?thisSequenceValue, ?thisPositionOn72, (?thisPositionOn73 - ?thisPositionOn72)))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a69')) AS ?annotation69) .
BIND(?this AS ?pfs68) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch240 faldo:location ?templateMotifSequenceMatchRegionP04601241 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601243 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078236 .
?templateMotifSequenceMatchRegionP04601241 faldo:begin ?templateMotifSequenceMatchBeginP04601242 .
?templateMotifSequenceMatchBeginP04601242 faldo:position ?templateMotifSequenceMatchBeginPositionP04601237 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601243 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch244 faldo:location ?targetMotifMatchRegionMatch245 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078247 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078238 .
?targetMotifMatchRegionMatch245 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078246 .
?targetMotifMatchRegionMatchBeginMF_04078246 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078239 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078247 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078236, 1, (STRLEN(?templateMotifCigarP04601MF_04078236) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078236, CONCAT('^(?:-*[^-]){', STR(((164 - ?templateMotifSequenceMatchBeginPositionP04601237) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1248) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078238, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078238) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078238, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1248), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078238, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078238) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078238, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1248), '}'), '')))), '[^-]', ''))) AS ?step2249) .
BIND(((?step2249 + ?targetMotifMatchRegionMatchBeginPositionMF_04078239) - 1) AS ?thisPositionOn78) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078236, 1, (STRLEN(?templateMotifCigarP04601MF_04078236) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078236, CONCAT('^(?:-*[^-]){', STR(((165 - ?templateMotifSequenceMatchBeginPositionP04601237) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1250) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078238, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078238) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078238, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1250), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078238, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078238) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078238, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1250), '}'), '')))), '[^-]', ''))) AS ?step2251) .
BIND(((?step2251 + ?targetMotifMatchRegionMatchBeginPositionMF_04078239) - 1) AS ?thisPositionOn79) .
BIND(?this AS ?pfs1t252) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn78))) AS ?pfsb76) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn79))) AS ?pfse77) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn78, (?thisPositionOn79 - ?thisPositionOn78)) = 'LL')) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a75')) AS ?annotation75) .
BIND(?this AS ?pfs74) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch257 faldo:location ?templateMotifSequenceMatchRegionP04601258 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601260 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078253 .
?templateMotifSequenceMatchRegionP04601258 faldo:begin ?templateMotifSequenceMatchBeginP04601259 .
?templateMotifSequenceMatchBeginP04601259 faldo:position ?templateMotifSequenceMatchBeginPositionP04601254 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601260 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch261 faldo:location ?targetMotifMatchRegionMatch262 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078264 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078255 .
?targetMotifMatchRegionMatch262 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078263 .
?targetMotifMatchRegionMatchBeginMF_04078263 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078256 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078264 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078253, 1, (STRLEN(?templateMotifCigarP04601MF_04078253) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078253, CONCAT('^(?:-*[^-]){', STR(((174 - ?templateMotifSequenceMatchBeginPositionP04601254) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1265) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078255, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078255) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078255, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1265), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078255, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078255) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078255, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1265), '}'), '')))), '[^-]', ''))) AS ?step2266) .
BIND(((?step2266 + ?targetMotifMatchRegionMatchBeginPositionMF_04078256) - 1) AS ?thisPositionOn84) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078253, 1, (STRLEN(?templateMotifCigarP04601MF_04078253) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078253, CONCAT('^(?:-*[^-]){', STR(((175 - ?templateMotifSequenceMatchBeginPositionP04601254) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1267) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078255, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078255) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078255, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1267), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078255, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078255) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078255, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1267), '}'), '')))), '[^-]', ''))) AS ?step2268) .
BIND(((?step2268 + ?targetMotifMatchRegionMatchBeginPositionMF_04078256) - 1) AS ?thisPositionOn85) .
BIND(?this AS ?pfs1t269) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn84))) AS ?pfsb82) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn85))) AS ?pfse83) .
FILTER (REGEX('[ED]D', SUBSTR(?thisSequenceValue, ?thisPositionOn84, (?thisPositionOn85 - ?thisPositionOn84)))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a81')) AS ?annotation81) .
BIND(?this AS ?pfs80) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch274 faldo:location ?templateMotifSequenceMatchRegionP04601275 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601277 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078270 .
?templateMotifSequenceMatchRegionP04601275 faldo:begin ?templateMotifSequenceMatchBeginP04601276 .
?templateMotifSequenceMatchBeginP04601276 faldo:position ?templateMotifSequenceMatchBeginPositionP04601271 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601277 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch278 faldo:location ?targetMotifMatchRegionMatch279 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078281 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078272 .
?targetMotifMatchRegionMatch279 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078280 .
?targetMotifMatchRegionMatchBeginMF_04078280 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078273 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078281 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078270, 1, (STRLEN(?templateMotifCigarP04601MF_04078270) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078270, CONCAT('^(?:-*[^-]){', STR(((20 - ?templateMotifSequenceMatchBeginPositionP04601271) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1282) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078272, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078272) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078272, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1282), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078272, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078272) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078272, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1282), '}'), '')))), '[^-]', ''))) AS ?step2283) .
BIND(((?step2283 + ?targetMotifMatchRegionMatchBeginPositionMF_04078273) - 1) AS ?thisPositionOn90) .
BIND(?thisPositionOn90 AS ?thisPositionOn91) .
BIND(?this AS ?pfs1t284) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn90))) AS ?pfsb88) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn91))) AS ?pfse89) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn90, 1) = 'M')) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a87')) AS ?annotation87) .
BIND(?this AS ?pfs86) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch289 faldo:location ?templateMotifSequenceMatchRegionP04601290 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601292 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078285 .
?templateMotifSequenceMatchRegionP04601290 faldo:begin ?templateMotifSequenceMatchBeginP04601291 .
?templateMotifSequenceMatchBeginP04601291 faldo:position ?templateMotifSequenceMatchBeginPositionP04601286 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601292 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch293 faldo:location ?targetMotifMatchRegionMatch294 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078296 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078287 .
?targetMotifMatchRegionMatch294 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078295 .
?targetMotifMatchRegionMatchBeginMF_04078295 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078288 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078296 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078285, 1, (STRLEN(?templateMotifCigarP04601MF_04078285) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078285, CONCAT('^(?:-*[^-]){', STR(((57 - ?templateMotifSequenceMatchBeginPositionP04601286) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1297) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078287, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078287) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078287, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1297), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078287, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078287) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078287, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1297), '}'), '')))), '[^-]', ''))) AS ?step2298) .
BIND(((?step2298 + ?targetMotifMatchRegionMatchBeginPositionMF_04078288) - 1) AS ?thisPositionOn96) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078285, 1, (STRLEN(?templateMotifCigarP04601MF_04078285) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078285, CONCAT('^(?:-*[^-]){', STR(((58 - ?templateMotifSequenceMatchBeginPositionP04601286) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1299) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078287, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078287) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078287, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1299), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078287, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078287) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078287, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1299), '}'), '')))), '[^-]', ''))) AS ?step2300) .
BIND(((?step2300 + ?targetMotifMatchRegionMatchBeginPositionMF_04078288) - 1) AS ?thisPositionOn97) .
BIND(?this AS ?pfs1t301) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn96))) AS ?pfsb94) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn97))) AS ?pfse95) .
FILTER (REGEX('[FW]L', SUBSTR(?thisSequenceValue, ?thisPositionOn96, (?thisPositionOn97 - ?thisPositionOn96)))) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a93')) AS ?annotation93) .
BIND(?this AS ?pfs92) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch306 faldo:location ?templateMotifSequenceMatchRegionP04601307 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601309 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078302 .
?templateMotifSequenceMatchRegionP04601307 faldo:begin ?templateMotifSequenceMatchBeginP04601308 .
?templateMotifSequenceMatchBeginP04601308 faldo:position ?templateMotifSequenceMatchBeginPositionP04601303 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601309 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch310 faldo:location ?targetMotifMatchRegionMatch311 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078313 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078304 .
?targetMotifMatchRegionMatch311 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078312 .
?targetMotifMatchRegionMatchBeginMF_04078312 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078305 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078313 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078302, 1, (STRLEN(?templateMotifCigarP04601MF_04078302) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078302, CONCAT('^(?:-*[^-]){', STR(((6 - ?templateMotifSequenceMatchBeginPositionP04601303) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1314) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078304, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078304) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078304, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1314), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078304, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078304) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078304, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1314), '}'), '')))), '[^-]', ''))) AS ?step2315) .
BIND(((?step2315 + ?targetMotifMatchRegionMatchBeginPositionMF_04078305) - 1) AS ?thisPositionOn102) .
BIND(?thisPositionOn102 AS ?thisPositionOn103) .
BIND(?this AS ?pfs1t316) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn102))) AS ?pfsb100) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn103))) AS ?pfse101) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn102, 1) = 'S')) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a99')) AS ?annotation99) .
BIND(?this AS ?pfs98) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch321 faldo:location ?templateMotifSequenceMatchRegionP04601322 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP04601324 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP04601MF_04078317 .
?templateMotifSequenceMatchRegionP04601322 faldo:begin ?templateMotifSequenceMatchBeginP04601323 .
?templateMotifSequenceMatchBeginP04601323 faldo:position ?templateMotifSequenceMatchBeginPositionP04601318 ;
faldo:reference isoform:P04601-1 .
?templateMotifSequenceProfileAlignmentOperationP04601324 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
?targetMotifMatch325 faldo:location ?targetMotifMatchRegionMatch326 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_04078328 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP04601MF_04078319 .
?targetMotifMatchRegionMatch326 faldo:begin ?targetMotifMatchRegionMatchBeginMF_04078327 .
?targetMotifMatchRegionMatchBeginMF_04078327 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_04078320 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_04078328 edam:has_input signature:MF_04078 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP04601MF_04078317, 1, (STRLEN(?templateMotifCigarP04601MF_04078317) - STRLEN(REPLACE(?templateMotifCigarP04601MF_04078317, CONCAT('^(?:-*[^-]){', STR(((2 - ?templateMotifSequenceMatchBeginPositionP04601318) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1329) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP04601MF_04078319, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078319) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078319, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1329), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP04601MF_04078319, 1, (STRLEN(?targetMotifMatchCigarP04601MF_04078319) - STRLEN(REPLACE(?targetMotifMatchCigarP04601MF_04078319, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1329), '}'), '')))), '[^-]', ''))) AS ?step2330) .
BIND(((?step2330 + ?targetMotifMatchRegionMatchBeginPositionMF_04078320) - 1) AS ?thisPositionOn108) .
BIND(?thisPositionOn108 AS ?thisPositionOn109) .
BIND(?this AS ?pfs1t331) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn108))) AS ?pfsb106) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn109))) AS ?pfse107) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn108, 1) = 'G')) .
BIND(URI(CONCAT(STR(?this), '#MF_04078a105')) AS ?annotation105) .
BIND(?this AS ?pfs104) .
}
}
"xsd:string |
